From 7a8045b247c6d2b47c506d6dc003f8e5f44e85fa Mon Sep 17 00:00:00 2001 From: andreavs Date: Wed, 25 Apr 2018 17:54:13 -0700 Subject: [PATCH 01/28] work on revamping setup.py --- CMakeLists.txt | 8 +- MANIFEST.in | 9 +- requirements.py | 126 +++++++++++++-------------- setup.py | 226 ++++++++++++++++++++++++++++++++---------------- 4 files changed, 227 insertions(+), 142 deletions(-) diff --git a/CMakeLists.txt b/CMakeLists.txt index a8ad53f96..ba1a246e8 100644 --- a/CMakeLists.txt +++ b/CMakeLists.txt @@ -163,7 +163,7 @@ set(SOURCE_FILES src/wall_util.c src/wall_util.h) -link_directories(${CMAKE_BINARY_DIR}/lib) +link_directories(${CMAKE_SOURCE_DIR}/lib) if (UNIX) SET(CMAKE_INSTALL_RPATH "$ORIGIN/./lib") SET(CMAKE_BUILD_WITH_INSTALL_RPATH TRUE) @@ -284,9 +284,9 @@ TARGET_COMPILE_DEFINITIONS(mcell PRIVATE NOSWIG=1) #target_link_libraries(libmcell_test ${M_LIB}) # build nfsim and nfsimCInterface before trying to build MCell -add_custom_target( - build_nfsim - COMMAND python ${CMAKE_SOURCE_DIR}/requirements.py) +# add_custom_target( +# build_nfsim +# COMMAND python ${CMAKE_SOURCE_DIR}/requirements.py) add_dependencies(mcell build_nfsim) add_dependencies(_pymcell build_nfsim) add_dependencies(mcell version_h) diff --git a/MANIFEST.in b/MANIFEST.in index 97f954c84..70c13c4ed 100644 --- a/MANIFEST.in +++ b/MANIFEST.in @@ -1,4 +1,11 @@ recursive-include src *.c *.h *.i *.py recursive-include appveyor_windows *.h -recursive-include include *.h +recursive-include include *.h + +# make sure to grad everything +recursive-include nfsim * +recursive-include nfsimCInterface * +recursive-include bionetgen + +global-include CMakeLists.txt *.cmake include *.py diff --git a/requirements.py b/requirements.py index 06a9a9495..4bccf50b7 100644 --- a/requirements.py +++ b/requirements.py @@ -3,66 +3,66 @@ import shutil import sys - -def nfsim(): - os.chdir('nfsim') - - try: - os.mkdir('lib') - except OSError: - pass - os.chdir('lib') - subprocess.call(['cmake', '..']) - subprocess.call(['make']) - os.chdir('..') - os.chdir('..') - - -def nfsim_lib(): - os.chdir('nfsimCInterface') - - try: - os.mkdir('lib') - except OSError: - pass - - os.chdir('lib') - extension = "so" - if (sys.platform == 'darwin'): - extension = "dylib" - subprocess.call(['ln', '-s', os.path.join('..', '..', 'nfsim', 'lib', 'libNFsim.{0}'.format(extension))]) - os.chdir('..') - - subprocess.call(['ln', '-s', os.path.join('..', 'nfsim', 'include')]) - - try: - os.mkdir('build') - except OSError: - pass - os.chdir('build') - subprocess.call(['cmake', '..']) - subprocess.call(['make']) - os.chdir('..') - os.chdir('..') - - -def copy_library_files(): - try: - os.mkdir('build/lib') - except OSError: - pass - os.chdir('build/lib') - extension = "so" - if (sys.platform == 'darwin'): - extension = "dylib" - shutil.copy(os.path.join('..', '..', 'nfsim', 'lib', 'libNFsim.{0}'.format(extension)), ".") - shutil.copy(os.path.join('..', '..', 'nfsimCInterface', 'build', 'libnfsim_c.{0}'.format(extension)), ".") - - -if __name__ == "__main__": - subprocess.call(['git', 'submodule', 'init']) - subprocess.call(['git', 'submodule', 'update']) - os.chdir("..") - nfsim() - nfsim_lib() - copy_library_files() +# +# def nfsim(): +# os.chdir('nfsim') +# +# try: +# os.mkdir('lib') +# except OSError: +# pass +# os.chdir('lib') +# subprocess.call(['cmake', '..']) +# subprocess.call(['make']) +# os.chdir('..') +# os.chdir('..') +# +# +# def nfsim_lib(): +# os.chdir('nfsimCInterface') +# +# try: +# os.mkdir('lib') +# except OSError: +# pass +# +# os.chdir('lib') +# extension = "so" +# if (sys.platform == 'darwin'): +# extension = "dylib" +# subprocess.call(['ln', '-s', os.path.join('..', '..', 'nfsim', 'lib', 'libNFsim.{0}'.format(extension))]) +# os.chdir('..') +# +# subprocess.call(['ln', '-s', os.path.join('..', 'nfsim', 'include')]) +# +# try: +# os.mkdir('build') +# except OSError: +# pass +# os.chdir('build') +# subprocess.call(['cmake', '..']) +# subprocess.call(['make']) +# os.chdir('..') +# os.chdir('..') +# +# +# def copy_library_files(): +# try: +# os.mkdir('build/lib') +# except OSError: +# pass +# os.chdir('build/lib') +# extension = "so" +# if (sys.platform == 'darwin'): +# extension = "dylib" +# shutil.copy(os.path.join('..', '..', 'nfsim', 'lib', 'libNFsim.{0}'.format(extension)), ".") +# shutil.copy(os.path.join('..', '..', 'nfsimCInterface', 'build', 'libnfsim_c.{0}'.format(extension)), ".") +# +# +# if __name__ == "__main__": +# subprocess.call(['git', 'submodule', 'init']) +# subprocess.call(['git', 'submodule', 'update']) +# os.chdir("..") +# nfsim() +# nfsim_lib() +# copy_library_files() diff --git a/setup.py b/setup.py index 062844286..36606894d 100644 --- a/setup.py +++ b/setup.py @@ -9,109 +9,187 @@ setup.py file for pyMCell """ -from distutils.core import setup, Extension -from distutils.command.build import build -from distutils.command.sdist import sdist -import os import shutil +import os +import re import sys +import platform +import subprocess +from setuptools import setup, Extension, find_packages +from distutils.command.build import build +from distutils.command.sdist import sdist +from distutils.version import LooseVersion +from setuptools.command.build_ext import build_ext + +# def disallow_python2(): +# if sys.version_info[0] == 2: +# sys.exit("Sorry, Python 2 is not supported.") + +# Code for cmake extensions from (c45488d on Jun 10, 2016), with minor +# modifications: +# https://github.com/pybind/cmake_example/blob/master/setup.py + +class CMakeExtension(Extension): + def __init__(self, name, sourcedir='', extra_cxx_flags=[], *args, **kw): + Extension.__init__(self, name, sources=[], *args, **kw) + self.sourcedir = os.path.abspath(sourcedir) + self.extra_cxx_flags = extra_cxx_flags + + +class CMakeBuild(build_ext): + def __init__(self, dist, *args, **kw): + build_ext.__init__(self, dist, *args, **kw) + def run(self): + try: + out = subprocess.check_output(['cmake', '--version']) + except OSError: + raise RuntimeError("CMake must be installed to build the following extensions: " + + ", ".join(e.name for e in self.extensions)) + + if platform.system() == "Windows": + cmake_version = LooseVersion(re.search(r'version\s*([\d.]+)', out.decode()).group(1)) + if cmake_version < '3.1.0': + raise RuntimeError("CMake >= 3.1.0 is required on Windows") + + subprocess.call(['ln', '-s', self.build_lib, 'lib']) + + os.chdir('nfsimCInterface') + subprocess.call(['ln', '-s', os.path.join('..', self.build_lib), 'lib']) + subprocess.call(['ln', '-s', os.path.join('..', 'nfsim', 'include')]) + os.chdir('..') + + for ext in self.extensions: + self.build_extension(ext) + + def build_extension(self, ext): + print("building", ext.name) + extdir = os.path.abspath(os.path.dirname(self.get_ext_fullpath(ext.name))) + cmake_args = ['-DCMAKE_LIBRARY_OUTPUT_DIRECTORY=' + extdir, + '-DPYTHON_EXECUTABLE=' + sys.executable] -def disallow_python2(): - if sys.version_info[0] == 2: - sys.exit("Sorry, Python 2 is not supported.") + cfg = 'Debug' if self.debug else 'Release' + build_args = ['--config', cfg] + if platform.system() == "Windows": + cmake_args += ['-DCMAKE_LIBRARY_OUTPUT_DIRECTORY_{}={}'.format(cfg.upper(), extdir)] + if sys.maxsize > 2**32: + cmake_args += ['-A', 'x64'] + build_args += ['--', '/m'] + else: + cmake_args += ['-DCMAKE_BUILD_TYPE=' + cfg] + build_args += ['--', '-j2'] + + env = os.environ.copy() + env['CXXFLAGS'] = '{} -DVERSION_INFO=\\"{}\\"'.format(env.get('CXXFLAGS', ''), + self.distribution.get_version()) + + if not os.path.exists(self.build_temp): + os.makedirs(self.build_temp) + + self.build_temp_lib = self.build_temp + '/' + ext.name + if not os.path.exists(self.build_temp_lib): + os.makedirs(self.build_temp_lib) + + subprocess.check_call(['cmake', ext.sourcedir] + cmake_args, cwd=self.build_temp_lib, env=env) + subprocess.check_call(['cmake', '--build', '.'] + build_args, cwd=self.build_temp_lib) class CustomBuild(build): def run(self): - disallow_python2() - os.system("mkdir build") - shutil.copy("./requirements.py", "./build") - os.system("cd build; python requirements.py; cd ..") + # TODO: some of these lines can be trimmed down eventually + if not os.path.exists("build"): + os.makedirs("build") shutil.copy("./appveyor_windows/config.h", "./src") shutil.copy("./appveyor_windows/version.h", "./src") shutil.copy("./src/pymcell_helpers.py", ".") shutil.copy("./src/data_model_import.py", ".") + self.run_command('build_ext') shutil.copy("./src/pymcell.py", ".") build.run(self) + print("ran successfully!") class CustomSDist(sdist): def run(self): - disallow_python2() + # disallow_python2() sdist.run(self) +# mcell_module = Extension( +# '_pymcell', +# include_dirs=['./include'], +# libraries=['nfsim_c', 'NFsim'], +# library_dirs=['./build/lib'], +# sources=[ +# './src/argparse.c', +# './src/chkpt.c', +# './src/count_util.c', +# './src/diffuse.c', +# './src/diffuse_trimol.c', +# './src/diffuse_util.c', +# './src/dyngeom.c', +# './src/dyngeom_lex.c', +# './src/dyngeom_parse_extras.c', +# './src/dyngeom_yacc.c', +# './src/grid_util.c', +# './src/hashmap.c', +# './src/init.c', +# './src/isaac64.c', +# './src/logging.c', +# './src/mcell_dyngeom.c', +# './src/mcell_init.c', +# './src/mcell_misc.c', +# './src/mcell_objects.c', +# './src/mcell_react_out.c', +# './src/mcell_reactions.c', +# './src/mcell_release.c', +# './src/mcell_run.c', +# './src/mcell_species.c', +# './src/mcell_surfclass.c', +# './src/mcell_viz.c', +# './src/mem_util.c', +# './src/nfsim_func.c', +# './src/pymcell.i', +# './src/react_cond.c', +# './src/react_outc.c', +# './src/react_outc_nfsim.c', +# './src/react_outc_trimol.c', +# './src/react_output.c', +# './src/react_trig.c', +# './src/react_trig_nfsim.c', +# './src/react_util.c', +# './src/react_util_nfsim.c', +# './src/rng.c', +# './src/sched_util.c', +# './src/strfunc.c', +# './src/sym_table.c', +# './src/triangle_overlap.c', +# './src/util.c', +# './src/vector.c', +# './src/version_info.c', +# './src/viz_output.c', +# './src/vol_util.c', +# './src/volume_output.c', +# './src/wall_util.c', +# ], +# swig_opts=['-ltypemaps', '-py3'], +# extra_compile_args=['-O2']) -mcell_module = Extension( - '_pymcell', - include_dirs=['./include'], - libraries=['nfsim_c', 'NFsim'], - library_dirs=['./build/lib'], - sources=[ - './src/argparse.c', - './src/chkpt.c', - './src/count_util.c', - './src/diffuse.c', - './src/diffuse_trimol.c', - './src/diffuse_util.c', - './src/dyngeom.c', - './src/dyngeom_lex.c', - './src/dyngeom_parse_extras.c', - './src/dyngeom_yacc.c', - './src/grid_util.c', - './src/hashmap.c', - './src/init.c', - './src/isaac64.c', - './src/logging.c', - './src/mcell_dyngeom.c', - './src/mcell_init.c', - './src/mcell_misc.c', - './src/mcell_objects.c', - './src/mcell_react_out.c', - './src/mcell_reactions.c', - './src/mcell_release.c', - './src/mcell_run.c', - './src/mcell_species.c', - './src/mcell_surfclass.c', - './src/mcell_viz.c', - './src/mem_util.c', - './src/nfsim_func.c', - './src/pymcell.i', - './src/react_cond.c', - './src/react_outc.c', - './src/react_outc_nfsim.c', - './src/react_outc_trimol.c', - './src/react_output.c', - './src/react_trig.c', - './src/react_trig_nfsim.c', - './src/react_util.c', - './src/react_util_nfsim.c', - './src/rng.c', - './src/sched_util.c', - './src/strfunc.c', - './src/sym_table.c', - './src/triangle_overlap.c', - './src/util.c', - './src/vector.c', - './src/version_info.c', - './src/viz_output.c', - './src/vol_util.c', - './src/volume_output.c', - './src/wall_util.c', - ], - swig_opts=['-ltypemaps', '-py3'], - extra_compile_args=['-O2']) +ext_modules = [CMakeExtension('nfsim', sourcedir='nfsim'), + CMakeExtension('nfsimCInterface', sourcedir='nfsimCInterface'), + CMakeExtension('_pymcell')] setup(name='pymcell', + py_modules=['pymcell'], version='0.1', author="The MCell team", + python_requires='>=3', description="""Python bindings to libmcell""", author_email="mcell-devel@salk.edu", url="https://github.com/mcellteam/mcell", download_url="https://github.com/mcellteam/mcell/archive/pymcell_0.1.tar.gz", - ext_modules=[mcell_module], + ext_modules=ext_modules, license='GPL v2', - py_modules=["pymcell"], - cmdclass={'build': CustomBuild, 'sdist': CustomSDist}, + packages=find_packages(), + cmdclass={'build_ext': CMakeBuild, 'build': CustomBuild, 'sdist': CustomSDist}, ) From d721a2019492e37cf6c5f9d00363e8dd46af48db Mon Sep 17 00:00:00 2001 From: andreavs Date: Wed, 25 Apr 2018 18:55:17 -0700 Subject: [PATCH 02/28] work on revamping setup.py --- CMakeLists.txt | 15 ++++++++++++--- setup.py | 11 +++++------ 2 files changed, 17 insertions(+), 9 deletions(-) diff --git a/CMakeLists.txt b/CMakeLists.txt index ba1a246e8..68378a5d5 100644 --- a/CMakeLists.txt +++ b/CMakeLists.txt @@ -22,6 +22,10 @@ elseif (WIN32) ${CMAKE_CURRENT_BINARY_DIR}/deps/config.h) endif() +message("message to display balle") +asdas + + # check for bison/flex and set up code gen find_package(BISON) find_package(FLEX) @@ -36,6 +40,8 @@ if (NOT SED_TOOL) message( FATAL_ERROR "sed not found" ) endif (NOT SED_TOOL) + + add_custom_command( OUTPUT ${CMAKE_CURRENT_BINARY_DIR}/deps/mdllex.l COMMAND ${SED_TOOL} -e "/^%option outfile/ d" ${CMAKE_SOURCE_DIR}/src/mdllex.l > ${CMAKE_CURRENT_BINARY_DIR}/deps/mdllex.l @@ -284,10 +290,13 @@ TARGET_COMPILE_DEFINITIONS(mcell PRIVATE NOSWIG=1) #target_link_libraries(libmcell_test ${M_LIB}) # build nfsim and nfsimCInterface before trying to build MCell -# add_custom_target( -# build_nfsim -# COMMAND python ${CMAKE_SOURCE_DIR}/requirements.py) +add_custom_target( + build_nfsim + COMMAND python ${CMAKE_SOURCE_DIR}/requirements.py) add_dependencies(mcell build_nfsim) +message("message to display") add_dependencies(_pymcell build_nfsim) +message("message to display1") add_dependencies(mcell version_h) +message("message to display2") add_dependencies(_pymcell version_h) diff --git a/setup.py b/setup.py index 36606894d..f9d942a80 100644 --- a/setup.py +++ b/setup.py @@ -30,10 +30,9 @@ # https://github.com/pybind/cmake_example/blob/master/setup.py class CMakeExtension(Extension): - def __init__(self, name, sourcedir='', extra_cxx_flags=[], *args, **kw): - Extension.__init__(self, name, sources=[], *args, **kw) + def __init__(self, name, sourcedir='', sources=[], *args, **kw): + Extension.__init__(self, name, sources=sources, *args, **kw) self.sourcedir = os.path.abspath(sourcedir) - self.extra_cxx_flags = extra_cxx_flags class CMakeBuild(build_ext): @@ -62,6 +61,8 @@ def run(self): for ext in self.extensions: self.build_extension(ext) + + def build_extension(self, ext): print("building", ext.name) extdir = os.path.abspath(os.path.dirname(self.get_ext_fullpath(ext.name))) @@ -107,15 +108,13 @@ def run(self): self.run_command('build_ext') shutil.copy("./src/pymcell.py", ".") build.run(self) - print("ran successfully!") - class CustomSDist(sdist): def run(self): # disallow_python2() sdist.run(self) -# mcell_module = Extension( +# mcell_module = CMakeExtension( # '_pymcell', # include_dirs=['./include'], # libraries=['nfsim_c', 'NFsim'], From 368336a0739311ac0cb572dfa354ce28dd435241 Mon Sep 17 00:00:00 2001 From: andreavs Date: Wed, 25 Apr 2018 23:44:50 -0700 Subject: [PATCH 03/28] moved some files --- CMakeLists.txt | 14 +- {src => mcell}/AUTHORS | 0 {src => mcell}/COPYING | 0 {src => mcell}/ChangeLog | 0 {src => mcell}/Changelog.md | 0 {src => mcell}/DGMakefile | 0 {src => mcell}/INSTALL | 0 {src => mcell}/Makefile.am | 0 {src => mcell}/NEWS | 0 {src => mcell}/README | 0 {src => mcell}/__init__.py | 0 {src => mcell}/argparse.c | 0 {src => mcell}/argparse.h | 0 {src => mcell}/bootstrap | 0 {src => mcell}/chkpt.c | 0 {src => mcell}/chkpt.h | 0 {src => mcell}/config-nix.h | 0 {src => mcell}/config-win.h | 0 mcell/config.h | 301 + {src => mcell}/configure.ac | 0 {src => mcell}/count_util.c | 0 {src => mcell}/count_util.h | 0 {src => mcell}/data_model_import.py | 0 {src => mcell}/diffuse.c | 0 {src => mcell}/diffuse.h | 0 {src => mcell}/diffuse_trimol.c | 0 {src => mcell}/diffuse_util.c | 0 {src => mcell}/diffuse_util.h | 0 {src => mcell}/dyngeom.c | 0 {src => mcell}/dyngeom.h | 0 {src => mcell}/dyngeom_lex.c | 0 {src => mcell}/dyngeom_lex.l | 0 {src => mcell}/dyngeom_parse.y | 0 {src => mcell}/dyngeom_parse_extras.c | 0 {src => mcell}/dyngeom_parse_extras.h | 0 {src => mcell}/dyngeom_yacc.c | 0 {src => mcell}/dyngeom_yacc.h | 0 {src => mcell}/grid_util.c | 0 {src => mcell}/grid_util.h | 0 {src => mcell}/hashmap.c | 0 {src => mcell}/hashmap.h | 0 {src => mcell}/init.c | 0 {src => mcell}/init.h | 0 {src => mcell}/isaac64.c | 0 {src => mcell}/isaac64.h | 0 {src => mcell}/libmcell_test.c | 0 {src => mcell}/logging.c | 0 {src => mcell}/logging.h | 0 {src => mcell}/mcell.c | 0 {src => mcell}/mcell_dyngeom.c | 0 {src => mcell}/mcell_dyngeom.h | 0 {src => mcell}/mcell_dyngeom.i | 0 {src => mcell}/mcell_init.c | 0 {src => mcell}/mcell_init.h | 0 {src => mcell}/mcell_init.i | 0 {src => mcell}/mcell_misc.c | 0 {src => mcell}/mcell_misc.h | 0 {src => mcell}/mcell_misc.i | 0 {src => mcell}/mcell_objects.c | 0 {src => mcell}/mcell_objects.h | 0 {src => mcell}/mcell_objects.i | 0 {src => mcell}/mcell_react_out.c | 0 {src => mcell}/mcell_react_out.h | 0 {src => mcell}/mcell_react_out.i | 0 {src => mcell}/mcell_reactions.c | 0 {src => mcell}/mcell_reactions.h | 0 {src => mcell}/mcell_reactions.i | 0 {src => mcell}/mcell_release.c | 0 {src => mcell}/mcell_release.h | 0 {src => mcell}/mcell_release.i | 0 {src => mcell}/mcell_run.c | 0 {src => mcell}/mcell_run.h | 0 {src => mcell}/mcell_run.i | 0 {src => mcell}/mcell_species.c | 0 {src => mcell}/mcell_species.h | 0 {src => mcell}/mcell_species.i | 0 {src => mcell}/mcell_structs.h | 0 {src => mcell}/mcell_structs.i | 0 {src => mcell}/mcell_surfclass.c | 0 {src => mcell}/mcell_surfclass.h | 0 {src => mcell}/mcell_surfclass.i | 0 {src => mcell}/mcell_viz.c | 0 {src => mcell}/mcell_viz.h | 0 {src => mcell}/mcell_viz.i | 0 {src => mcell}/mdllex.l | 0 {src => mcell}/mdlparse.y | 0 {src => mcell}/mdlparse_aux.h | 0 {src => mcell}/mdlparse_util.c | 0 {src => mcell}/mdlparse_util.h | 0 {src => mcell}/mem_util.c | 0 {src => mcell}/mem_util.h | 0 {src => mcell}/minrng.c | 0 {src => mcell}/minrng.h | 0 {src => mcell}/nfsim_func.c | 0 {src => mcell}/nfsim_func.h | 0 {src => mcell}/pymcell.i | 0 mcell/pymcell.py | 3107 +++ {src => mcell}/pymcell_examples/box.py | 0 .../pymcell_examples/lipidraft.json | 0 {src => mcell}/pymcell_examples/lipidraft.txt | Bin .../pymcell_examples/pymcell_test.ipynb | 0 {src => mcell}/pymcell_examples/test.json | 0 {src => mcell}/pymcell_examples/test_api.py | 0 {src => mcell}/pymcell_examples/test_bool.py | 0 .../pymcell_examples/test_dm_read.py | 0 .../test_mcell_neuron_python.py | 0 .../pymcell_examples/test_release_list.py | 0 .../pymcell_examples/test_release_pattern.py | 0 {src => mcell}/pymcell_examples/torus.py | 0 {src => mcell}/pymcell_helpers.py | 0 {src => mcell}/pymcell_unittests.py | 0 mcell/pymcell_wrap.c | 17775 ++++++++++++++++ {src => mcell}/react.h | 0 {src => mcell}/react_cond.c | 0 {src => mcell}/react_nfsim.h | 0 {src => mcell}/react_outc.c | 0 {src => mcell}/react_outc_nfsim.c | 0 {src => mcell}/react_outc_trimol.c | 0 {src => mcell}/react_output.c | 0 {src => mcell}/react_output.h | 0 {src => mcell}/react_trig.c | 0 {src => mcell}/react_trig_nfsim.c | 0 {src => mcell}/react_util.c | 0 {src => mcell}/react_util.h | 0 {src => mcell}/react_util_nfsim.c | 0 {src => mcell}/rng.c | 0 {src => mcell}/rng.h | 0 {src => mcell}/rules_py/grammar_definition.py | 0 {src => mcell}/rules_py/mcell3r.py | 0 {src => mcell}/rules_py/mdlr2mdl.py | 0 {src => mcell}/rules_py/nfsim_python.py | 0 .../rules_py/postprocess_mcell3r.py | 0 {src => mcell}/rules_py/read_bngxml.py | 0 {src => mcell}/rules_py/read_mdl.py | 0 {src => mcell}/rules_py/small_structures.py | 0 {src => mcell}/rules_py/split_bngxml.py | 0 {src => mcell}/rules_py/write_bngxmle.py | 0 {src => mcell}/rules_py/write_mdl.py | 0 {src => mcell}/sched_util.c | 0 {src => mcell}/sched_util.h | 0 {src => mcell}/strfunc.c | 0 {src => mcell}/strfunc.h | 0 {src => mcell}/sym_table.c | 0 {src => mcell}/sym_table.h | 0 {src => mcell}/test_api.c | 0 {src => mcell}/test_api.h | 0 {src => mcell}/triangle_overlap.c | 0 {src => mcell}/triangle_overlap.h | 0 {src => mcell}/util.c | 0 {src => mcell}/util.h | 0 {src => mcell}/vector.c | 0 {src => mcell}/vector.h | 0 {src => mcell}/vector.i | 0 mcell/version.h | 41 + {src => mcell}/version.sh | 0 {src => mcell}/version.txt | 0 {src => mcell}/version_info.c | 0 {src => mcell}/version_info.h | 0 {src => mcell}/viz_output.c | 0 {src => mcell}/viz_output.h | 0 {src => mcell}/vol_util.c | 0 {src => mcell}/vol_util.h | 0 {src => mcell}/volume_output.c | 0 {src => mcell}/volume_output.h | 0 {src => mcell}/wall_util.c | 0 {src => mcell}/wall_util.h | 0 {src => mcell}/ylwrapfix | 0 setup.py | 15 +- 168 files changed, 21236 insertions(+), 17 deletions(-) rename {src => mcell}/AUTHORS (100%) rename {src => mcell}/COPYING (100%) rename {src => mcell}/ChangeLog (100%) rename {src => mcell}/Changelog.md (100%) rename {src => mcell}/DGMakefile (100%) rename {src => mcell}/INSTALL (100%) rename {src => mcell}/Makefile.am (100%) rename {src => mcell}/NEWS (100%) rename {src => mcell}/README (100%) rename {src => mcell}/__init__.py (100%) rename {src => mcell}/argparse.c (100%) rename {src => mcell}/argparse.h (100%) rename {src => mcell}/bootstrap (100%) rename {src => mcell}/chkpt.c (100%) rename {src => mcell}/chkpt.h (100%) rename {src => mcell}/config-nix.h (100%) rename {src => mcell}/config-win.h (100%) create mode 100644 mcell/config.h rename {src => mcell}/configure.ac (100%) rename {src => mcell}/count_util.c (100%) rename {src => mcell}/count_util.h (100%) rename {src => mcell}/data_model_import.py (100%) rename {src => mcell}/diffuse.c (100%) rename {src => mcell}/diffuse.h (100%) rename {src => mcell}/diffuse_trimol.c (100%) rename {src => mcell}/diffuse_util.c (100%) rename {src => mcell}/diffuse_util.h (100%) rename {src => mcell}/dyngeom.c (100%) rename {src => mcell}/dyngeom.h (100%) rename {src => mcell}/dyngeom_lex.c (100%) rename {src => mcell}/dyngeom_lex.l (100%) rename {src => mcell}/dyngeom_parse.y (100%) rename {src => mcell}/dyngeom_parse_extras.c (100%) rename {src => mcell}/dyngeom_parse_extras.h (100%) rename {src => mcell}/dyngeom_yacc.c (100%) rename {src => mcell}/dyngeom_yacc.h (100%) rename {src => mcell}/grid_util.c (100%) rename {src => mcell}/grid_util.h (100%) rename {src => mcell}/hashmap.c (100%) rename {src => mcell}/hashmap.h (100%) rename {src => mcell}/init.c (100%) rename {src => mcell}/init.h (100%) rename {src => mcell}/isaac64.c (100%) rename {src => mcell}/isaac64.h (100%) rename {src => mcell}/libmcell_test.c (100%) rename {src => mcell}/logging.c (100%) rename {src => mcell}/logging.h (100%) rename {src => mcell}/mcell.c (100%) rename {src => mcell}/mcell_dyngeom.c (100%) rename {src => mcell}/mcell_dyngeom.h (100%) rename {src => mcell}/mcell_dyngeom.i (100%) rename {src => mcell}/mcell_init.c (100%) rename {src => mcell}/mcell_init.h (100%) rename {src => mcell}/mcell_init.i (100%) rename {src => mcell}/mcell_misc.c (100%) rename {src => mcell}/mcell_misc.h (100%) rename {src => mcell}/mcell_misc.i (100%) rename {src => mcell}/mcell_objects.c (100%) rename {src => mcell}/mcell_objects.h (100%) rename {src => mcell}/mcell_objects.i (100%) rename {src => mcell}/mcell_react_out.c (100%) rename {src => mcell}/mcell_react_out.h (100%) rename {src => mcell}/mcell_react_out.i (100%) rename {src => mcell}/mcell_reactions.c (100%) rename {src => mcell}/mcell_reactions.h (100%) rename {src => mcell}/mcell_reactions.i (100%) rename {src => mcell}/mcell_release.c (100%) rename {src => mcell}/mcell_release.h (100%) rename {src => mcell}/mcell_release.i (100%) rename {src => mcell}/mcell_run.c (100%) rename {src => mcell}/mcell_run.h (100%) rename {src => mcell}/mcell_run.i (100%) rename {src => mcell}/mcell_species.c (100%) rename {src => mcell}/mcell_species.h (100%) rename {src => mcell}/mcell_species.i (100%) rename {src => mcell}/mcell_structs.h (100%) rename {src => mcell}/mcell_structs.i (100%) rename {src => mcell}/mcell_surfclass.c (100%) rename {src => mcell}/mcell_surfclass.h (100%) rename {src => mcell}/mcell_surfclass.i (100%) rename {src => mcell}/mcell_viz.c (100%) rename {src => mcell}/mcell_viz.h (100%) rename {src => mcell}/mcell_viz.i (100%) rename {src => mcell}/mdllex.l (100%) rename {src => mcell}/mdlparse.y (100%) rename {src => mcell}/mdlparse_aux.h (100%) rename {src => mcell}/mdlparse_util.c (100%) rename {src => mcell}/mdlparse_util.h (100%) rename {src => mcell}/mem_util.c (100%) rename {src => mcell}/mem_util.h (100%) rename {src => mcell}/minrng.c (100%) rename {src => mcell}/minrng.h (100%) rename {src => mcell}/nfsim_func.c (100%) rename {src => mcell}/nfsim_func.h (100%) rename {src => mcell}/pymcell.i (100%) create mode 100644 mcell/pymcell.py rename {src => mcell}/pymcell_examples/box.py (100%) rename {src => mcell}/pymcell_examples/lipidraft.json (100%) rename {src => mcell}/pymcell_examples/lipidraft.txt (100%) rename {src => mcell}/pymcell_examples/pymcell_test.ipynb (100%) rename {src => mcell}/pymcell_examples/test.json (100%) rename {src => mcell}/pymcell_examples/test_api.py (100%) rename {src => mcell}/pymcell_examples/test_bool.py (100%) rename {src => mcell}/pymcell_examples/test_dm_read.py (100%) rename {src => mcell}/pymcell_examples/test_mcell_neuron_python.py (100%) rename {src => mcell}/pymcell_examples/test_release_list.py (100%) rename {src => mcell}/pymcell_examples/test_release_pattern.py (100%) rename {src => mcell}/pymcell_examples/torus.py (100%) rename {src => mcell}/pymcell_helpers.py (100%) rename {src => mcell}/pymcell_unittests.py (100%) create mode 100644 mcell/pymcell_wrap.c rename {src => mcell}/react.h (100%) rename {src => mcell}/react_cond.c (100%) rename {src => mcell}/react_nfsim.h (100%) rename {src => mcell}/react_outc.c (100%) rename {src => mcell}/react_outc_nfsim.c (100%) rename {src => mcell}/react_outc_trimol.c (100%) rename {src => mcell}/react_output.c (100%) rename {src => mcell}/react_output.h (100%) rename {src => mcell}/react_trig.c (100%) rename {src => mcell}/react_trig_nfsim.c (100%) rename {src => mcell}/react_util.c (100%) rename {src => mcell}/react_util.h (100%) rename {src => mcell}/react_util_nfsim.c (100%) rename {src => mcell}/rng.c (100%) rename {src => mcell}/rng.h (100%) rename {src => mcell}/rules_py/grammar_definition.py (100%) rename {src => mcell}/rules_py/mcell3r.py (100%) rename {src => mcell}/rules_py/mdlr2mdl.py (100%) rename {src => mcell}/rules_py/nfsim_python.py (100%) rename {src => mcell}/rules_py/postprocess_mcell3r.py (100%) rename {src => mcell}/rules_py/read_bngxml.py (100%) rename {src => mcell}/rules_py/read_mdl.py (100%) rename {src => mcell}/rules_py/small_structures.py (100%) rename {src => mcell}/rules_py/split_bngxml.py (100%) rename {src => mcell}/rules_py/write_bngxmle.py (100%) rename {src => mcell}/rules_py/write_mdl.py (100%) rename {src => mcell}/sched_util.c (100%) rename {src => mcell}/sched_util.h (100%) rename {src => mcell}/strfunc.c (100%) rename {src => mcell}/strfunc.h (100%) rename {src => mcell}/sym_table.c (100%) rename {src => mcell}/sym_table.h (100%) rename {src => mcell}/test_api.c (100%) rename {src => mcell}/test_api.h (100%) rename {src => mcell}/triangle_overlap.c (100%) rename {src => mcell}/triangle_overlap.h (100%) rename {src => mcell}/util.c (100%) rename {src => mcell}/util.h (100%) rename {src => mcell}/vector.c (100%) rename {src => mcell}/vector.h (100%) rename {src => mcell}/vector.i (100%) create mode 100644 mcell/version.h rename {src => mcell}/version.sh (100%) rename {src => mcell}/version.txt (100%) rename {src => mcell}/version_info.c (100%) rename {src => mcell}/version_info.h (100%) rename {src => mcell}/viz_output.c (100%) rename {src => mcell}/viz_output.h (100%) rename {src => mcell}/vol_util.c (100%) rename {src => mcell}/vol_util.h (100%) rename {src => mcell}/volume_output.c (100%) rename {src => mcell}/volume_output.h (100%) rename {src => mcell}/wall_util.c (100%) rename {src => mcell}/wall_util.h (100%) rename {src => mcell}/ylwrapfix (100%) diff --git a/CMakeLists.txt b/CMakeLists.txt index 68378a5d5..6967644fb 100644 --- a/CMakeLists.txt +++ b/CMakeLists.txt @@ -22,10 +22,6 @@ elseif (WIN32) ${CMAKE_CURRENT_BINARY_DIR}/deps/config.h) endif() -message("message to display balle") -asdas - - # check for bison/flex and set up code gen find_package(BISON) find_package(FLEX) @@ -243,9 +239,9 @@ SWIG_ADD_MODULE(pymcell python src/volume_output.c src/wall_util.c) if (APPLE) - SWIG_LINK_LIBRARIES(pymcell ${CMAKE_CURRENT_BINARY_DIR}/lib/libnfsim_c.dylib ${CMAKE_CURRENT_BINARY_DIR}/lib/libNFsim.dylib ${PYTHON_LIBRARIES}) + SWIG_LINK_LIBRARIES(pymcell ${CMAKE_SOURCE_DIR}/lib/libnfsim_c.dylib ${CMAKE_SOURCE_DIR}/lib/libNFsim.dylib ${PYTHON_LIBRARIES}) else() - SWIG_LINK_LIBRARIES(pymcell ${CMAKE_CURRENT_BINARY_DIR}/lib/libnfsim_c.so ${CMAKE_CURRENT_BINARY_DIR}/lib/libNFsim.so ${PYTHON_LIBRARIES}) + SWIG_LINK_LIBRARIES(pymcell ${CMAKE_SOURCE_DIR}/lib/libnfsim_c.so ${CMAKE_SOURCE_DIR}/lib/libNFsim.so ${PYTHON_LIBRARIES}) endif() # copy the pyMCell test scripts into place @@ -261,6 +257,7 @@ file(COPY ${CMAKE_SOURCE_DIR}/src/rules_py/ DESTINATION ${CMAKE_CURRENT_BINARY_D file(COPY ${CMAKE_SOURCE_DIR}/bionetgen/bng2/ DESTINATION ${CMAKE_CURRENT_BINARY_DIR}/bng2/) # build executable +link_directories(${CMAKE_SOURCE_DIR}/lib) add_executable(mcell ${SOURCE_FILES} src/mcell.c @@ -268,6 +265,8 @@ add_executable(mcell ${FLEX_mdlScanner_OUTPUTS}) target_link_libraries(mcell ${M_LIB} nfsim_c NFsim) + + #set(CMAKE_EXE_LINKER_FLAGS "${M_LIB} -static-libgcc -static-libstdc++") #add_executable(mcell_static @@ -294,9 +293,6 @@ add_custom_target( build_nfsim COMMAND python ${CMAKE_SOURCE_DIR}/requirements.py) add_dependencies(mcell build_nfsim) -message("message to display") add_dependencies(_pymcell build_nfsim) -message("message to display1") add_dependencies(mcell version_h) -message("message to display2") add_dependencies(_pymcell version_h) diff --git a/src/AUTHORS b/mcell/AUTHORS similarity index 100% rename from src/AUTHORS rename to mcell/AUTHORS diff --git a/src/COPYING b/mcell/COPYING similarity index 100% rename from src/COPYING rename to mcell/COPYING diff --git a/src/ChangeLog b/mcell/ChangeLog similarity index 100% rename from src/ChangeLog rename to mcell/ChangeLog diff --git a/src/Changelog.md b/mcell/Changelog.md similarity index 100% rename from src/Changelog.md rename to mcell/Changelog.md diff --git a/src/DGMakefile b/mcell/DGMakefile similarity index 100% rename from src/DGMakefile rename to mcell/DGMakefile diff --git a/src/INSTALL b/mcell/INSTALL similarity index 100% rename from src/INSTALL rename to mcell/INSTALL diff --git a/src/Makefile.am b/mcell/Makefile.am similarity index 100% rename from src/Makefile.am rename to mcell/Makefile.am diff --git a/src/NEWS b/mcell/NEWS similarity index 100% rename from src/NEWS rename to mcell/NEWS diff --git a/src/README b/mcell/README similarity index 100% rename from src/README rename to mcell/README diff --git a/src/__init__.py b/mcell/__init__.py similarity index 100% rename from src/__init__.py rename to mcell/__init__.py diff --git a/src/argparse.c b/mcell/argparse.c similarity index 100% rename from src/argparse.c rename to mcell/argparse.c diff --git a/src/argparse.h b/mcell/argparse.h similarity index 100% rename from src/argparse.h rename to mcell/argparse.h diff --git a/src/bootstrap b/mcell/bootstrap similarity index 100% rename from src/bootstrap rename to mcell/bootstrap diff --git a/src/chkpt.c b/mcell/chkpt.c similarity index 100% rename from src/chkpt.c rename to mcell/chkpt.c diff --git a/src/chkpt.h b/mcell/chkpt.h similarity index 100% rename from src/chkpt.h rename to mcell/chkpt.h diff --git a/src/config-nix.h b/mcell/config-nix.h similarity index 100% rename from src/config-nix.h rename to mcell/config-nix.h diff --git a/src/config-win.h b/mcell/config-win.h similarity index 100% rename from src/config-win.h rename to mcell/config-win.h diff --git a/mcell/config.h b/mcell/config.h new file mode 100644 index 000000000..a3146446e --- /dev/null +++ b/mcell/config.h @@ -0,0 +1,301 @@ +/* config.h. Generated from config.h.in by configure. */ +/* config.h.in. Generated from configure.ac by autoheader. */ + +/* Define if building universal (internal helper macro) */ +/* #undef AC_APPLE_UNIVERSAL_BUILD */ + +/* Define to one of `_getb67', `GETB67', `getb67' for Cray-2 and Cray-YMP + systems. This function is required for `alloca.c' support on those systems. + */ +/* #undef CRAY_STACKSEG_END */ + +/* Define to 1 if using `alloca.c'. */ +/* #undef C_ALLOCA */ + +/* Define to 1 if you have the `alarm' function. */ +#define HAVE_ALARM 1 + +/* Define to 1 if you have `alloca', as a function or macro. */ +#define HAVE_ALLOCA 1 + +/* Define to 1 if you have and it should be used (not on Ultrix). + */ +#define HAVE_ALLOCA_H 1 + +/* Define to 1 if you have the declaration of `strerror_r', and to 0 if you + don't. */ +#define HAVE_DECL_STRERROR_R 1 + +/* Define to 1 if you don't have `vprintf' but do have `_doprnt.' */ +/* #undef HAVE_DOPRNT */ + +/* Define to 1 if you have the header file. */ +#define HAVE_FCNTL_H 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_FENV_H 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_FLOAT_H 1 + +/* Define to 1 if you have the `floor' function. */ +/* #undef HAVE_FLOOR */ + +/* Define to 1 if you have the `ftruncate' function. */ +#define HAVE_FTRUNCATE 1 + +/* Define to 1 if you have the `gethostname' function. */ +#define HAVE_GETHOSTNAME 1 + +/* Define to 1 if you have the `gettimeofday' function. */ +#define HAVE_GETTIMEOFDAY 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_INTTYPES_H 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_LIBINTL_H 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_LIMITS_H 1 + +/* Define to 1 if your system has a GNU libc compatible `malloc' function, and + to 0 otherwise. */ +#define HAVE_MALLOC 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_MALLOC_H 1 + +/* Define to 1 if you have the `memmove' function. */ +#define HAVE_MEMMOVE 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_MEMORY_H 1 + +/* Define to 1 if you have the `memset' function. */ +#define HAVE_MEMSET 1 + +/* Define to 1 if you have the `mkdir' function. */ +#define HAVE_MKDIR 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_NETDB_H 1 + +/* Define to 1 if you have the `pow' function. */ +/* #undef HAVE_POW */ + +/* Define to 1 if your system has a GNU libc compatible `realloc' function, + and to 0 otherwise. */ +#define HAVE_REALLOC 1 + +/* Define to 1 if you have the `sqrt' function. */ +/* #undef HAVE_SQRT */ + +/* Define to 1 if `stat' has the bug that it succeeds when given the + zero-length file name argument. */ +/* #undef HAVE_STAT_EMPTY_STRING_BUG */ + +/* Define to 1 if stdbool.h conforms to C99. */ +#define HAVE_STDBOOL_H 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_STDDEF_H 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_STDINT_H 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_STDLIB_H 1 + +/* Define to 1 if you have the `strchr' function. */ +#define HAVE_STRCHR 1 + +/* Define to 1 if you have the `strdup' function. */ +#define HAVE_STRDUP 1 + +/* Define to 1 if you have the `strerror' function. */ +#define HAVE_STRERROR 1 + +/* Define to 1 if you have the `strerror_r' function. */ +#define HAVE_STRERROR_R 1 + +/* Define to 1 if you have the `strftime' function. */ +#define HAVE_STRFTIME 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_STRINGS_H 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_STRING_H 1 + +/* Define to 1 if you have the `strrchr' function. */ +#define HAVE_STRRCHR 1 + +/* Define to 1 if you have the `strtol' function. */ +#define HAVE_STRTOL 1 + +/* Define to 1 if you have the `strtoul' function. */ +#define HAVE_STRTOUL 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_SYS_SOCKET_H 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_SYS_STAT_H 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_SYS_TIME_H 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_SYS_TYPES_H 1 + +/* Define to 1 if you have the header file. */ +#define HAVE_UNISTD_H 1 + +/* Define to 1 if you have the `vprintf' function. */ +#define HAVE_VPRINTF 1 + +/* Define to 1 if you have the header file. */ +/* #undef HAVE_WINDOWS_H */ + +/* Define to 1 if the system has the type `_Bool'. */ +#define HAVE__BOOL 1 + +/* Define to 1 if `lstat' dereferences a symlink specified with a trailing + slash. */ +#define LSTAT_FOLLOWS_SLASHED_SYMLINK 1 + +/* If MCELL unsafe signal handlers are enabled */ +/* #undef MCELL_UNSAFE_SIGHANDLERS */ + +/* Define to 1 if assertions should be disabled. */ +/* #undef NDEBUG */ + +/* Name of package */ +#define PACKAGE "mcell" + +/* Define to the address where bug reports for this package should be sent. */ +#define PACKAGE_BUGREPORT "mcell@salk.edu" + +/* Define to the full name of this package. */ +#define PACKAGE_NAME "mcell" + +/* Define to the full name and version of this package. */ +#define PACKAGE_STRING "mcell 3.4" + +/* Define to the one symbol short name of this package. */ +#define PACKAGE_TARNAME "mcell" + +/* Define to the home page for this package. */ +#define PACKAGE_URL "" + +/* Define to the version of this package. */ +#define PACKAGE_VERSION "3.4" + +/* If using the C implementation of alloca, define if you know the + direction of stack growth for your system; otherwise it will be + automatically deduced at runtime. + STACK_DIRECTION > 0 => grows toward higher addresses + STACK_DIRECTION < 0 => grows toward lower addresses + STACK_DIRECTION = 0 => direction of growth unknown */ +/* #undef STACK_DIRECTION */ + +/* Define to 1 if you have the ANSI C header files. */ +#define STDC_HEADERS 1 + +/* Define to 1 if strerror_r returns char *. */ +/* #undef STRERROR_R_CHAR_P */ + +/* Version number of package */ +#define VERSION "3.4" + +/* Define WORDS_BIGENDIAN to 1 if your processor stores words with the most + significant byte first (like Motorola and SPARC, unlike Intel). */ +#if defined AC_APPLE_UNIVERSAL_BUILD +# if defined __BIG_ENDIAN__ +# define WORDS_BIGENDIAN 1 +# endif +#else +# ifndef WORDS_BIGENDIAN +/* # undef WORDS_BIGENDIAN */ +# endif +#endif + +/* Define to 1 if `lex' declares `yytext' as a `char *' by default, not a + `char[]'. */ +#define YYTEXT_POINTER 1 + +/* Enable large inode numbers on Mac OS X 10.5. */ +#ifndef _DARWIN_USE_64_BIT_INODE +# define _DARWIN_USE_64_BIT_INODE 1 +#endif + +/* Number of bits in a file offset, on hosts where this is settable. */ +/* #undef _FILE_OFFSET_BITS */ + +/* Define for large files, on AIX-style hosts. */ +/* #undef _LARGE_FILES */ + +/* Define for Solaris 2.5.1 so the uint32_t typedef from , + , or is not used. If the typedef were allowed, the + #define below would cause a syntax error. */ +/* #undef _UINT32_T */ + +/* Define for Solaris 2.5.1 so the uint8_t typedef from , + , or is not used. If the typedef were allowed, the + #define below would cause a syntax error. */ +/* #undef _UINT8_T */ + +/* Define to empty if `const' does not conform to ANSI C. */ +/* #undef const */ + +/* Define to `__inline__' or `__inline' if that's what the C compiler + calls it, or to nothing if 'inline' is not supported under any name. */ +#ifndef __cplusplus +/* #undef inline */ +#endif + +/* Define to the type of a signed integer type of width exactly 16 bits if + such a type exists and the standard includes do not define it. */ +/* #undef int16_t */ + +/* Define to the type of a signed integer type of width exactly 32 bits if + such a type exists and the standard includes do not define it. */ +/* #undef int32_t */ + +/* Define to the type of a signed integer type of width exactly 64 bits if + such a type exists and the standard includes do not define it. */ +/* #undef int64_t */ + +/* Define to the type of a signed integer type of width exactly 8 bits if such + a type exists and the standard includes do not define it. */ +/* #undef int8_t */ + +/* Define to rpl_malloc if the replacement function should be used. */ +/* #undef malloc */ + +/* Define to rpl_realloc if the replacement function should be used. */ +/* #undef realloc */ + +/* Define to `unsigned int' if does not define. */ +/* #undef size_t */ + +/* Define to the type of an unsigned integer type of width exactly 16 bits if + such a type exists and the standard includes do not define it. */ +/* #undef uint16_t */ + +/* Define to the type of an unsigned integer type of width exactly 32 bits if + such a type exists and the standard includes do not define it. */ +/* #undef uint32_t */ + +/* Define to the type of an unsigned integer type of width exactly 8 bits if + such a type exists and the standard includes do not define it. */ +/* #undef uint8_t */ + + +#ifdef _WIN32 +#include "config-win.h" +#else +#include "config-nix.h" +#endif + diff --git a/src/configure.ac b/mcell/configure.ac similarity index 100% rename from src/configure.ac rename to mcell/configure.ac diff --git a/src/count_util.c b/mcell/count_util.c similarity index 100% rename from src/count_util.c rename to mcell/count_util.c diff --git a/src/count_util.h b/mcell/count_util.h similarity index 100% rename from src/count_util.h rename to mcell/count_util.h diff --git a/src/data_model_import.py b/mcell/data_model_import.py similarity index 100% rename from src/data_model_import.py rename to mcell/data_model_import.py diff --git a/src/diffuse.c b/mcell/diffuse.c similarity index 100% rename from src/diffuse.c rename to mcell/diffuse.c diff --git a/src/diffuse.h b/mcell/diffuse.h similarity index 100% rename from src/diffuse.h rename to mcell/diffuse.h diff --git a/src/diffuse_trimol.c b/mcell/diffuse_trimol.c similarity index 100% rename from src/diffuse_trimol.c rename to mcell/diffuse_trimol.c diff --git a/src/diffuse_util.c b/mcell/diffuse_util.c similarity index 100% rename from src/diffuse_util.c rename to mcell/diffuse_util.c diff --git a/src/diffuse_util.h b/mcell/diffuse_util.h similarity index 100% rename from src/diffuse_util.h rename to mcell/diffuse_util.h diff --git a/src/dyngeom.c b/mcell/dyngeom.c similarity index 100% rename from src/dyngeom.c rename to mcell/dyngeom.c diff --git a/src/dyngeom.h b/mcell/dyngeom.h similarity index 100% rename from src/dyngeom.h rename to mcell/dyngeom.h diff --git a/src/dyngeom_lex.c b/mcell/dyngeom_lex.c similarity index 100% rename from src/dyngeom_lex.c rename to mcell/dyngeom_lex.c diff --git a/src/dyngeom_lex.l b/mcell/dyngeom_lex.l similarity index 100% rename from src/dyngeom_lex.l rename to mcell/dyngeom_lex.l diff --git a/src/dyngeom_parse.y b/mcell/dyngeom_parse.y similarity index 100% rename from src/dyngeom_parse.y rename to mcell/dyngeom_parse.y diff --git a/src/dyngeom_parse_extras.c b/mcell/dyngeom_parse_extras.c similarity index 100% rename from src/dyngeom_parse_extras.c rename to mcell/dyngeom_parse_extras.c diff --git a/src/dyngeom_parse_extras.h b/mcell/dyngeom_parse_extras.h similarity index 100% rename from src/dyngeom_parse_extras.h rename to mcell/dyngeom_parse_extras.h diff --git a/src/dyngeom_yacc.c b/mcell/dyngeom_yacc.c similarity index 100% rename from src/dyngeom_yacc.c rename to mcell/dyngeom_yacc.c diff --git a/src/dyngeom_yacc.h b/mcell/dyngeom_yacc.h similarity index 100% rename from src/dyngeom_yacc.h rename to mcell/dyngeom_yacc.h diff --git a/src/grid_util.c b/mcell/grid_util.c similarity index 100% rename from src/grid_util.c rename to mcell/grid_util.c diff --git a/src/grid_util.h b/mcell/grid_util.h similarity index 100% rename from src/grid_util.h rename to mcell/grid_util.h diff --git a/src/hashmap.c b/mcell/hashmap.c similarity index 100% rename from src/hashmap.c rename to mcell/hashmap.c diff --git a/src/hashmap.h b/mcell/hashmap.h similarity index 100% rename from src/hashmap.h rename to mcell/hashmap.h diff --git a/src/init.c b/mcell/init.c similarity index 100% rename from src/init.c rename to mcell/init.c diff --git a/src/init.h b/mcell/init.h similarity index 100% rename from src/init.h rename to mcell/init.h diff --git a/src/isaac64.c b/mcell/isaac64.c similarity index 100% rename from src/isaac64.c rename to mcell/isaac64.c diff --git a/src/isaac64.h b/mcell/isaac64.h similarity index 100% rename from src/isaac64.h rename to mcell/isaac64.h diff --git a/src/libmcell_test.c b/mcell/libmcell_test.c similarity index 100% rename from src/libmcell_test.c rename to mcell/libmcell_test.c diff --git a/src/logging.c b/mcell/logging.c similarity index 100% rename from src/logging.c rename to mcell/logging.c diff --git a/src/logging.h b/mcell/logging.h similarity index 100% rename from src/logging.h rename to mcell/logging.h diff --git a/src/mcell.c b/mcell/mcell.c similarity index 100% rename from src/mcell.c rename to mcell/mcell.c diff --git a/src/mcell_dyngeom.c b/mcell/mcell_dyngeom.c similarity index 100% rename from src/mcell_dyngeom.c rename to mcell/mcell_dyngeom.c diff --git a/src/mcell_dyngeom.h b/mcell/mcell_dyngeom.h similarity index 100% rename from src/mcell_dyngeom.h rename to mcell/mcell_dyngeom.h diff --git a/src/mcell_dyngeom.i b/mcell/mcell_dyngeom.i similarity index 100% rename from src/mcell_dyngeom.i rename to mcell/mcell_dyngeom.i diff --git a/src/mcell_init.c b/mcell/mcell_init.c similarity index 100% rename from src/mcell_init.c rename to mcell/mcell_init.c diff --git a/src/mcell_init.h b/mcell/mcell_init.h similarity index 100% rename from src/mcell_init.h rename to mcell/mcell_init.h diff --git a/src/mcell_init.i b/mcell/mcell_init.i similarity index 100% rename from src/mcell_init.i rename to mcell/mcell_init.i diff --git a/src/mcell_misc.c b/mcell/mcell_misc.c similarity index 100% rename from src/mcell_misc.c rename to mcell/mcell_misc.c diff --git a/src/mcell_misc.h b/mcell/mcell_misc.h similarity index 100% rename from src/mcell_misc.h rename to mcell/mcell_misc.h diff --git a/src/mcell_misc.i b/mcell/mcell_misc.i similarity index 100% rename from src/mcell_misc.i rename to mcell/mcell_misc.i diff --git a/src/mcell_objects.c b/mcell/mcell_objects.c similarity index 100% rename from src/mcell_objects.c rename to mcell/mcell_objects.c diff --git a/src/mcell_objects.h b/mcell/mcell_objects.h similarity index 100% rename from src/mcell_objects.h rename to mcell/mcell_objects.h diff --git a/src/mcell_objects.i b/mcell/mcell_objects.i similarity index 100% rename from src/mcell_objects.i rename to mcell/mcell_objects.i diff --git a/src/mcell_react_out.c b/mcell/mcell_react_out.c similarity index 100% rename from src/mcell_react_out.c rename to mcell/mcell_react_out.c diff --git a/src/mcell_react_out.h b/mcell/mcell_react_out.h similarity index 100% rename from src/mcell_react_out.h rename to mcell/mcell_react_out.h diff --git a/src/mcell_react_out.i b/mcell/mcell_react_out.i similarity index 100% rename from src/mcell_react_out.i rename to mcell/mcell_react_out.i diff --git a/src/mcell_reactions.c b/mcell/mcell_reactions.c similarity index 100% rename from src/mcell_reactions.c rename to mcell/mcell_reactions.c diff --git a/src/mcell_reactions.h b/mcell/mcell_reactions.h similarity index 100% rename from src/mcell_reactions.h rename to mcell/mcell_reactions.h diff --git a/src/mcell_reactions.i b/mcell/mcell_reactions.i similarity index 100% rename from src/mcell_reactions.i rename to mcell/mcell_reactions.i diff --git a/src/mcell_release.c b/mcell/mcell_release.c similarity index 100% rename from src/mcell_release.c rename to mcell/mcell_release.c diff --git a/src/mcell_release.h b/mcell/mcell_release.h similarity index 100% rename from src/mcell_release.h rename to mcell/mcell_release.h diff --git a/src/mcell_release.i b/mcell/mcell_release.i similarity index 100% rename from src/mcell_release.i rename to mcell/mcell_release.i diff --git a/src/mcell_run.c b/mcell/mcell_run.c similarity index 100% rename from src/mcell_run.c rename to mcell/mcell_run.c diff --git a/src/mcell_run.h b/mcell/mcell_run.h similarity index 100% rename from src/mcell_run.h rename to mcell/mcell_run.h diff --git a/src/mcell_run.i b/mcell/mcell_run.i similarity index 100% rename from src/mcell_run.i rename to mcell/mcell_run.i diff --git a/src/mcell_species.c b/mcell/mcell_species.c similarity index 100% rename from src/mcell_species.c rename to mcell/mcell_species.c diff --git a/src/mcell_species.h b/mcell/mcell_species.h similarity index 100% rename from src/mcell_species.h rename to mcell/mcell_species.h diff --git a/src/mcell_species.i b/mcell/mcell_species.i similarity index 100% rename from src/mcell_species.i rename to mcell/mcell_species.i diff --git a/src/mcell_structs.h b/mcell/mcell_structs.h similarity index 100% rename from src/mcell_structs.h rename to mcell/mcell_structs.h diff --git a/src/mcell_structs.i b/mcell/mcell_structs.i similarity index 100% rename from src/mcell_structs.i rename to mcell/mcell_structs.i diff --git a/src/mcell_surfclass.c b/mcell/mcell_surfclass.c similarity index 100% rename from src/mcell_surfclass.c rename to mcell/mcell_surfclass.c diff --git a/src/mcell_surfclass.h b/mcell/mcell_surfclass.h similarity index 100% rename from src/mcell_surfclass.h rename to mcell/mcell_surfclass.h diff --git a/src/mcell_surfclass.i b/mcell/mcell_surfclass.i similarity index 100% rename from src/mcell_surfclass.i rename to mcell/mcell_surfclass.i diff --git a/src/mcell_viz.c b/mcell/mcell_viz.c similarity index 100% rename from src/mcell_viz.c rename to mcell/mcell_viz.c diff --git a/src/mcell_viz.h b/mcell/mcell_viz.h similarity index 100% rename from src/mcell_viz.h rename to mcell/mcell_viz.h diff --git a/src/mcell_viz.i b/mcell/mcell_viz.i similarity index 100% rename from src/mcell_viz.i rename to mcell/mcell_viz.i diff --git a/src/mdllex.l b/mcell/mdllex.l similarity index 100% rename from src/mdllex.l rename to mcell/mdllex.l diff --git a/src/mdlparse.y b/mcell/mdlparse.y similarity index 100% rename from src/mdlparse.y rename to mcell/mdlparse.y diff --git a/src/mdlparse_aux.h b/mcell/mdlparse_aux.h similarity index 100% rename from src/mdlparse_aux.h rename to mcell/mdlparse_aux.h diff --git a/src/mdlparse_util.c b/mcell/mdlparse_util.c similarity index 100% rename from src/mdlparse_util.c rename to mcell/mdlparse_util.c diff --git a/src/mdlparse_util.h b/mcell/mdlparse_util.h similarity index 100% rename from src/mdlparse_util.h rename to mcell/mdlparse_util.h diff --git a/src/mem_util.c b/mcell/mem_util.c similarity index 100% rename from src/mem_util.c rename to mcell/mem_util.c diff --git a/src/mem_util.h b/mcell/mem_util.h similarity index 100% rename from src/mem_util.h rename to mcell/mem_util.h diff --git a/src/minrng.c b/mcell/minrng.c similarity index 100% rename from src/minrng.c rename to mcell/minrng.c diff --git a/src/minrng.h b/mcell/minrng.h similarity index 100% rename from src/minrng.h rename to mcell/minrng.h diff --git a/src/nfsim_func.c b/mcell/nfsim_func.c similarity index 100% rename from src/nfsim_func.c rename to mcell/nfsim_func.c diff --git a/src/nfsim_func.h b/mcell/nfsim_func.h similarity index 100% rename from src/nfsim_func.h rename to mcell/nfsim_func.h diff --git a/src/pymcell.i b/mcell/pymcell.i similarity index 100% rename from src/pymcell.i rename to mcell/pymcell.i diff --git a/mcell/pymcell.py b/mcell/pymcell.py new file mode 100644 index 000000000..ac6b5e596 --- /dev/null +++ b/mcell/pymcell.py @@ -0,0 +1,3107 @@ +# This file was automatically generated by SWIG (http://www.swig.org). +# Version 3.0.10 +# +# Do not make changes to this file unless you know what you are doing--modify +# the SWIG interface file instead. + + +from ctypes import * +lib1 = cdll.LoadLibrary('../lib/libNFsim.so') +lib2 = cdll.LoadLibrary('../lib/libnfsim_c.so') + + + + + +from sys import version_info as _swig_python_version_info +if _swig_python_version_info >= (2, 7, 0): + def swig_import_helper(): + import importlib + pkg = __name__.rpartition('.')[0] + mname = '.'.join((pkg, '_pymcell')).lstrip('.') + try: + return importlib.import_module(mname) + except ImportError: + return importlib.import_module('_pymcell') + _pymcell = swig_import_helper() + del swig_import_helper +elif _swig_python_version_info >= (2, 6, 0): + def swig_import_helper(): + from os.path import dirname + import imp + fp = None + try: + fp, pathname, description = imp.find_module('_pymcell', [dirname(__file__)]) + except ImportError: + import _pymcell + return _pymcell + if fp is not None: + try: + _mod = imp.load_module('_pymcell', fp, pathname, description) + finally: + fp.close() + return _mod + _pymcell = swig_import_helper() + del swig_import_helper +else: + import _pymcell +del _swig_python_version_info +try: + _swig_property = property +except NameError: + pass # Python < 2.2 doesn't have 'property'. + +try: + import builtins as __builtin__ +except ImportError: + import __builtin__ + +def _swig_setattr_nondynamic(self, class_type, name, value, static=1): + if (name == "thisown"): + return self.this.own(value) + if (name == "this"): + if type(value).__name__ == 'SwigPyObject': + self.__dict__[name] = value + return + method = class_type.__swig_setmethods__.get(name, None) + if method: + return method(self, value) + if (not static): + if _newclass: + object.__setattr__(self, name, value) + else: + self.__dict__[name] = value + else: + raise AttributeError("You cannot add attributes to %s" % self) + + +def _swig_setattr(self, class_type, name, value): + return _swig_setattr_nondynamic(self, class_type, name, value, 0) + + +def _swig_getattr(self, class_type, name): + if (name == "thisown"): + return self.this.own() + method = class_type.__swig_getmethods__.get(name, None) + if method: + return method(self) + raise AttributeError("'%s' object has no attribute '%s'" % (class_type.__name__, name)) + + +def _swig_repr(self): + try: + strthis = "proxy of " + self.this.__repr__() + except __builtin__.Exception: + strthis = "" + return "<%s.%s; %s >" % (self.__class__.__module__, self.__class__.__name__, strthis,) + +try: + _object = object + _newclass = 1 +except __builtin__.Exception: + class _object: + pass + _newclass = 0 + +"""pyMCell helper functions. + +Currently, this contains a mix of the original pyMCell functions and classes +and a set of more refined intuitive functions and classes. Future versions will +provide a cleaner separation between these two with the aim of eventually +deprecating or removing the original ones. + +""" + +import pymcell as m +from typing import List, Dict, Iterable, Tuple, Any +import logging +from enum import Enum +# import uuid +import random + + +class Orient(Enum): + up = 1 + down = 2 + mix = 3 + + +class SC(Enum): + reflect = 1 + transp = 2 + absorb = 3 + conc_clamp = 3 + + +class MolType(Enum): + surface_mols = 1 + volume_mols = 2 + all_mols = 3 + + +def single_true(iterable): + i = iter(iterable) + return any(i) and not any(i) + + +class MeshObj: + """ An entire polygon object and its associated surface regions. """ + def __init__( + self, + name: str, + vert_list: List[Tuple[float, float, float]], + face_list: List[Tuple[int, int, int]], + translation: Tuple[float, float, float] = None) -> None: + self.name = name + self.vert_list = vert_list + self.face_list = face_list + self.regions = [] # type: List[SurfaceRegion] + self.translation = translation + logging.info("Creating mesh object '%s'" % name) + + def __str__(self): + return self.name + + +class Species: + """ A type of molecule. + + Surface molecules have names, diffusion constants , and can either be a + surface molecule (embedded in a membrane) or a volume molecule (e.g. free + in the cytocol). The units for the diffusion constant is cm2/s. An + instance of Species is still a *type* of molecule, not an individual + molecule. For example, an instance of Species could be the ACh Species, but + it would not be an individual ACh molecule. + """ + def __init__( + self, + name: str, + diffusion_constant: float, + surface: bool = False) -> None: + self.name = name + self.diffusion_constant = diffusion_constant + self.surface = surface + vol_surf = "surface" if surface else "volume" + logging.info("Creating %s species '%s'" % (vol_surf, name)) + + def up(self): + return OrientedSpecies(self, Orient.up) + + def down(self): + return OrientedSpecies(self, Orient.down) + + def mix(self): + return OrientedSpecies(self, Orient.mix) + + def __str__(self): + return self.name + + +class OrientedSpecies: + """ A type of molecule with an orientation. + + This is like a normal Species object, but it also contains information + about its relative orientation (up, down, or mixed) with respect to a + surface membrane. + """ + def __init__( + self, + spec: Species, + orient: Orient) -> None: + self.spec = spec + odict_str = {Orient.up: "'", Orient.down: ",", Orient.mix: ";"} + odict_num = {Orient.up: 1, Orient.down: -1, Orient.mix: 0} + self.orient = orient + self.orient_num = odict_num[orient] + self.orient_str = odict_str[orient] + self.name = self.spec.name + self.orient_str + + def __str__(self): + return self.name + + +class Reaction: + """ A reaction involving one or more molecules. + + ex: vm1 -> vm2 + vm3 [1e3] + - Can be unimolecular or bimolecular. + - Involves surface and/or volume molecules. + - If a single surface molecule is involved, then all species in the + reaction must be OrientedSpecies. + """ + def __init__( + self, + reactants: List[Any], # List of Species or OrientedSpecies + products: List[Any], # List of Species or OrientedSpecies + rate_constant: float, + bkwd_rate_constant=None, + name=None) -> None: + self.reactants = reactants + self.products = products + self.rate_constant = rate_constant + self.bkwd_rate_constant = bkwd_rate_constant + self.name = name +# These variable names are terrible... +# reactants_so = all(isinstance(r, m.OrientedSpecies) for r in reactants) +# products_so = all(isinstance(p, m.OrientedSpecies) for p in products) +# reactants_s = all(isinstance(r, m.Species) for r in reactants) +# products_s = all(isinstance(p, m.Species) for p in products) +# if (reactants_so and (products_so or not products)) or (reactants_s and products_s): +# # make sure either everything is oriented (aside from possible NULL +# # product) or nothing is. +# pass +# else: +# logging.info( +# "Mixing oriented with non oriented species in reaction") + try: + reactant_names = [r.name for r in reactants] + reactants_str = " + ".join(reactant_names) + except TypeError: +# must be unimolecular + reactants_str = reactants.name + try: + if products: + product_names = [p.name for p in products] + products_str = " + ".join(product_names) + else: + products_str = "NULL" + except TypeError: + products_str = products.name + + arrow = "<->" if bkwd_rate_constant else "->" + + self.print_friendly_repr = "" + if bkwd_rate_constant: + self.print_friendly_repr = "%s <-> %s [%.2E, %.2E]" % (reactants_str, products_str, rate_constant, bkwd_rate_constant) + else: + self.print_friendly_repr = "%s -> %s [%.2E]" % (reactants_str, products_str, rate_constant) + logging.info("Creating reaction %s" % self.print_friendly_repr) + + def __str__(self): + return self.name + + +class SurfaceRegion: + """ Subsets of a surface. + + Examples of uses: molecules can be released on to these and surface classes + can be assigned to them. + """ + def __init__(self, + mesh_obj: MeshObj, + reg_name: str, + surf_reg_face_list: List) -> None: + self.reg_name = reg_name + self.full_reg_name = "%s[%s]" % (mesh_obj.name, reg_name) + self.surf_reg_face_list = surf_reg_face_list +# Relationship is symmetrical. Every region knows its object. Object +# knows its regions. + self.mesh_obj = mesh_obj + mesh_obj.regions.append(self) + logging.info("Creating region '%s'" % self.reg_name) + + def __str__(self): + return self.reg_name + + +class ListRelease: + """ A release of molecules specified as a series of XYZ coordinates. """ + def __init__( + self, + spec, + pos_list: Iterable[Tuple[float, float, float]])-> None: + self.spec = spec + self.pos_list = pos_list + logging.info("Creating list release") + + +class ObjectRelease: + """ An entire polygon object and its associated surface regions. """ + def __init__( + self, + spec, + number: int = None, + conc: float = None, + density: float = None, + mesh_obj: MeshObj = None, + region: SurfaceRegion = None) -> None: + if not single_true((number, conc, density)): + raise Exception( + "Multiple release methods (e.g. number and conc) specified") + self.spec = spec + self.number = number + self.conc = conc + self.density = density + self.region = region + self.what_in_where = "" + if self.region: + self.mesh_obj = self.region.mesh_obj + self.what_in_where = "{} in/on {}".format(self.spec.name, self.region.reg_name) + else: + self.mesh_obj = mesh_obj + self.what_in_where = "{} in/on {}".format(self.spec.name, self.mesh_obj.name) + logging.info("Creating release of {}".format(self.what_in_where)) + + +class Vector3: + """ Just a generic 3d vector to be used for positions and whatnot. """ + def __init__(self, x: float = 0.0, y: float = 0.0, z: float = 0.0) -> None: + self.x = x + self.y = y + self.z = z + + def __str__(self): + return "({}, {}, {})".format(self.x, self.y, self.z) + + +class SurfaceClass: + """ A SurfaceClass describes how species interact with various surfaces. + + ex: Species x are absorbed when they hit the front of a surface. + """ + def __init__( + self, sc_type: SC, species, name=None) -> None: + self.sc_type = sc_type + self.species = species + sc_dict = {SC.transp: "transparent", SC.reflect: "reflective", SC.absorb: "absorptive" } + if name: + self.name = name + else: + self.name = "{}_{}".format(sc_dict[sc_type], species.name) + logging.info( + "Creating surface class that is {} to {}".format(sc_dict[sc_type], species.name)) + + def __str__(self): + return self.name + + +class MCellSim: + """ The main class required to run a pyMCell simulation. """ + def __init__(self, seed: int) -> None: + self._world = m.mcell_create() + self._started = False +# the value for _species & _surface_classes is a swig wrapped sym_entry + self._species = {} # type: Dict[str, Any] + self._surface_classes = {} # type: Dict[str, Any] +# the value for _mesh_objects is a swig wrapped "object" + self._mesh_objects = {} # type: Dict[str, Any] +# the value for _mesh_objects is a swig wrapped "region" + self._regions = {} # type: Dict[str, Any] + self._releases = {} # type: Dict[str, Any] + self._counts = {} # type: Dict[str, Any] + self._iterations = 0 + self._current_iteration = 0 + self._finished = False + self._output_freq = 10 + self._seed = seed + m.mcell_set_seed(self._world, seed) +# m.mcell_silence_notifications(self._world) + m.mcell_init_state(self._world) +# This is the top level instance object. We just call it "Scene" here +# to be consistent with the MDL output from Blender. + self.scene_name = "Scene" + self._scene = m.create_instance_object(self._world, self.scene_name) + +# this is different than _species. instead of swig wrapped sym_entry, +# this contains Species objects + self.species = {} + +# These allow you to have surface properties affect all molecules. + self._all_mol_sym = m.mcell_get_all_mol_sym(self._world) + self._species['ALL_MOLECULES'] = self._all_mol_sym + self._all_volume_mol_sym = m.mcell_get_all_volume_mol_sym(self._world) + self._species['ALL_VOLUME_MOLECULES'] = self._all_volume_mol_sym + self._all_surface_mol_sym = m.mcell_get_all_mol_sym(self._world) + self._species['ALL_SURFACE_MOLECULES'] = self._all_surface_mol_sym + + def __str__(self): + return self.scene_name + + def __del__(self): + self.end_sim() + + def silence_warnings(self): + m.mcell_silence_warnings(self._world) + + def silence_notifications(self): + m.mcell_silence_notifications(self._world) + + def enable_logging(self): + logging.basicConfig(format='%(message)s', level=logging.DEBUG) + + def set_output_freq(self, output_freq: int) -> None: + """ The interval of iterations to create reaction data output. + + For example, if you set this to 10, reaction data would be created at + every 10th iteration. + """ + self._output_freq = output_freq + + def set_time_step(self, time_step: float) -> None: + """ Set time step in seconds. """ + m.mcell_set_time_step(self._world, time_step) + + def set_iterations(self, iterations: int) -> None: + """ Set number of iterations """ + m.mcell_set_iterations(self._world, iterations) + self._iterations = iterations + +# def set_seed(self, seed): +# self._seed = seed +# m.mcell_set_seed(self._world, seed) + + def add_single_species(self, spec): + if spec.name not in self._species: + spec_sym = m.create_species( + self._world, spec.name, spec.diffusion_constant, spec.surface) + self._species[spec.name] = spec_sym + self.species[spec.name] = spec + logging.info("Add species '%s' to simulation" % spec.name) + + def add_species(self, spec): + if isinstance(spec, m.Species): + self.add_single_species(spec) + else: + for s in spec: + self.add_single_species(s) + + def add_reaction(self, rxn: Reaction) -> None: + """ Add a Reaction object to the simulation. """ + r_spec_list = None + p_spec_list = None +# Figure out if it's an iterable of reactants or a single reactant + try: + for r in rxn.reactants: + if isinstance(r, m.OrientedSpecies): + r_sym = self._species[r.spec.name] + r_spec_list = m.mcell_add_to_species_list( + r_sym, True, r.orient_num, r_spec_list) + else: + r_sym = self._species[r.name] + r_spec_list = m.mcell_add_to_species_list( + r_sym, False, 0, r_spec_list) + except TypeError: + r = rxn.reactants + if isinstance(r, m.OrientedSpecies): + r_sym = self._species[r.spec.name] + r_spec_list = m.mcell_add_to_species_list( + r_sym, True, r.orient_num, r_spec_list) + else: + r_sym = self._species[r.name] + r_spec_list = m.mcell_add_to_species_list( + r_sym, False, 0, r_spec_list) + try: + for p in rxn.products: + if isinstance(r, m.OrientedSpecies): + p_sym = self._species[p.spec.name] + p_spec_list = m.mcell_add_to_species_list( + p_sym, True, p.orient_num, p_spec_list) + else: + p_sym = self._species[p.name] + p_spec_list = m.mcell_add_to_species_list( + p_sym, False, 0, p_spec_list) + except TypeError: + p = rxn.products + if isinstance(r, m.OrientedSpecies): + p_sym = self._species[p.spec.name] + p_spec_list = m.mcell_add_to_species_list( + p_sym, True, p.orient_num, p_spec_list) + else: + p_sym = self._species[p.name] + p_spec_list = m.mcell_add_to_species_list( + p_sym, False, 0, p_spec_list) + logging.info("Add reaction '%s' to simulation" % rxn.print_friendly_repr) + m.create_reaction( + self._world, + r_spec_list, + p_spec_list, + rxn.rate_constant, + rxn.bkwd_rate_constant, + name=rxn.name) + + def add_geometry(self, mesh_obj: MeshObj) -> None: + """ Add a mesh object to the simulation. """ + mesh = m.create_polygon_object( + self._world, + mesh_obj.vert_list, + mesh_obj.face_list, + self._scene, + mesh_obj.name, + mesh_obj.translation) + if mesh_obj.name not in self._mesh_objects: + self._mesh_objects[mesh_obj.name] = mesh + for reg in mesh_obj.regions: + region_swig_obj = m.create_surface_region( + self._world, mesh, reg.surf_reg_face_list, reg.reg_name) + full_reg_name = "%s[%s]" % (mesh_obj.name, reg.reg_name) + if reg.reg_name not in self._regions: + self._regions[full_reg_name] = region_swig_obj + logging.info("Add geometry '%s' to simulation" % mesh_obj.name) + + def add_viz(self, species: Iterable[Species]) -> None: + """ Set all the species in an Iterable to be visualized. """ + viz_list = None + for spec in species: + viz_list = m.mcell_add_to_species_list( + self._species[spec.name], False, 0, viz_list) + logging.info("Output '%s' for viz data." % spec.name) + m.mcell_create_viz_output( + self._world, "./viz_data/seed_%04i/Scene" % self._seed, viz_list, + 0, self._iterations, 1) + + def release(self, relobj): + """ Release molecules in/on an object or as a ListRelease. """ + if isinstance(relobj, ObjectRelease): + self.release_into_mesh_obj(relobj) + logging.info("Add release of '%s' to simulation" % relobj.what_in_where) + elif isinstance(relobj, ListRelease): + self.release_as_list(relobj.spec, relobj.pos_list) + logging.info("Add list release to simulation") + else: + raise ValueError("Invalid release site type") + + def release_as_list(self, spec, pos_list): + length_pos_list = len(pos_list) + try: + spec_list = [] + surf_flags = [] + orient = [] + for s in spec: + if isinstance(s, OrientedSpecies): + spec_list.append(self._species[s.spec.name]) + surf_flags.append(True) + orient.append(s.orient_num) + else: + spec_list.append(self._species[s.spec.name]) + surf_flags.append(False) + orient.append(0) + + except TypeError: + if isinstance(spec, OrientedSpecies): + spec_sym = self._species[spec.spec.name] + spec_list = [spec_sym] * length_pos_list + surf_flags = [True] * length_pos_list + orient = [spec.orient_num] * length_pos_list + else: + spec_sym = self._species[spec.name] + surf_flags = None + orient = None + spec_list = [spec_sym] * length_pos_list +# XXX: HACK. This is definitely not guaranteed to be unique, but I +# can't UUID to work for some reason + rel_name = "rel_{}".format(random.randint(1,1000)) +# rel_name = "rel_{}".format(uuid.uuid1()) + x_pos = [] + y_pos = [] + z_pos = [] + for pos in pos_list: + x_pos.append(pos[0]) + y_pos.append(pos[1]) + z_pos.append(pos[2]) + (rel_obj, return_status) = m.create_list_release_site( + self._world, self._scene, spec_list, x_pos, y_pos, z_pos, + rel_name, surf_flags=surf_flags, orientations=orient) + if rel_name not in self._releases: + self._releases[rel_name] = (rel_obj, return_status) + + def release_into_mesh_obj(self, relobj) -> None: + """ Release the specified amount of species into an object. """ + + mesh_obj = relobj.mesh_obj + species = relobj.spec + region = relobj.region + + if isinstance(species, m.OrientedSpecies): + orient = species.orient_num + species = species.spec + else: + orient = None + if species.surface and orient is None: + logging.info( + "Error: must specify orientation when releasing surface " + "molecule") + if region: + rel_name = "%s_%s_%s_rel" % ( + species.name, mesh_obj.name, region.reg_name) + else: + rel_name = "%s_%s_rel" % (species.name, mesh_obj.name) + + mol_sym = self._species[species.name] + if orient: + mol_list = m.mcell_add_to_species_list(mol_sym, True, orient, None) + else: + mol_list = m.mcell_add_to_species_list(mol_sym, False, 0, None) + rel_object = m.object() + if relobj.number: + number_type = 0 + rel_amt = relobj.number + elif relobj.conc: + number_type = 1 + rel_amt = relobj.conc + if region: + reg_name = region.reg_name + else: + reg_name = "ALL" + release_object = m.mcell_create_region_release( + self._world, self._scene, self._mesh_objects[mesh_obj.name], + rel_name, reg_name, mol_list, float(rel_amt), + number_type, 1, None, rel_object) + if rel_name not in self._releases: + self._releases[rel_name] = release_object + m.mcell_delete_species_list(mol_list) +# logging.info("Creating release site '%s'" % rel_name) + + def create_release_site( + self, species: Species, count: int, shape: str, + pos_vec3: Vector3 = None, diam_vec3=None) -> None: + """ Create a spherical/cubic release site. """ + if pos_vec3 is None: + pos_vec3 = m.Vector3() + if diam_vec3 is None: + diam_vec3 = m.Vector3() + species_sym = self._species[species.name] + rel_name = "%s_%s_rel" % (species.name, shape) + if shape == "spherical": + shape = m.SHAPE_SPHERICAL + elif shape == "cubic": + shape = m.SHAPE_CUBIC + position, diameter, release_object = m.create_release_site( + self._world, self._scene, pos_vec3, diam_vec3, shape, + count, 0, species_sym, rel_name) + if rel_name not in self._releases: + self._releases[rel_name] = (position, diameter, release_object) + + def add_partitions( + self, axis: str, start: float, stop: float, step: float) -> None: + """ Add partitions to speed up the simulation. """ + if axis == "x": + axis_num = 0 + elif axis == "y": + axis_num = 1 + elif axis == "z": + axis_num = 2 + m.create_partitions(self._world, axis_num, start, stop, step) + + def add_count(self, species: Species, mesh_obj: MeshObj = None, reg: SurfaceRegion = None) -> None: + """ Set a species (possibly in/on a surface) to be counted """ + species_sym = self._species[species.name] + if mesh_obj: + mesh = self._mesh_objects[mesh_obj.name] + mesh_sym = m.mcell_get_obj_sym(mesh) + count_str = "react_data/seed_%04d/%s_%s" % ( + self._seed, species.name, mesh_obj.name) + count_list, os, out_times, output = m.create_count( + self._world, mesh_sym, species_sym, count_str, 1e-5) + elif reg: + reg_swig_obj = self._regions[reg.full_reg_name] + reg_sym = m.mcell_get_reg_sym(reg_swig_obj) + count_str = "react_data/seed_%04d/%s_%s_%s" % ( + self._seed, species.name, reg.mesh_obj.name, reg.reg_name) + count_list, os, out_times, output = m.create_count( + self._world, reg_sym, species_sym, count_str, 1e-5) + else: + count_str = "react_data/seed_%04d/%s_WORLD" % ( + self._seed, species.name) + count_list, os, out_times, output = m.create_count( + self._world, None, species_sym, count_str, 1e-5) + self._counts[count_str] = (count_list, os, out_times, output) + + def _get_sc_type(self, sc_type): + if sc_type == SC.reflect: + sc_type = m.RFLCT + elif sc_type == SC.transp: + sc_type = m.TRANSP + elif sc_type == SC.absorb: + sc_type = m.SINK + return sc_type + + def assign_surface_property_to_all_mols(self, sc_name, sc_type, region, moltype=MolType.all_mols): + sc_type = self._get_sc_type(sc_type) + + if moltype == MolType.surface_mols: + moltype = 'ALL_SURFACE_MOLECULES' + elif moltype == MolType.volume_mols: + moltype = 'ALL_VOLUME_MOLECULES' + elif moltype == MolType.all_mols: + moltype = 'ALL_MOLECULES' + + try: + sc_sym = self._surface_classes[sc_name] + except KeyError: + sc_sym = m.create_surf_class(self._world, sc_name) + self._surface_classes[sc_name] = sc_sym + spec_sym = self._species[moltype] +# XXX: add support for orientation + m.mcell_add_surf_class_properties( + self._world, sc_type, sc_sym, spec_sym, 0) + region_swig_obj = self._regions[region.full_reg_name] + m.mcell_assign_surf_class_to_region(sc_sym, region_swig_obj) + + def assign_surf_class( + self, sc: SurfaceClass, region: SurfaceRegion) -> None: + """ Assign a surface class to a region. """ + + sc_type = self._get_sc_type(sc.sc_type) + + if isinstance(sc.species, m.OrientedSpecies): + orient = sc.species.orient_num + spec_name = sc.species.spec.name + else: + orient = 0 + spec_name = sc.species.name + try: + sc_sym = self._surface_classes[sc.name] + except KeyError: + sc_sym = m.create_surf_class(self._world, sc.name) + self._surface_classes[sc.name] = sc_sym + spec_sym = self._species[spec_name] + m.mcell_add_surf_class_properties( + self._world, sc_type, sc_sym, spec_sym, orient) + region_swig_obj = self._regions[region.full_reg_name] + m.mcell_assign_surf_class_to_region(sc_sym, region_swig_obj) + + def get_species_count(self, species: Species, mesh_obj: MeshObj) -> int: + """ Get the current count of a molecule species. """ + return m.mcell_get_count( + species.name, "Scene.%s,ALL" % mesh_obj.name, self._world) + + def modify_rate_constant( + self, rxn: Reaction, new_rate_constant: float) -> None: + """ Modify the rate constant of the specified reaction. """ + if not rxn.name: + print("You can only change a named reaction.") + else: + m.mcell_modify_rate_constant( + self._world, rxn.name, new_rate_constant) + + def run_iteration(self) -> None: + """ Run a single iteration. """ + if self._finished: + print("The simulation is done running") + return + + if not self._started: + m.mcell_init_simulation(self._world) + m.mcell_init_output(self._world) + self._started = True + if self._current_iteration <= self._iterations: + m.mcell_run_iteration(self._world, self._output_freq, 0) +# You have to kill it now or it will hang + if self._current_iteration == self._iterations: + m.mcell_flush_data(self._world) + m.mcell_print_final_warnings(self._world) + m.mcell_print_final_statistics(self._world) + self._finished = True + self._current_iteration += 1 + + def run_sim(self) -> None: + """ Run the entire simulation without interruption. """ + if self._finished: + print("The simulation is done running") + return + + m.mcell_init_simulation(self._world) + m.mcell_init_output(self._world) + + for i in range(self._iterations+1): + m.mcell_run_iteration(self._world, self._output_freq, 0) + m.mcell_flush_data(self._world) + m.mcell_print_final_warnings(self._world) + m.mcell_print_final_statistics(self._world) + self._finished = True + + def end_sim(self) -> None: + """ Call this if we end the simulation early """ + if self._started and not self._finished: + m.mcell_flush_data(self._world) + m.mcell_print_final_warnings(self._world) + m.mcell_print_final_statistics(self._world) + self._finished = True + + +def create_partitions(world, axis, start, stop, step): + expr_list = m.num_expr_list_head() + expr_list.value_head = None + expr_list.value_tail = None + expr_list.value_count = 0 + expr_list.shared = 1 + m.mcell_generate_range(expr_list, start, stop, step) + expr_list.shared = 1 + m.mcell_set_partition(world, axis, expr_list) + + +def create_release_pattern( + world, name, delay=0, release_interval=1e20, train_interval=1e20, + train_duration=1e20, number_of_trains=1): + """Create a release pattern + + Args: + world (object) -- the world object which has been generated by + mcell create_instance_object + name -- name of the release pattern + other arguments -- as listed + """ + + return m.mcell_create_release_pattern( + world, name, delay, release_interval, train_interval, train_duration, + number_of_trains) + + +def create_count(world, where, mol_sym, file_path, step): + """Creates a count for a specified molecule in a specified region + and initializes an output block for the count data that will be + generated. + + Args: + world (object) -- the world object which has been generated by + mcell create_instance_object + where (sym_entry) -- symbol entry for the location you want to + record + mol_sym (sym_entry) -- symbol entry for the molecule + file_path (dir) -- name of the file path to output the data to + step -- frequency of output in seconds + + Returns: + The return values count list, output set, output times and + output structure + + """ + report_flags = m.REPORT_CONTENTS + c_list = m.output_column_list() +# XXX: m.ORIENT_NOT_SET is using -100 instead of SHRT_MIN (used typemap +# for mcell_create_count in mcell_react_out.i) because limits.h does not +# work well with swig + count_list = m.mcell_create_count( + world, mol_sym, m.ORIENT_NOT_SET, where, report_flags, None, c_list) + + os = m.output_set() + os = m.mcell_create_new_output_set( + None, 0, count_list.column_head, m.FILE_SUBSTITUTE, file_path) + + out_times = m.output_times_inlist() + out_times.type = m.OUTPUT_BY_STEP + out_times.step = step + + output = m.output_set_list() + output.set_head = os + output.set_tail = os + + m.mcell_add_reaction_output_block(world, output, 10000, out_times) + + return (count_list, os, out_times, output) + + +def create_species(world, name, D, is_2d, custom_time_step=0): + """Creates a molecule species + + Args: + world (object) -- the world object which has been generated by + mcell create_instance_object + name (string) -- Name of the molecule species that will be + generated + D (double) -- Diffusion Coefficient for the molecule species + that will be generated. + is_2d (bool) -- Boolean describing whether new species is a + surface molecule + custom_time_step -- Custom time step (< 0.0 for a custom space step, + >0.0 for custom timestep, 0.0 for default timestep) + Returns: + (mcell_symbol) Returns a species sym_entry + + """ + species_def = m.mcell_species_spec() + species_def.name = name + species_def.D = D + is_2d = 1 if is_2d else 0 + species_def.is_2d = is_2d + species_def.custom_time_step = custom_time_step + species_def.target_only = 0 + species_def.max_step_length = 0 + + species_temp_sym = m.mcell_symbol() + species_sym = m.mcell_create_species( + world, species_def, species_temp_sym) + + return species_sym + + +def create_reaction( + world, reactants, products, rate_constant, + backward_rate_constant=0.0, surf_class=None, name=None): + """Creates a molecular reaction + + Args: + world (object) -- the world object which has been generated by + mcell create_instance_object + reactants (mcell_species_list) -- list of species that are the + reactants for the reaction + products (mcell_species_list) -- list of species that are the + products for the reaction + rate_constant (double) -- the rate constant for the forward + direction reaction -> product + backward_rate_constant (double)(optional) -- the rate constant + for the backward direction reaction <- product + surf_class (mcell species list surface class)(optional) -- the + surface class upon which the reaction will happen + name (string)(optional) -- Name of the reaction + + Returns: + void -- creates a reaction, by generating reaction_rates + structure + + """ + + if surf_class: +# Do nothing, surf_class has been added and a null object is not needed + pass + else: + surf_class = m.mcell_add_to_species_list(None, False, 0, None) + + arrow = m.reaction_arrow() +# reversible reaction e.g. A<->B + if backward_rate_constant: + arrow.flags = m.ARROW_BIDIRECTIONAL + rate_constant = m.mcell_create_reaction_rates( + m.RATE_CONSTANT, rate_constant, m.RATE_CONSTANT, + backward_rate_constant) +# irreversible reaction e.g. A->B + else: + arrow.flags = m.REGULAR_ARROW + rate_constant = m.mcell_create_reaction_rates( + m.RATE_CONSTANT, rate_constant, m.RATE_UNSET, 0) + arrow.catalyst = m.mcell_species() + arrow.catalyst.next = None + arrow.catalyst.mol_type = None + arrow.catalyst.orient_set = 0 + arrow.catalyst.orient = 0 + + if (name): + name_sym = m.mcell_new_rxn_pathname(world, name) + else: + name_sym = None + m.mcell_add_reaction_simplified( + world, reactants, arrow, surf_class, products, rate_constant, name_sym) + + +def create_instance_object(world, name): + """Creates an instance object. Simple translation from wrapped code + to python function. Frees the user from having to initialize the + scene object and then pass it in and generate the object. + + Args: + world (object) -- the world object which has been generated by + mcell create_instance_object + name (string) -- name of the instance object + + Returns: + instance object + + """ + scene_temp = m.object() + return m.mcell_create_instance_object(world, name, scene_temp) + + +def create_surf_class(world, name): + """Creates a surface class. Simple translation from wrapped code to + python function Frees the user from having to initialize the surface + class symbol and then pass it in and generate the object. + + Args: + world (object) -- the world object which has been generated by + mcell create_instance_object + name (string) -- name of the instance object + + Returns: + mcell_symbol for surface class + + """ + + sc_temp = m.mcell_symbol() + return m.mcell_create_surf_class(world, name, sc_temp) + + +def create_list_release_site( + world, scene, mol_list, xpos, ypos, zpos, name, surf_flags=None, + orientations=None, diameter=1e-4): + ''' + Creates a list release site + All is self explanatory except mol_list: + This is a list of "mol_sym" that you get back when you create the species. + This is a Python list - it is converted to a species list in this function + for you. By default, assumes all molecules are volume molecules. Else, need + to pass surf_flags=[True,True,False,...] and their orientations = + [1,0,1,...] Diameter is the diameter we search for to place a surface mol + It can be None (= NULL in C) but then we do a poor job of placing surface + mols + ''' + +# Check that they're all the same length + n = len(mol_list) + if len(xpos) != n or len(ypos) != n or len(zpos) != n: + raise ValueError("All lists must have the same length.") + +# Check that if there are surface molecules + if surf_flags is not None: +# Check that there are enough + if len(surf_flags) != n or len(orientations) != n: + raise ValueError( + "surf_flags and orientations lists must have the same lengths " + "as the others.") + +# Convert to floats (can't be int) + xpos = [float(q) for q in xpos] + ypos = [float(q) for q in ypos] + zpos = [float(q) for q in zpos] + +# Diameter + diam = m.vector3() + diam.x = diameter + diam.y = diameter + diam.z = diameter + +# Mols + mol_list.reverse() + species_list = None +# All volume molecules + if surf_flags is None: + for mol_sym in mol_list: + species_list = m.mcell_add_to_species_list( + mol_sym, False, 0, species_list) + else: + for i, mol_sym in enumerate(mol_list): + species_list = m.mcell_add_to_species_list( + mol_sym, surf_flags[i], orientations[i], species_list) + + rel_object = m.object() + ret = m.mcell_create_list_release_site( + world, scene, name, species_list, xpos, ypos, zpos, n, diam, + rel_object) +# Delete the species list + m.mcell_delete_species_list(species_list) + +# VERY IMPORTANT HERE - MUST RETURN "ret" +# If we throw this away, all is lost.... + return (rel_object, ret) + + +def create_release_site( + world, scene, pos, diam, shape, number, number_type, mol_sym, name): + """Creates a molecule release site + + Args: + world (object) -- the world object which has been generated by + mcell create_instance_object + scene (instance object) -- scene for mcell simulation + pos (vector3) -- position of release site + diam (vector3) -- diameter of release site + number (int or float) -- number to be release at release site + number_type (int) -- 0 for NUMBER, 1 for CONCENTRATION + mol_sym (mcell_symbol) -- species to be released + name (string) -- name of the release site + + Returns: + void -- generates a species release site + + """ + + position = m.vector3() + position.x = pos.x + position.y = pos.y + position.z = pos.z + diameter = m.vector3() + diameter.x = diam.x + diameter.y = diam.y + diameter.z = diam.z + + mol_list = m.mcell_add_to_species_list(mol_sym, False, 0, None) + rel_object = m.object() + release_object = m.mcell_create_geometrical_release_site( + world, scene, name, shape, position, diameter, mol_list, float(number), + number_type, 1, None, rel_object) + m.mcell_delete_species_list(mol_list) + + return (position, diameter, release_object) + + +def create_region_release_site( + world, scene, mesh, release_name, reg_name, number, number_type, + mol_sym): + """Creates a release site on a specific region + + Args: + world (object) -- the world object which has been generated by + mcell create_instance_object + scene (instance object) -- scene for mcell simulation + mesh (mesh object) -- scene object where the release will occur + release_name (string) -- name of the region release site + reg_name (string) -- name of the region for the release site + number (int or float) -- number to be released at the region release + site + number_type (int) -- 0 for NUMBER, 1 for CONCENTRATION + mol_sym (mcell_symbol) -- species to be released + + Returns: + release object (object) + + """ + + mol_list = m.mcell_add_to_species_list(mol_sym, False, 0, None) + rel_object = m.object() + release_object = m.mcell_create_region_release( + world, scene, mesh, release_name, reg_name, mol_list, float(number), + number_type, 1, None, rel_object) + m.mcell_delete_species_list(mol_list) + + return release_object + + +def create_box(world, scene, half_length, name): + """Creates the verteces and lines of a cube object at the origin + + Args: + half_length (double) -- half length of the cube + + Returns: + vertex list and element connection list + + """ + + hl = half_length + verts = m.mcell_add_to_vertex_list(hl, hl, -hl, None) + verts = m.mcell_add_to_vertex_list(hl, -hl, -hl, verts) + verts = m.mcell_add_to_vertex_list(-hl, -hl, -hl, verts) + verts = m.mcell_add_to_vertex_list(-hl, hl, -hl, verts) + verts = m.mcell_add_to_vertex_list(hl, hl, hl, verts) + verts = m.mcell_add_to_vertex_list(hl, -hl, hl, verts) + verts = m.mcell_add_to_vertex_list(-hl, -hl, hl, verts) + verts = m.mcell_add_to_vertex_list(-hl, hl, hl, verts) + + elems = m.mcell_add_to_connection_list(1, 2, 3, None) + elems = m.mcell_add_to_connection_list(7, 6, 5, elems) + elems = m.mcell_add_to_connection_list(0, 4, 5, elems) + elems = m.mcell_add_to_connection_list(1, 5, 6, elems) + elems = m.mcell_add_to_connection_list(6, 7, 3, elems) + elems = m.mcell_add_to_connection_list(0, 3, 7, elems) + elems = m.mcell_add_to_connection_list(0, 1, 3, elems) + elems = m.mcell_add_to_connection_list(4, 7, 5, elems) + elems = m.mcell_add_to_connection_list(1, 0, 5, elems) + elems = m.mcell_add_to_connection_list(2, 1, 6, elems) + elems = m.mcell_add_to_connection_list(2, 6, 3, elems) + elems = m.mcell_add_to_connection_list(4, 0, 7, elems) + + pobj = m.poly_object() + pobj.obj_name = name + pobj.vertices = verts + pobj.num_vert = 8 + pobj.connections = elems + pobj.num_conn = 12 + + mesh_temp = m.object() + mesh = m.mcell_create_poly_object(world, scene, pobj, mesh_temp) + + return mesh + + +def change_geometry(world, scene_name, obj_list): + + pobj_list = None + verts = None + elems = None + + for p in obj_list: + + verts = None + for x, y, z in p.vert_list: + verts = m.mcell_add_to_vertex_list(x, y, z, verts) + + elems = None + for x, y, z in p.face_list: + elems = m.mcell_add_to_connection_list(x, y, z, elems) + + pobj = m.poly_object() + pobj.obj_name = p.obj_name + pobj.vertices = verts + pobj.num_vert = len(p.vert_list) + pobj.connections = elems + pobj.num_conn = len(p.face_list) + + surf_reg_faces = None + for idx in p.surf_reg_face_list: + surf_reg_faces = m.mcell_add_to_region_list(surf_reg_faces, idx) + + pobj_list = m.mcell_add_to_poly_obj_list( + pobj_list, p.obj_name, verts, len(p.vert_list), elems, + len(p.face_list), surf_reg_faces, p.reg_name) + + m.mcell_change_geometry(world, pobj_list) + + +def create_polygon_object(world, vert_list, face_list, scene, name, translation=None): + """Creates a polygon object from a vertex and element lest + + Args: + world (object) -- the world object which has been generated by + mcell create_instance_object + vert_list (vertex list) -- verteces for the polygon + face_list (element connection list) -- faces for the polygon + scene (instance object) -- scene for mcell simulation + name (string) -- name of polygon object that will be created + + Returns: + polygon object + """ + + verts = None + vert_list = vert_list[::-1] + t = translation + if t: + for x, y, z in vert_list: + verts = m.mcell_add_to_vertex_list(x+t[0], y+t[1], z+t[2], verts) + else: + for x, y, z in vert_list: + verts = m.mcell_add_to_vertex_list(x, y, z, verts) + + elems = None + face_list = face_list[::-1] + for x, y, z in face_list: + elems = m.mcell_add_to_connection_list(x, y, z, elems) + + pobj = m.poly_object() + pobj.obj_name = name + pobj.vertices = verts + pobj.num_vert = len(vert_list) + pobj.connections = elems + pobj.num_conn = len(face_list) + + mesh_temp = m.object() + mesh = m.mcell_create_poly_object(world, scene, pobj, mesh_temp) + + return mesh + + +def create_surface_region(world, mesh, surf_reg_face_list, region_name): + """Creates a surface region + + Args: + world (object) -- the world object which has been generated by + mcell create_instance_object + mesh (polygon object) -- object where surface region will reside + surf_reg_face_list (element connection list) -- list of surface + region faces + region_name (string) -- name of the surface region being created + + Returns: + region object + + """ + + surface_region = m.mcell_create_region(world, mesh, region_name) + + surf_reg_faces = None + for idx in surf_reg_face_list: + surf_reg_faces = m.mcell_add_to_region_list(surf_reg_faces, idx) + + m.mcell_set_region_elements(surface_region, surf_reg_faces, 1) + + return surface_region + +import pymcell as m +import json +import pickle +import logging +from typing import List, Dict, Tuple, Any + + +def read_json_data_model(file_name: str) -> Dict[str, Any]: + """ Read a CellBlender data model in JSON format """ + with open(file_name, 'r') as f: + json_model = f.read() + data_model = json.loads(json_model) + logging.info("Reading data model {}".format(file_name)) + return data_model + + +def read_pickle_data_model(file_name) -> Dict[str, Any]: + """ Read a pickled CellBlender data model """ + pickle_model = pickle.load( open( file_name, "rb" ) ) + logging.info("Reading data model {}".format(file_name)) + return pickle_model + + +def create_species_from_dm( + data_model: Dict[str, Any]) -> Dict[str, m.Species]: + """ Create a dictionary of Species from a CB data model """ + logging.info("Creating species from data model") + species_dm_list = data_model['mcell']['define_molecules']['molecule_list'] + species_dict = {} + for species_dm in species_dm_list: + species_name = species_dm['mol_name'] + dc = float(species_dm['diffusion_constant']) + species_type = species_dm['mol_type'] + surface = False + if species_type == '2D': + surface = True + species_dm = m.Species(species_name, dc, surface) + species_dict[species_name] = species_dm + return species_dict + + +def make_spec_orient_list( + mol_str_list: List[str], + species: Dict[str, m.Species]) -> List[Tuple[m.Species, m.Orient]]: + spec_orient_list = [] + for r in mol_str_list: + if r.endswith("'") or r.endswith(",") or r.endswith(";"): + r_str = r[:-1] + r_orient = r[-1] + if r_orient == "'": + orient = m.Orient.up + elif r_orient == ",": + orient = m.Orient.down + elif r_orient == ";": + orient = m.Orient.mix + else: + orient = m.Orient.mix + spec = species[r_str] + spec_orient_list.append(m.OrientedSpecies(spec, orient)) + else: + spec = species[r] + spec_orient_list.append(spec) + return spec_orient_list + + +def create_reactions_from_dm( + data_model: Dict[str, Any], + species: Dict[str, m.Species]) -> List[m.Reaction]: + """ Create a dictionary of Reactions from a CB data model """ + logging.info("Creating reactions from data model") + rxn_dm_list = data_model['mcell']['define_reactions']['reaction_list'] + rxn_list = [] + for rxn_dm in rxn_dm_list: +# rxn_name = rxn_dm['rxn_name'] + fwd_rate = float(rxn_dm['fwd_rate']) +# try: +# bkwd_rate = float(rxn_dm['bkwd_rate']) +# except ValueError: +# pass + reactants_str_list = rxn_dm['reactants'].split(" + ") + products_str_list = rxn_dm['products'].split(" + ") + r_list = make_spec_orient_list(reactants_str_list, species) + p_list = make_spec_orient_list(products_str_list, species) +# rxn_type = rxn_dm['rxn_type'] + rxn_dm = m.Reaction(r_list, p_list, fwd_rate) + rxn_list.append(rxn_dm) + return rxn_list + + +def create_meshobjs_from_dm( + dm: Dict[str, Any]) -> Dict[str, m.MeshObj]: + """ Create a dictionary of MeshObj objects from a CB data model """ + logging.info("Creating mesh objects from data model") + meshobj_dm_list = dm['mcell']['geometrical_objects']['object_list'] + meshobj_dict = {} + for meshobj_dm in meshobj_dm_list: + name = meshobj_dm['name'] + vert_list = meshobj_dm['vertex_list'] + face_list = meshobj_dm['element_connections'] + meshobj = m.MeshObj(name, vert_list, face_list) + try: + for reg_dm in meshobj_dm['define_surface_regions']: + reg_name = reg_dm['name'] + face_list = reg_dm['include_elements'] + m.SurfaceRegion(meshobj, reg_name, face_list) + except KeyError: + pass + meshobj_dict[name] = meshobj + return meshobj_dict + + +def create_surface_classes_from_dm( + dm: Dict[str, Any], + world: m.MCellSim, + spec_dict: Dict[str, m.Species]) -> Dict[str, m.SurfaceClass]: + """ Create a dictionary of SurfaceClass objects from a CB data model """ + logging.info("Creating surface classes from data model") + sc_dm_list = dm['mcell']['define_surface_classes']['surface_class_list'] + sc_dict = {} + for sc_dm in sc_dm_list: + sc_name = sc_dm['name'] + for sc_prop_dm in sc_dm['surface_class_prop_list']: + if sc_prop_dm['affected_mols'] == 'SINGLE': + spec_name = sc_prop_dm['molecule'] + else: +# XXX: Need to add in case for ALL_MOLECULES, +# ALL_SURFACE_MOLECULES, etc. + pass + spec = spec_dict[spec_name] + sc_enums = {"TRANSPARENT": m.SC.transp , "REFLECTIVE": m.SC.reflect, "ABSORPTIVE": m.SC.absorb } + surf_class_type = sc_enums[sc_prop_dm['surf_class_type']] + odict = {"'": Orient.up, ",": Orient.down, ";": Orient.mix} + orient = odict[sc_prop_dm['surf_class_orient']] + spec_orient = OrientedSpecies(spec, orient) + sc = m.SurfaceClass(surf_class_type, spec_orient, name=sc_name) + sc_dict[sc_name] = sc + return sc_dict + + +def create_mod_surf_reg_from_dm( + dm: Dict[str, Any], + world: m.MCellSim, + sc_dict: Dict[str, m.SurfaceClass], + meshobj_dict: Dict[str, m.MeshObj]) -> None: + logging.info("Creating surface region modifications from data model") + mod_sr_list = dm['mcell']['modify_surface_regions']['modify_surface_regions_list'] + for mod_sr in mod_sr_list: + object_name = mod_sr['object_name'] + region_name = mod_sr['region_name'] + surf_class_name = mod_sr['surf_class_name'] + sc = sc_dict[surf_class_name] + meshobj = meshobj_dict[object_name] + for reg in meshobj.regions: + if reg.reg_name == region_name: + world.assign_surf_class(sc, reg) + break + + +def create_release_sites_from_dm( + data_model: Dict[str, Any], + world: m.MCellSim, + meshobjs: Dict[str, m.MeshObj], + species: Dict[str, m.Species]) -> None: + logging.info("Creating release sites from data model") + rel_site_dm_list = \ + data_model['mcell']['release_sites']['release_site_list'] + for rel_site_dm in rel_site_dm_list: + rel_site_name = rel_site_dm['name'] + object_expr = rel_site_dm['object_expr'] + idx = object_expr.find("[") + if idx > 0: + object_name = object_expr[:idx] + reg_name = object_expr[idx+1:-1] + else: + object_name = object_expr + reg_name = "" + meshobj = meshobjs[object_name] + spec_name = rel_site_dm['molecule'] + spec = species[spec_name] + quantity = int(rel_site_dm['quantity']) + orient = rel_site_dm['orient'] + odict = {"'": Orient.up, ",": Orient.down, ";": Orient.mix} + spec_orient = OrientedSpecies(spec, odict[orient]) +# XXX: this is really clunky. + reg = None + for r in meshobj.regions: + if r.reg_name == reg_name: + reg = r + break + if reg: + rel = m.ObjectRelease(spec_orient, number=quantity, region=reg) + else: + rel = m.ObjectRelease(spec_orient, number=quantity, mesh_obj=meshobj) + world.release(rel) + + +def create_reaction_data_from_dm( + data_model: Dict[str, Any], + world: m.MCellSim, + meshobjs: Dict[str, m.MeshObj], + species: Dict[str, m.Species]) -> None: + logging.info("Creating reactions from data model") + rxn_out_dm_list = \ + data_model['mcell']['reaction_data_output']['reaction_output_list'] + for rxn_out_dm in rxn_out_dm_list: + molecule_name = rxn_out_dm['molecule_name'] + spec = species[molecule_name] + count_location = rxn_out_dm['count_location'] + if count_location == "Object": + object_name = rxn_out_dm['object_name'] + meshobj = meshobjs[object_name] + world.add_count(spec, mesh_obj=meshobj) + elif count_location == "Region": + region_name = rxn_out_dm['region_name'] + object_name = rxn_out_dm['object_name'] + meshobj = meshobjs[object_name] + for reg in meshobj.regions: + if reg.reg_name == region_name: + world.add_count(spec, reg=reg) + else: + world.add_count(spec) + + +def create_viz_data_from_dm( + data_model: Dict, + world: m.MCellSim, + species: Dict[str, m.Species]) -> None: + logging.info("Creating visualization data from data model") + species_dm_list = data_model['mcell']['define_molecules']['molecule_list'] + export_all = data_model['mcell']['viz_output']['export_all'] + species_list = [] + for species_dm in species_dm_list: + if export_all or species_dm['export_viz']: + species_name = species_dm['mol_name'] + spec = species[species_name] + species_list.append(spec) + world.add_viz(species_list) + + +def create_initializations_from_dm( + data_model: Dict, + world: m.MCellSim) -> None: + logging.info("Creating initializations from data model") + initialization = data_model['mcell']['initialization'] + iterations = int(initialization['iterations']) + time_step = float(initialization['time_step']) + world.set_iterations(iterations) + world.set_time_step(time_step) + +MCELL_SUCCESS = _pymcell.MCELL_SUCCESS +MCELL_FAIL = _pymcell.MCELL_FAIL +class num_expr_list_head(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, num_expr_list_head, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, num_expr_list_head, name) + __repr__ = _swig_repr + __swig_setmethods__["value_head"] = _pymcell.num_expr_list_head_value_head_set + __swig_getmethods__["value_head"] = _pymcell.num_expr_list_head_value_head_get + if _newclass: + value_head = _swig_property(_pymcell.num_expr_list_head_value_head_get, _pymcell.num_expr_list_head_value_head_set) + __swig_setmethods__["value_tail"] = _pymcell.num_expr_list_head_value_tail_set + __swig_getmethods__["value_tail"] = _pymcell.num_expr_list_head_value_tail_get + if _newclass: + value_tail = _swig_property(_pymcell.num_expr_list_head_value_tail_get, _pymcell.num_expr_list_head_value_tail_set) + __swig_setmethods__["value_count"] = _pymcell.num_expr_list_head_value_count_set + __swig_getmethods__["value_count"] = _pymcell.num_expr_list_head_value_count_get + if _newclass: + value_count = _swig_property(_pymcell.num_expr_list_head_value_count_get, _pymcell.num_expr_list_head_value_count_set) + __swig_setmethods__["shared"] = _pymcell.num_expr_list_head_shared_set + __swig_getmethods__["shared"] = _pymcell.num_expr_list_head_shared_get + if _newclass: + shared = _swig_property(_pymcell.num_expr_list_head_shared_get, _pymcell.num_expr_list_head_shared_set) + + def __init__(self, *args): + """__init__(self) -> num_expr_list_head""" + this = _pymcell.new_num_expr_list_head(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_num_expr_list_head + __del__ = lambda self: None +num_expr_list_head_swigregister = _pymcell.num_expr_list_head_swigregister +num_expr_list_head_swigregister(num_expr_list_head) + + +def mcell_set_seed(state: 'MCELL_STATE *', seed: 'int') -> "void": + return _pymcell.mcell_set_seed(state, seed) +mcell_set_seed = _pymcell.mcell_set_seed + +def mcell_create() -> "MCELL_STATE *": + return _pymcell.mcell_create() +mcell_create = _pymcell.mcell_create + +def mcell_init_state(state: 'MCELL_STATE *') -> "MCELL_STATUS": + return _pymcell.mcell_init_state(state) +mcell_init_state = _pymcell.mcell_init_state + +def mcell_init_simulation(state: 'MCELL_STATE *') -> "MCELL_STATUS": + return _pymcell.mcell_init_simulation(state) +mcell_init_simulation = _pymcell.mcell_init_simulation + +def mcell_init_read_checkpoint(state: 'MCELL_STATE *') -> "MCELL_STATUS": + return _pymcell.mcell_init_read_checkpoint(state) +mcell_init_read_checkpoint = _pymcell.mcell_init_read_checkpoint + +def mcell_init_output(state: 'MCELL_STATE *') -> "MCELL_STATUS": + return _pymcell.mcell_init_output(state) +mcell_init_output = _pymcell.mcell_init_output + +def mcell_set_partition(state: 'MCELL_STATE *', dim: 'int', head: 'num_expr_list_head') -> "MCELL_STATUS": + return _pymcell.mcell_set_partition(state, dim, head) +mcell_set_partition = _pymcell.mcell_set_partition + +def mcell_set_time_step(state: 'MCELL_STATE *', step: 'double') -> "MCELL_STATUS": + return _pymcell.mcell_set_time_step(state, step) +mcell_set_time_step = _pymcell.mcell_set_time_step + +def mcell_set_iterations(state: 'MCELL_STATE *', iterations: 'long long') -> "MCELL_STATUS": + return _pymcell.mcell_set_iterations(state, iterations) +mcell_set_iterations = _pymcell.mcell_set_iterations + +def mcell_silence_notifications(state: 'MCELL_STATE *') -> "MCELL_STATUS": + return _pymcell.mcell_silence_notifications(state) +mcell_silence_notifications = _pymcell.mcell_silence_notifications + +def mcell_enable_notifications(state: 'MCELL_STATE *') -> "MCELL_STATUS": + return _pymcell.mcell_enable_notifications(state) +mcell_enable_notifications = _pymcell.mcell_enable_notifications + +def mcell_silence_warnings(state: 'MCELL_STATE *') -> "MCELL_STATUS": + return _pymcell.mcell_silence_warnings(state) +mcell_silence_warnings = _pymcell.mcell_silence_warnings + +def mcell_enable_warnings(state: 'MCELL_STATE *') -> "MCELL_STATUS": + return _pymcell.mcell_enable_warnings(state) +mcell_enable_warnings = _pymcell.mcell_enable_warnings + +def mcell_print_version() -> "void": + return _pymcell.mcell_print_version() +mcell_print_version = _pymcell.mcell_print_version + +def mcell_print_usage(executable_name: 'char const *') -> "void": + return _pymcell.mcell_print_usage(executable_name) +mcell_print_usage = _pymcell.mcell_print_usage + +def mcell_print_stats() -> "void": + return _pymcell.mcell_print_stats() +mcell_print_stats = _pymcell.mcell_print_stats + +def mcell_argparse(argc: 'int', argv: 'char **', state: 'MCELL_STATE *') -> "int": + return _pymcell.mcell_argparse(argc, argv, state) +mcell_argparse = _pymcell.mcell_argparse + +def mcell_copysort_numeric_list(head: 'num_expr_list') -> "struct num_expr_list *": + return _pymcell.mcell_copysort_numeric_list(head) +mcell_copysort_numeric_list = _pymcell.mcell_copysort_numeric_list + +def mcell_sort_numeric_list(head: 'num_expr_list') -> "void": + return _pymcell.mcell_sort_numeric_list(head) +mcell_sort_numeric_list = _pymcell.mcell_sort_numeric_list + +def mcell_free_numeric_list(nel: 'num_expr_list') -> "void": + return _pymcell.mcell_free_numeric_list(nel) +mcell_free_numeric_list = _pymcell.mcell_free_numeric_list + +def mcell_generate_range(list: 'num_expr_list_head', start: 'double', end: 'double', step: 'double') -> "MCELL_STATUS": + return _pymcell.mcell_generate_range(list, start, end, step) +mcell_generate_range = _pymcell.mcell_generate_range + +def mcell_generate_range_singleton(lh: 'num_expr_list_head', value: 'double') -> "int": + return _pymcell.mcell_generate_range_singleton(lh, value) +mcell_generate_range_singleton = _pymcell.mcell_generate_range_singleton + +def mcell_print(message: 'char const *') -> "void": + return _pymcell.mcell_print(message) +mcell_print = _pymcell.mcell_print +class object_creation(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, object_creation, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, object_creation, name) + __repr__ = _swig_repr + __swig_setmethods__["object_name_list"] = _pymcell.object_creation_object_name_list_set + __swig_getmethods__["object_name_list"] = _pymcell.object_creation_object_name_list_get + if _newclass: + object_name_list = _swig_property(_pymcell.object_creation_object_name_list_get, _pymcell.object_creation_object_name_list_set) + __swig_setmethods__["object_name_list_end"] = _pymcell.object_creation_object_name_list_end_set + __swig_getmethods__["object_name_list_end"] = _pymcell.object_creation_object_name_list_end_get + if _newclass: + object_name_list_end = _swig_property(_pymcell.object_creation_object_name_list_end_get, _pymcell.object_creation_object_name_list_end_set) + __swig_setmethods__["current_object"] = _pymcell.object_creation_current_object_set + __swig_getmethods__["current_object"] = _pymcell.object_creation_current_object_get + if _newclass: + current_object = _swig_property(_pymcell.object_creation_current_object_get, _pymcell.object_creation_current_object_set) + + def __init__(self, *args): + """__init__(self) -> object_creation""" + this = _pymcell.new_object_creation(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_object_creation + __del__ = lambda self: None +object_creation_swigregister = _pymcell.object_creation_swigregister +object_creation_swigregister(object_creation) + +class poly_object(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, poly_object, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, poly_object, name) + __repr__ = _swig_repr + __swig_setmethods__["obj_name"] = _pymcell.poly_object_obj_name_set + __swig_getmethods__["obj_name"] = _pymcell.poly_object_obj_name_get + if _newclass: + obj_name = _swig_property(_pymcell.poly_object_obj_name_get, _pymcell.poly_object_obj_name_set) + __swig_setmethods__["vertices"] = _pymcell.poly_object_vertices_set + __swig_getmethods__["vertices"] = _pymcell.poly_object_vertices_get + if _newclass: + vertices = _swig_property(_pymcell.poly_object_vertices_get, _pymcell.poly_object_vertices_set) + __swig_setmethods__["num_vert"] = _pymcell.poly_object_num_vert_set + __swig_getmethods__["num_vert"] = _pymcell.poly_object_num_vert_get + if _newclass: + num_vert = _swig_property(_pymcell.poly_object_num_vert_get, _pymcell.poly_object_num_vert_set) + __swig_setmethods__["connections"] = _pymcell.poly_object_connections_set + __swig_getmethods__["connections"] = _pymcell.poly_object_connections_get + if _newclass: + connections = _swig_property(_pymcell.poly_object_connections_get, _pymcell.poly_object_connections_set) + __swig_setmethods__["num_conn"] = _pymcell.poly_object_num_conn_set + __swig_getmethods__["num_conn"] = _pymcell.poly_object_num_conn_get + if _newclass: + num_conn = _swig_property(_pymcell.poly_object_num_conn_get, _pymcell.poly_object_num_conn_set) + + def __init__(self, *args): + """__init__(self) -> poly_object""" + this = _pymcell.new_poly_object(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_poly_object + __del__ = lambda self: None +poly_object_swigregister = _pymcell.poly_object_swigregister +poly_object_swigregister(poly_object) + +class poly_object_list(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, poly_object_list, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, poly_object_list, name) + __repr__ = _swig_repr + __swig_setmethods__["obj_name"] = _pymcell.poly_object_list_obj_name_set + __swig_getmethods__["obj_name"] = _pymcell.poly_object_list_obj_name_get + if _newclass: + obj_name = _swig_property(_pymcell.poly_object_list_obj_name_get, _pymcell.poly_object_list_obj_name_set) + __swig_setmethods__["vertices"] = _pymcell.poly_object_list_vertices_set + __swig_getmethods__["vertices"] = _pymcell.poly_object_list_vertices_get + if _newclass: + vertices = _swig_property(_pymcell.poly_object_list_vertices_get, _pymcell.poly_object_list_vertices_set) + __swig_setmethods__["num_vert"] = _pymcell.poly_object_list_num_vert_set + __swig_getmethods__["num_vert"] = _pymcell.poly_object_list_num_vert_get + if _newclass: + num_vert = _swig_property(_pymcell.poly_object_list_num_vert_get, _pymcell.poly_object_list_num_vert_set) + __swig_setmethods__["connections"] = _pymcell.poly_object_list_connections_set + __swig_getmethods__["connections"] = _pymcell.poly_object_list_connections_get + if _newclass: + connections = _swig_property(_pymcell.poly_object_list_connections_get, _pymcell.poly_object_list_connections_set) + __swig_setmethods__["num_conn"] = _pymcell.poly_object_list_num_conn_set + __swig_getmethods__["num_conn"] = _pymcell.poly_object_list_num_conn_get + if _newclass: + num_conn = _swig_property(_pymcell.poly_object_list_num_conn_get, _pymcell.poly_object_list_num_conn_set) + __swig_setmethods__["surf_reg_faces"] = _pymcell.poly_object_list_surf_reg_faces_set + __swig_getmethods__["surf_reg_faces"] = _pymcell.poly_object_list_surf_reg_faces_get + if _newclass: + surf_reg_faces = _swig_property(_pymcell.poly_object_list_surf_reg_faces_get, _pymcell.poly_object_list_surf_reg_faces_set) + __swig_setmethods__["reg_name"] = _pymcell.poly_object_list_reg_name_set + __swig_getmethods__["reg_name"] = _pymcell.poly_object_list_reg_name_get + if _newclass: + reg_name = _swig_property(_pymcell.poly_object_list_reg_name_get, _pymcell.poly_object_list_reg_name_set) + __swig_setmethods__["next"] = _pymcell.poly_object_list_next_set + __swig_getmethods__["next"] = _pymcell.poly_object_list_next_get + if _newclass: + next = _swig_property(_pymcell.poly_object_list_next_get, _pymcell.poly_object_list_next_set) + + def __init__(self, *args): + """__init__(self) -> poly_object_list""" + this = _pymcell.new_poly_object_list(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_poly_object_list + __del__ = lambda self: None +poly_object_list_swigregister = _pymcell.poly_object_list_swigregister +poly_object_list_swigregister(poly_object_list) + + +def mcell_create_instance_object(state: 'MCELL_STATE *', name: 'char *', new_object: 'struct object **') -> "struct object **": + return _pymcell.mcell_create_instance_object(state, name, new_object) +mcell_create_instance_object = _pymcell.mcell_create_instance_object + +def mcell_create_poly_object(state: 'MCELL_STATE *', parent: 'object', poly_obj: 'poly_object', new_object: 'struct object **') -> "struct object **": + return _pymcell.mcell_create_poly_object(state, parent, poly_obj, new_object) +mcell_create_poly_object = _pymcell.mcell_create_poly_object + +def new_polygon_list(state: 'MCELL_STATE *', obj_ptr: 'object', n_vertices: 'int', vertices: 'struct vertex_list *', n_connections: 'int', connections: 'struct element_connection_list *') -> "struct polygon_object *": + return _pymcell.new_polygon_list(state, obj_ptr, n_vertices, vertices, n_connections, connections) +new_polygon_list = _pymcell.new_polygon_list + +def make_new_object(dg_parse: 'struct dyngeom_parse_vars *', obj_sym_table: 'sym_table_head', obj_name: 'char *', error_code: 'int *') -> "struct object *": + return _pymcell.make_new_object(dg_parse, obj_sym_table, obj_name, error_code) +make_new_object = _pymcell.make_new_object + +def push_object_name(obj_creation: 'object_creation', name: 'char *') -> "char *": + return _pymcell.push_object_name(obj_creation, name) +push_object_name = _pymcell.push_object_name + +def pop_object_name(obj_creation: 'object_creation') -> "void": + return _pymcell.pop_object_name(obj_creation) +pop_object_name = _pymcell.pop_object_name + +def mcell_add_to_vertex_list(x: 'double', y: 'double', z: 'double', vertices: 'struct vertex_list *') -> "struct vertex_list *": + return _pymcell.mcell_add_to_vertex_list(x, y, z, vertices) +mcell_add_to_vertex_list = _pymcell.mcell_add_to_vertex_list + +def free_vertex_list(vert_list: 'struct vertex_list *') -> "void": + return _pymcell.free_vertex_list(vert_list) +free_vertex_list = _pymcell.free_vertex_list + +def mcell_add_to_connection_list(v1: 'int', v2: 'int', v3: 'int', elements: 'struct element_connection_list *') -> "struct element_connection_list *": + return _pymcell.mcell_add_to_connection_list(v1, v2, v3, elements) +mcell_add_to_connection_list = _pymcell.mcell_add_to_connection_list + +def free_connection_list(elem_conn_list: 'struct element_connection_list *') -> "void": + return _pymcell.free_connection_list(elem_conn_list) +free_connection_list = _pymcell.free_connection_list + +def mcell_set_region_elements(rgn: 'struct region *', elements: 'struct element_list *', normalize_now: 'int') -> "int": + return _pymcell.mcell_set_region_elements(rgn, elements, normalize_now) +mcell_set_region_elements = _pymcell.mcell_set_region_elements + +def mcell_add_to_region_list(elements: 'struct element_list *', region_idx: 'unsigned int') -> "struct element_list *": + return _pymcell.mcell_add_to_region_list(elements, region_idx) +mcell_add_to_region_list = _pymcell.mcell_add_to_region_list + +def add_child_objects(parent: 'object', child_head: 'object', child_tail: 'object') -> "void": + return _pymcell.add_child_objects(parent, child_head, child_tail) +add_child_objects = _pymcell.add_child_objects + +def mcell_create_region(state: 'MCELL_STATE *', objp: 'object', name: 'char *') -> "struct region *": + return _pymcell.mcell_create_region(state, objp, name) +mcell_create_region = _pymcell.mcell_create_region + +def make_new_region(dg_parse: 'struct dyngeom_parse_vars *', state: 'MCELL_STATE *', obj_name: 'char *', region_last_name: 'char *') -> "struct region *": + return _pymcell.make_new_region(dg_parse, state, obj_name, region_last_name) +make_new_region = _pymcell.make_new_region + +def remove_gaps_from_regions(obj_ptr: 'object') -> "void": + return _pymcell.remove_gaps_from_regions(obj_ptr) +remove_gaps_from_regions = _pymcell.remove_gaps_from_regions + +def check_degenerate_polygon_list(obj_ptr: 'object') -> "int": + return _pymcell.check_degenerate_polygon_list(obj_ptr) +check_degenerate_polygon_list = _pymcell.check_degenerate_polygon_list + +def common_ancestor(a: 'object', b: 'object') -> "struct object *": + return _pymcell.common_ancestor(a, b) +common_ancestor = _pymcell.common_ancestor + +def allocate_polygon_object(desc: 'char const *') -> "struct polygon_object *": + return _pymcell.allocate_polygon_object(desc) +allocate_polygon_object = _pymcell.allocate_polygon_object + +def new_element_list(begin: 'unsigned int', end: 'unsigned int') -> "struct element_list *": + return _pymcell.new_element_list(begin, end) +new_element_list = _pymcell.new_element_list + +def normalize_elements(reg: 'struct region *', existing: 'int') -> "int": + return _pymcell.normalize_elements(reg, existing) +normalize_elements = _pymcell.normalize_elements + +def count_cuboid_elements(sb: 'struct subdivided_box *') -> "int": + return _pymcell.count_cuboid_elements(sb) +count_cuboid_elements = _pymcell.count_cuboid_elements + +def cuboid_patch_to_bits(subd_box: 'struct subdivided_box *', v1: 'vector3', v2: 'vector3', bit_arr: 'struct bit_array *') -> "int": + return _pymcell.cuboid_patch_to_bits(subd_box, v1, v2, bit_arr) +cuboid_patch_to_bits = _pymcell.cuboid_patch_to_bits + +def check_patch(b: 'struct subdivided_box *', p1: 'vector3', p2: 'vector3', egd: 'double') -> "int": + return _pymcell.check_patch(b, p1, p2, egd) +check_patch = _pymcell.check_patch + +def mcell_get_obj_sym(obj: 'object') -> "struct sym_entry *": + return _pymcell.mcell_get_obj_sym(obj) +mcell_get_obj_sym = _pymcell.mcell_get_obj_sym + +def mcell_get_reg_sym(reg: 'struct region *') -> "struct sym_entry *": + return _pymcell.mcell_get_reg_sym(reg) +mcell_get_reg_sym = _pymcell.mcell_get_reg_sym + +def mcell_get_all_mol_sym(state: 'MCELL_STATE *') -> "struct sym_entry *": + return _pymcell.mcell_get_all_mol_sym(state) +mcell_get_all_mol_sym = _pymcell.mcell_get_all_mol_sym + +def mcell_get_all_volume_mol_sym(state: 'MCELL_STATE *') -> "struct sym_entry *": + return _pymcell.mcell_get_all_volume_mol_sym(state) +mcell_get_all_volume_mol_sym = _pymcell.mcell_get_all_volume_mol_sym + +def mcell_get_all_surface_mol_sym(state: 'MCELL_STATE *') -> "struct sym_entry *": + return _pymcell.mcell_get_all_surface_mol_sym(state) +mcell_get_all_surface_mol_sym = _pymcell.mcell_get_all_surface_mol_sym + +def mcell_add_to_poly_obj_list(poly_obj_list: 'poly_object_list', obj_name: 'char *', vertices: 'struct vertex_list *', num_vert: 'int', connections: 'struct element_connection_list *', num_conn: 'int', surf_reg_faces: 'struct element_list *', reg_name: 'char *') -> "struct poly_object_list *": + return _pymcell.mcell_add_to_poly_obj_list(poly_obj_list, obj_name, vertices, num_vert, connections, num_conn, surf_reg_faces, reg_name) +mcell_add_to_poly_obj_list = _pymcell.mcell_add_to_poly_obj_list +class output_column_list(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, output_column_list, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, output_column_list, name) + __repr__ = _swig_repr + __swig_setmethods__["column_head"] = _pymcell.output_column_list_column_head_set + __swig_getmethods__["column_head"] = _pymcell.output_column_list_column_head_get + if _newclass: + column_head = _swig_property(_pymcell.output_column_list_column_head_get, _pymcell.output_column_list_column_head_set) + __swig_setmethods__["column_tail"] = _pymcell.output_column_list_column_tail_set + __swig_getmethods__["column_tail"] = _pymcell.output_column_list_column_tail_get + if _newclass: + column_tail = _swig_property(_pymcell.output_column_list_column_tail_get, _pymcell.output_column_list_column_tail_set) + + def __init__(self, *args): + """__init__(self) -> output_column_list""" + this = _pymcell.new_output_column_list(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_output_column_list + __del__ = lambda self: None +output_column_list_swigregister = _pymcell.output_column_list_swigregister +output_column_list_swigregister(output_column_list) + +class output_set_list(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, output_set_list, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, output_set_list, name) + __repr__ = _swig_repr + __swig_setmethods__["set_head"] = _pymcell.output_set_list_set_head_set + __swig_getmethods__["set_head"] = _pymcell.output_set_list_set_head_get + if _newclass: + set_head = _swig_property(_pymcell.output_set_list_set_head_get, _pymcell.output_set_list_set_head_set) + __swig_setmethods__["set_tail"] = _pymcell.output_set_list_set_tail_set + __swig_getmethods__["set_tail"] = _pymcell.output_set_list_set_tail_get + if _newclass: + set_tail = _swig_property(_pymcell.output_set_list_set_tail_get, _pymcell.output_set_list_set_tail_set) + + def __init__(self, *args): + """__init__(self) -> output_set_list""" + this = _pymcell.new_output_set_list(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_output_set_list + __del__ = lambda self: None +output_set_list_swigregister = _pymcell.output_set_list_swigregister +output_set_list_swigregister(output_set_list) + +class output_times_inlist(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, output_times_inlist, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, output_times_inlist, name) + __repr__ = _swig_repr + __swig_setmethods__["type"] = _pymcell.output_times_inlist_type_set + __swig_getmethods__["type"] = _pymcell.output_times_inlist_type_get + if _newclass: + type = _swig_property(_pymcell.output_times_inlist_type_get, _pymcell.output_times_inlist_type_set) + __swig_setmethods__["step"] = _pymcell.output_times_inlist_step_set + __swig_getmethods__["step"] = _pymcell.output_times_inlist_step_get + if _newclass: + step = _swig_property(_pymcell.output_times_inlist_step_get, _pymcell.output_times_inlist_step_set) + __swig_setmethods__["values"] = _pymcell.output_times_inlist_values_set + __swig_getmethods__["values"] = _pymcell.output_times_inlist_values_get + if _newclass: + values = _swig_property(_pymcell.output_times_inlist_values_get, _pymcell.output_times_inlist_values_set) + + def __init__(self, *args): + """__init__(self) -> output_times_inlist""" + this = _pymcell.new_output_times_inlist(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_output_times_inlist + __del__ = lambda self: None +output_times_inlist_swigregister = _pymcell.output_times_inlist_swigregister +output_times_inlist_swigregister(output_times_inlist) + + +def mcell_get_count(mol_name: 'char *', reg_name: 'char *', world: 'struct volume *') -> "int": + return _pymcell.mcell_get_count(mol_name, reg_name, world) +mcell_get_count = _pymcell.mcell_get_count + +def mcell_new_output_request(state: 'MCELL_STATE *', target: 'mcell_symbol', orientation: 'short', location: 'mcell_symbol', img: 'struct periodic_image *', report_flags: 'int') -> "struct output_request *": + return _pymcell.mcell_new_output_request(state, target, orientation, location, img, report_flags) +mcell_new_output_request = _pymcell.mcell_new_output_request + +def mcell_create_new_output_set(comment: 'char *', exact_time: 'int', col_head: 'struct output_column *', file_flags: 'int', outfile_name: 'char *') -> "struct output_set *": + return _pymcell.mcell_create_new_output_set(comment, exact_time, col_head, file_flags, outfile_name) +mcell_create_new_output_set = _pymcell.mcell_create_new_output_set + +def mcell_prepare_single_count_expr(list: 'output_column_list', expr: 'struct output_expression *', custom_header: 'char *') -> "MCELL_STATUS": + return _pymcell.mcell_prepare_single_count_expr(list, expr, custom_header) +mcell_prepare_single_count_expr = _pymcell.mcell_prepare_single_count_expr + +def mcell_add_reaction_output_block(state: 'MCELL_STATE *', osets: 'output_set_list', buffer_size: 'int', otimes: 'output_times_inlist') -> "MCELL_STATUS": + return _pymcell.mcell_add_reaction_output_block(state, osets, buffer_size, otimes) +mcell_add_reaction_output_block = _pymcell.mcell_add_reaction_output_block + +def mcell_create_count(state: 'MCELL_STATE *', target: 'mcell_symbol', orientation: 'short', location: 'mcell_symbol', report_flags: 'int', custom_header: 'char *', count_list: 'output_column_list') -> "struct output_column_list *": + return _pymcell.mcell_create_count(state, target, orientation, location, report_flags, custom_header, count_list) +mcell_create_count = _pymcell.mcell_create_count + +def mcell_get_counter_value(state: 'MCELL_STATE *', counter_name: 'char const *', column: 'int', count_data: 'double *', count_data_type: 'enum count_type_t *') -> "MCELL_STATUS": + return _pymcell.mcell_get_counter_value(state, counter_name, column, count_data, count_data_type) +mcell_get_counter_value = _pymcell.mcell_get_counter_value +REGULAR_ARROW = _pymcell.REGULAR_ARROW +ARROW_BIDIRECTIONAL = _pymcell.ARROW_BIDIRECTIONAL +ARROW_CATALYTIC = _pymcell.ARROW_CATALYTIC +RATE_UNSET = _pymcell.RATE_UNSET +RATE_CONSTANT = _pymcell.RATE_CONSTANT +RATE_FILE = _pymcell.RATE_FILE +RFLCT = _pymcell.RFLCT +TRANSP = _pymcell.TRANSP +SINK = _pymcell.SINK +class reaction_def(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, reaction_def, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, reaction_def, name) + __repr__ = _swig_repr + __swig_setmethods__["sym"] = _pymcell.reaction_def_sym_set + __swig_getmethods__["sym"] = _pymcell.reaction_def_sym_get + if _newclass: + sym = _swig_property(_pymcell.reaction_def_sym_get, _pymcell.reaction_def_sym_set) + + def __init__(self, *args): + """__init__(self) -> reaction_def""" + this = _pymcell.new_reaction_def(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_reaction_def + __del__ = lambda self: None +reaction_def_swigregister = _pymcell.reaction_def_swigregister +reaction_def_swigregister(reaction_def) + +class release_single_molecule_list(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, release_single_molecule_list, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, release_single_molecule_list, name) + __repr__ = _swig_repr + __swig_setmethods__["rsm_head"] = _pymcell.release_single_molecule_list_rsm_head_set + __swig_getmethods__["rsm_head"] = _pymcell.release_single_molecule_list_rsm_head_get + if _newclass: + rsm_head = _swig_property(_pymcell.release_single_molecule_list_rsm_head_get, _pymcell.release_single_molecule_list_rsm_head_set) + __swig_setmethods__["rsm_tail"] = _pymcell.release_single_molecule_list_rsm_tail_set + __swig_getmethods__["rsm_tail"] = _pymcell.release_single_molecule_list_rsm_tail_get + if _newclass: + rsm_tail = _swig_property(_pymcell.release_single_molecule_list_rsm_tail_get, _pymcell.release_single_molecule_list_rsm_tail_set) + __swig_setmethods__["rsm_count"] = _pymcell.release_single_molecule_list_rsm_count_set + __swig_getmethods__["rsm_count"] = _pymcell.release_single_molecule_list_rsm_count_get + if _newclass: + rsm_count = _swig_property(_pymcell.release_single_molecule_list_rsm_count_get, _pymcell.release_single_molecule_list_rsm_count_set) + + def __init__(self, *args): + """__init__(self) -> release_single_molecule_list""" + this = _pymcell.new_release_single_molecule_list(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_release_single_molecule_list + __del__ = lambda self: None +release_single_molecule_list_swigregister = _pymcell.release_single_molecule_list_swigregister +release_single_molecule_list_swigregister(release_single_molecule_list) + +class reaction_arrow(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, reaction_arrow, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, reaction_arrow, name) + __repr__ = _swig_repr + __swig_setmethods__["flags"] = _pymcell.reaction_arrow_flags_set + __swig_getmethods__["flags"] = _pymcell.reaction_arrow_flags_get + if _newclass: + flags = _swig_property(_pymcell.reaction_arrow_flags_get, _pymcell.reaction_arrow_flags_set) + __swig_setmethods__["catalyst"] = _pymcell.reaction_arrow_catalyst_set + __swig_getmethods__["catalyst"] = _pymcell.reaction_arrow_catalyst_get + if _newclass: + catalyst = _swig_property(_pymcell.reaction_arrow_catalyst_get, _pymcell.reaction_arrow_catalyst_set) + + def __init__(self, *args): + """__init__(self) -> reaction_arrow""" + this = _pymcell.new_reaction_arrow(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_reaction_arrow + __del__ = lambda self: None +reaction_arrow_swigregister = _pymcell.reaction_arrow_swigregister +reaction_arrow_swigregister(reaction_arrow) + +class reaction_rate(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, reaction_rate, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, reaction_rate, name) + __repr__ = _swig_repr + __swig_setmethods__["rate_type"] = _pymcell.reaction_rate_rate_type_set + __swig_getmethods__["rate_type"] = _pymcell.reaction_rate_rate_type_get + if _newclass: + rate_type = _swig_property(_pymcell.reaction_rate_rate_type_get, _pymcell.reaction_rate_rate_type_set) + __swig_getmethods__["v"] = _pymcell.reaction_rate_v_get + if _newclass: + v = _swig_property(_pymcell.reaction_rate_v_get) + + def __init__(self, *args): + """__init__(self) -> reaction_rate""" + this = _pymcell.new_reaction_rate(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_reaction_rate + __del__ = lambda self: None +reaction_rate_swigregister = _pymcell.reaction_rate_swigregister +reaction_rate_swigregister(reaction_rate) + +class reaction_rate_v(_object): + """Proxy of C reaction_rate_v struct.""" + + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, reaction_rate_v, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, reaction_rate_v, name) + __repr__ = _swig_repr + __swig_setmethods__["rate_constant"] = _pymcell.reaction_rate_v_rate_constant_set + __swig_getmethods__["rate_constant"] = _pymcell.reaction_rate_v_rate_constant_get + if _newclass: + rate_constant = _swig_property(_pymcell.reaction_rate_v_rate_constant_get, _pymcell.reaction_rate_v_rate_constant_set) + __swig_setmethods__["rate_file"] = _pymcell.reaction_rate_v_rate_file_set + __swig_getmethods__["rate_file"] = _pymcell.reaction_rate_v_rate_file_get + if _newclass: + rate_file = _swig_property(_pymcell.reaction_rate_v_rate_file_get, _pymcell.reaction_rate_v_rate_file_set) + + def __init__(self, *args): + """__init__(self) -> reaction_rate_v""" + this = _pymcell.new_reaction_rate_v(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_reaction_rate_v + __del__ = lambda self: None +reaction_rate_v_swigregister = _pymcell.reaction_rate_v_swigregister +reaction_rate_v_swigregister(reaction_rate_v) + +class reaction_rates(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, reaction_rates, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, reaction_rates, name) + __repr__ = _swig_repr + __swig_setmethods__["forward_rate"] = _pymcell.reaction_rates_forward_rate_set + __swig_getmethods__["forward_rate"] = _pymcell.reaction_rates_forward_rate_get + if _newclass: + forward_rate = _swig_property(_pymcell.reaction_rates_forward_rate_get, _pymcell.reaction_rates_forward_rate_set) + __swig_setmethods__["backward_rate"] = _pymcell.reaction_rates_backward_rate_set + __swig_getmethods__["backward_rate"] = _pymcell.reaction_rates_backward_rate_get + if _newclass: + backward_rate = _swig_property(_pymcell.reaction_rates_backward_rate_get, _pymcell.reaction_rates_backward_rate_set) + + def __init__(self, *args): + """__init__(self) -> reaction_rates""" + this = _pymcell.new_reaction_rates(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_reaction_rates + __del__ = lambda self: None +reaction_rates_swigregister = _pymcell.reaction_rates_swigregister +reaction_rates_swigregister(reaction_rates) + + +def mcell_modify_multiple_rate_constants(world: 'struct volume *', names: 'char **', rate_constants: 'double *', n_rxns: 'int') -> "MCELL_STATUS": + return _pymcell.mcell_modify_multiple_rate_constants(world, names, rate_constants, n_rxns) +mcell_modify_multiple_rate_constants = _pymcell.mcell_modify_multiple_rate_constants + +def mcell_modify_rate_constant(world: 'struct volume *', name: 'char *', rate: 'double') -> "MCELL_STATUS": + return _pymcell.mcell_modify_rate_constant(world, name, rate) +mcell_modify_rate_constant = _pymcell.mcell_modify_rate_constant + +def mcell_add_reaction_simplified(state: 'struct volume *', reactants: 'mcell_species', arrow: 'reaction_arrow', surfs: 'mcell_species', products: 'mcell_species', rates: 'reaction_rates', pathname: 'mcell_symbol') -> "MCELL_STATUS": + return _pymcell.mcell_add_reaction_simplified(state, reactants, arrow, surfs, products, rates, pathname) +mcell_add_reaction_simplified = _pymcell.mcell_add_reaction_simplified + +def mcell_add_reaction(notify: 'struct notifications *', r_step_release: 'double **', rxn_sym_table: 'sym_table_head', radial_subdivisions: 'u_int', vacancy_search_dist2: 'double', reactants: 'mcell_species', react_arrow: 'reaction_arrow', surf_class: 'mcell_species', products: 'mcell_species', pathname: 'mcell_symbol', rates: 'reaction_rates', forward_rate_filename: 'char const *', backward_rate_filename: 'char const *') -> "MCELL_STATUS": + return _pymcell.mcell_add_reaction(notify, r_step_release, rxn_sym_table, radial_subdivisions, vacancy_search_dist2, reactants, react_arrow, surf_class, products, pathname, rates, forward_rate_filename, backward_rate_filename) +mcell_add_reaction = _pymcell.mcell_add_reaction + +def mcell_add_surface_reaction(rxn_sym_table: 'sym_table_head', reaction_type: 'int', surface_class: 'struct species *', reactant_sym: 'mcell_symbol', orient: 'short') -> "MCELL_STATUS": + return _pymcell.mcell_add_surface_reaction(rxn_sym_table, reaction_type, surface_class, reactant_sym, orient) +mcell_add_surface_reaction = _pymcell.mcell_add_surface_reaction + +def mcell_add_concentration_clamp(rxn_sym_table: 'sym_table_head', surface_class: 'struct species *', mol_sym: 'mcell_symbol', orient: 'short', conc: 'double') -> "MCELL_STATUS": + return _pymcell.mcell_add_concentration_clamp(rxn_sym_table, surface_class, mol_sym, orient, conc) +mcell_add_concentration_clamp = _pymcell.mcell_add_concentration_clamp + +def init_reactions(state: 'MCELL_STATE *') -> "MCELL_STATUS": + return _pymcell.init_reactions(state) +init_reactions = _pymcell.init_reactions + +def mcell_change_reaction_rate(state: 'MCELL_STATE *', reaction_name: 'char const *', new_rate: 'double') -> "MCELL_STATUS": + return _pymcell.mcell_change_reaction_rate(state, reaction_name, new_rate) +mcell_change_reaction_rate = _pymcell.mcell_change_reaction_rate + +def mcell_create_reaction_rates(forwardRateType: 'int', forwardRate: 'double', backwardRateType: 'int', backwardRate: 'double') -> "struct reaction_rates": + return _pymcell.mcell_create_reaction_rates(forwardRateType, forwardRate, backwardRateType, backwardRate) +mcell_create_reaction_rates = _pymcell.mcell_create_reaction_rates + +def mcell_new_rxn_pathname(state: 'struct volume *', name: 'char *') -> "struct sym_entry *": + return _pymcell.mcell_new_rxn_pathname(state, name) +mcell_new_rxn_pathname = _pymcell.mcell_new_rxn_pathname + +def mcell_create_list_release_site(state: 'MCELL_STATE *', parent: 'object', site_name: 'char *', mol: 'mcell_species', x_pos: 'double *', y_pos: 'double *', z_pos: 'double *', n_site: 'int', diameter: 'vector3', new_object: 'struct object **') -> "struct object **": + return _pymcell.mcell_create_list_release_site(state, parent, site_name, mol, x_pos, y_pos, z_pos, n_site, diameter, new_object) +mcell_create_list_release_site = _pymcell.mcell_create_list_release_site + +def mcell_create_geometrical_release_site(state: 'MCELL_STATE *', parent: 'object', site_name: 'char *', shape: 'int', position: 'vector3', diameter: 'vector3', mol: 'mcell_species', num: 'double', num_type: 'int', release_prob: 'double', rpatp: 'release_pattern', new_object: 'struct object **') -> "struct object **": + return _pymcell.mcell_create_geometrical_release_site(state, parent, site_name, shape, position, diameter, mol, num, num_type, release_prob, rpatp, new_object) +mcell_create_geometrical_release_site = _pymcell.mcell_create_geometrical_release_site + +def mcell_start_release_site(state: 'MCELL_STATE *', sym_ptr: 'mcell_symbol', obj: 'struct object **') -> "MCELL_STATUS": + return _pymcell.mcell_start_release_site(state, sym_ptr, obj) +mcell_start_release_site = _pymcell.mcell_start_release_site + +def mcell_finish_release_site(sym_ptr: 'mcell_symbol', obj: 'struct object **') -> "MCELL_STATUS": + return _pymcell.mcell_finish_release_site(sym_ptr, obj) +mcell_finish_release_site = _pymcell.mcell_finish_release_site + +def set_release_site_concentration(rel_site_obj_ptr: 'struct release_site_obj *', conc: 'double') -> "int": + return _pymcell.set_release_site_concentration(rel_site_obj_ptr, conc) +set_release_site_concentration = _pymcell.set_release_site_concentration + +def mcell_create_region_release(state: 'MCELL_STATE *', parent: 'object', release_on_in: 'object', site_name: 'char *', reg_name: 'char *', mol: 'mcell_species', num: 'double', num_type: 'int', rel_prob: 'double', rpatp: 'release_pattern', new_object: 'struct object **') -> "struct object **": + return _pymcell.mcell_create_region_release(state, parent, release_on_in, site_name, reg_name, mol, num, num_type, rel_prob, rpatp, new_object) +mcell_create_region_release = _pymcell.mcell_create_region_release + +def mcell_create_region_release_boolean(state: 'MCELL_STATE *', parent: 'object', site_name: 'char *', mol: 'mcell_species', num: 'double', num_type: 'int', rel_prob: 'double', rpatp: 'release_pattern', rel_eval: 'release_evaluator', new_object: 'struct object **') -> "struct object **": + return _pymcell.mcell_create_region_release_boolean(state, parent, site_name, mol, num, num_type, rel_prob, rpatp, rel_eval, new_object) +mcell_create_region_release_boolean = _pymcell.mcell_create_region_release_boolean + +def mcell_create_release_pattern(state: 'MCELL_STATE *', name: 'char *', delay: 'double', release_interval: 'double', train_interval: 'double', train_duration: 'double', number_of_trains: 'int') -> "struct release_pattern *": + return _pymcell.mcell_create_release_pattern(state, name, delay, release_interval, train_interval, train_duration, number_of_trains) +mcell_create_release_pattern = _pymcell.mcell_create_release_pattern + +def mcell_set_release_site_geometry_region(state: 'MCELL_STATE *', rel_site_obj_ptr: 'struct release_site_obj *', objp: 'object', re: 'release_evaluator') -> "int": + return _pymcell.mcell_set_release_site_geometry_region(state, rel_site_obj_ptr, objp, re) +mcell_set_release_site_geometry_region = _pymcell.mcell_set_release_site_geometry_region + +def check_release_regions(rel: 'release_evaluator', parent: 'object', instance: 'object') -> "int": + return _pymcell.check_release_regions(rel, parent, instance) +check_release_regions = _pymcell.check_release_regions + +def is_release_site_valid(rel_site_obj_ptr: 'struct release_site_obj *') -> "int": + return _pymcell.is_release_site_valid(rel_site_obj_ptr) +is_release_site_valid = _pymcell.is_release_site_valid + +def new_release_region_expr_term(my_sym: 'mcell_symbol') -> "struct release_evaluator *": + return _pymcell.new_release_region_expr_term(my_sym) +new_release_region_expr_term = _pymcell.new_release_region_expr_term + +def set_release_site_constant_number(rel_site_obj_ptr: 'struct release_site_obj *', num: 'double') -> "void": + return _pymcell.set_release_site_constant_number(rel_site_obj_ptr, num) +set_release_site_constant_number = _pymcell.set_release_site_constant_number + +def set_release_site_gaussian_number(rel_site_obj_ptr: 'struct release_site_obj *', mean: 'double', stdev: 'double') -> "void": + return _pymcell.set_release_site_gaussian_number(rel_site_obj_ptr, mean, stdev) +set_release_site_gaussian_number = _pymcell.set_release_site_gaussian_number + +def new_release_region_expr_binary(reL: 'release_evaluator', reR: 'release_evaluator', op: 'int') -> "struct release_evaluator *": + return _pymcell.new_release_region_expr_binary(reL, reR, op) +new_release_region_expr_binary = _pymcell.new_release_region_expr_binary + +def set_release_site_location(state: 'MCELL_STATE *', rel_site_obj_ptr: 'struct release_site_obj *', location: 'vector3') -> "void": + return _pymcell.set_release_site_location(state, rel_site_obj_ptr, location) +set_release_site_location = _pymcell.set_release_site_location + +def existing_region(state: 'MCELL_STATE *', obj_symp: 'mcell_symbol', region_name: 'char *') -> "struct sym_entry *": + return _pymcell.existing_region(state, obj_symp, region_name) +existing_region = _pymcell.existing_region +class mcell_symbol(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, mcell_symbol, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, mcell_symbol, name) + __repr__ = _swig_repr + __swig_setmethods__["next"] = _pymcell.mcell_symbol_next_set + __swig_getmethods__["next"] = _pymcell.mcell_symbol_next_get + if _newclass: + next = _swig_property(_pymcell.mcell_symbol_next_get, _pymcell.mcell_symbol_next_set) + __swig_setmethods__["sym_type"] = _pymcell.mcell_symbol_sym_type_set + __swig_getmethods__["sym_type"] = _pymcell.mcell_symbol_sym_type_get + if _newclass: + sym_type = _swig_property(_pymcell.mcell_symbol_sym_type_get, _pymcell.mcell_symbol_sym_type_set) + __swig_setmethods__["name"] = _pymcell.mcell_symbol_name_set + __swig_getmethods__["name"] = _pymcell.mcell_symbol_name_get + if _newclass: + name = _swig_property(_pymcell.mcell_symbol_name_get, _pymcell.mcell_symbol_name_set) + __swig_setmethods__["value"] = _pymcell.mcell_symbol_value_set + __swig_getmethods__["value"] = _pymcell.mcell_symbol_value_get + if _newclass: + value = _swig_property(_pymcell.mcell_symbol_value_get, _pymcell.mcell_symbol_value_set) + + def __init__(self, *args): + """__init__(self) -> mcell_symbol""" + this = _pymcell.new_mcell_symbol(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_mcell_symbol + __del__ = lambda self: None +mcell_symbol_swigregister = _pymcell.mcell_symbol_swigregister +mcell_symbol_swigregister(mcell_symbol) + +class mcell_species_spec(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, mcell_species_spec, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, mcell_species_spec, name) + __repr__ = _swig_repr + __swig_setmethods__["name"] = _pymcell.mcell_species_spec_name_set + __swig_getmethods__["name"] = _pymcell.mcell_species_spec_name_get + if _newclass: + name = _swig_property(_pymcell.mcell_species_spec_name_get, _pymcell.mcell_species_spec_name_set) + __swig_setmethods__["D"] = _pymcell.mcell_species_spec_D_set + __swig_getmethods__["D"] = _pymcell.mcell_species_spec_D_get + if _newclass: + D = _swig_property(_pymcell.mcell_species_spec_D_get, _pymcell.mcell_species_spec_D_set) + __swig_setmethods__["is_2d"] = _pymcell.mcell_species_spec_is_2d_set + __swig_getmethods__["is_2d"] = _pymcell.mcell_species_spec_is_2d_get + if _newclass: + is_2d = _swig_property(_pymcell.mcell_species_spec_is_2d_get, _pymcell.mcell_species_spec_is_2d_set) + __swig_setmethods__["custom_time_step"] = _pymcell.mcell_species_spec_custom_time_step_set + __swig_getmethods__["custom_time_step"] = _pymcell.mcell_species_spec_custom_time_step_get + if _newclass: + custom_time_step = _swig_property(_pymcell.mcell_species_spec_custom_time_step_get, _pymcell.mcell_species_spec_custom_time_step_set) + __swig_setmethods__["target_only"] = _pymcell.mcell_species_spec_target_only_set + __swig_getmethods__["target_only"] = _pymcell.mcell_species_spec_target_only_get + if _newclass: + target_only = _swig_property(_pymcell.mcell_species_spec_target_only_get, _pymcell.mcell_species_spec_target_only_set) + __swig_setmethods__["max_step_length"] = _pymcell.mcell_species_spec_max_step_length_set + __swig_getmethods__["max_step_length"] = _pymcell.mcell_species_spec_max_step_length_get + if _newclass: + max_step_length = _swig_property(_pymcell.mcell_species_spec_max_step_length_get, _pymcell.mcell_species_spec_max_step_length_set) + __swig_setmethods__["space_step"] = _pymcell.mcell_species_spec_space_step_set + __swig_getmethods__["space_step"] = _pymcell.mcell_species_spec_space_step_get + if _newclass: + space_step = _swig_property(_pymcell.mcell_species_spec_space_step_get, _pymcell.mcell_species_spec_space_step_set) + + def __init__(self, *args): + """__init__(self) -> mcell_species_spec""" + this = _pymcell.new_mcell_species_spec(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_mcell_species_spec + __del__ = lambda self: None +mcell_species_spec_swigregister = _pymcell.mcell_species_spec_swigregister +mcell_species_spec_swigregister(mcell_species_spec) + +class mcell_species(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, mcell_species, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, mcell_species, name) + __repr__ = _swig_repr + __swig_setmethods__["next"] = _pymcell.mcell_species_next_set + __swig_getmethods__["next"] = _pymcell.mcell_species_next_get + if _newclass: + next = _swig_property(_pymcell.mcell_species_next_get, _pymcell.mcell_species_next_set) + __swig_setmethods__["mol_type"] = _pymcell.mcell_species_mol_type_set + __swig_getmethods__["mol_type"] = _pymcell.mcell_species_mol_type_get + if _newclass: + mol_type = _swig_property(_pymcell.mcell_species_mol_type_get, _pymcell.mcell_species_mol_type_set) + __swig_setmethods__["orient_set"] = _pymcell.mcell_species_orient_set_set + __swig_getmethods__["orient_set"] = _pymcell.mcell_species_orient_set_get + if _newclass: + orient_set = _swig_property(_pymcell.mcell_species_orient_set_get, _pymcell.mcell_species_orient_set_set) + __swig_setmethods__["orient"] = _pymcell.mcell_species_orient_set + __swig_getmethods__["orient"] = _pymcell.mcell_species_orient_get + if _newclass: + orient = _swig_property(_pymcell.mcell_species_orient_get, _pymcell.mcell_species_orient_set) + + def __init__(self, *args): + """__init__(self) -> mcell_species""" + this = _pymcell.new_mcell_species(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_mcell_species + __del__ = lambda self: None +mcell_species_swigregister = _pymcell.mcell_species_swigregister +mcell_species_swigregister(mcell_species) + +class mcell_species_list(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, mcell_species_list, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, mcell_species_list, name) + __repr__ = _swig_repr + __swig_setmethods__["mol_type_head"] = _pymcell.mcell_species_list_mol_type_head_set + __swig_getmethods__["mol_type_head"] = _pymcell.mcell_species_list_mol_type_head_get + if _newclass: + mol_type_head = _swig_property(_pymcell.mcell_species_list_mol_type_head_get, _pymcell.mcell_species_list_mol_type_head_set) + __swig_setmethods__["mol_type_tail"] = _pymcell.mcell_species_list_mol_type_tail_set + __swig_getmethods__["mol_type_tail"] = _pymcell.mcell_species_list_mol_type_tail_get + if _newclass: + mol_type_tail = _swig_property(_pymcell.mcell_species_list_mol_type_tail_get, _pymcell.mcell_species_list_mol_type_tail_set) + + def __init__(self, *args): + """__init__(self) -> mcell_species_list""" + this = _pymcell.new_mcell_species_list(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_mcell_species_list + __del__ = lambda self: None +mcell_species_list_swigregister = _pymcell.mcell_species_list_swigregister +mcell_species_list_swigregister(mcell_species_list) + + +def mcell_create_species(state: 'MCELL_STATE *', species: 'mcell_species_spec', species_ptr: 'mcell_symbol **') -> "struct sym_entry **": + return _pymcell.mcell_create_species(state, species, species_ptr) +mcell_create_species = _pymcell.mcell_create_species + +def mcell_add_to_species_list(species_ptr: 'mcell_symbol', is_oriented: 'bool', orientation: 'int', species_list: 'mcell_species') -> "struct mcell_species *": + return _pymcell.mcell_add_to_species_list(species_ptr, is_oriented, orientation, species_list) +mcell_add_to_species_list = _pymcell.mcell_add_to_species_list + +def mcell_delete_species_list(species: 'mcell_species') -> "void": + return _pymcell.mcell_delete_species_list(species) +mcell_delete_species_list = _pymcell.mcell_delete_species_list + +def new_mol_species(state: 'MCELL_STATE *', name: 'char *', sym_ptr: 'struct sym_entry **') -> "int": + return _pymcell.new_mol_species(state, name, sym_ptr) +new_mol_species = _pymcell.new_mol_species + +def mcell_create_viz_output(state: 'MCELL_STATE *', filename: 'char *', mol_viz_list: 'mcell_species', start: 'long long', end: 'long long', step: 'long long') -> "MCELL_STATUS": + return _pymcell.mcell_create_viz_output(state, filename, mol_viz_list, start, end, step) +mcell_create_viz_output = _pymcell.mcell_create_viz_output + +def mcell_new_viz_output_block(vizblk: 'struct viz_output_block *') -> "void": + return _pymcell.mcell_new_viz_output_block(vizblk) +mcell_new_viz_output_block = _pymcell.mcell_new_viz_output_block + +def mcell_create_viz_frame(time_type: 'int', type: 'int', iteration_list: 'num_expr_list') -> "struct frame_data_list *": + return _pymcell.mcell_create_viz_frame(time_type, type, iteration_list) +mcell_create_viz_frame = _pymcell.mcell_create_viz_frame + +def mcell_set_molecule_viz_state(vizblk: 'struct viz_output_block *', specp: 'struct species *', viz_state: 'int') -> "int": + return _pymcell.mcell_set_molecule_viz_state(vizblk, specp, viz_state) +mcell_set_molecule_viz_state = _pymcell.mcell_set_molecule_viz_state + +def mcell_add_surf_class_properties(state: 'MCELL_STATE *', reaction_type: 'int', sc_sym: 'mcell_symbol', reactant_sym: 'mcell_symbol', orient: 'short') -> "MCELL_STATUS": + return _pymcell.mcell_add_surf_class_properties(state, reaction_type, sc_sym, reactant_sym, orient) +mcell_add_surf_class_properties = _pymcell.mcell_add_surf_class_properties + +def mcell_create_surf_class(state: 'MCELL_STATE *', surf_class_name: 'char *', sc_sym: 'mcell_symbol **') -> "struct sym_entry **": + return _pymcell.mcell_create_surf_class(state, surf_class_name, sc_sym) +mcell_create_surf_class = _pymcell.mcell_create_surf_class + +def mcell_add_mol_release_to_surf_class(state: 'MCELL_STATE *', sc_sym: 'mcell_symbol', sm_info: 'mcell_species', quantity: 'double', density_or_num: 'int', smd_list: 'struct sm_dat *') -> "struct sm_dat *": + return _pymcell.mcell_add_mol_release_to_surf_class(state, sc_sym, sm_info, quantity, density_or_num, smd_list) +mcell_add_mol_release_to_surf_class = _pymcell.mcell_add_mol_release_to_surf_class + +def mcell_assign_surf_class_to_region(sc_sym: 'mcell_symbol', rgn: 'struct region *') -> "MCELL_STATUS": + return _pymcell.mcell_assign_surf_class_to_region(sc_sym, rgn) +mcell_assign_surf_class_to_region = _pymcell.mcell_assign_surf_class_to_region + +def mcell_run_simulation(state: 'MCELL_STATE *') -> "MCELL_STATUS": + return _pymcell.mcell_run_simulation(state) +mcell_run_simulation = _pymcell.mcell_run_simulation + +def mcell_run_n_iterations(state: 'MCELL_STATE *', output_frequency: 'long long', INPUT: 'int *', n_iter: 'int') -> "MCELL_STATUS": + return _pymcell.mcell_run_n_iterations(state, output_frequency, INPUT, n_iter) +mcell_run_n_iterations = _pymcell.mcell_run_n_iterations + +def mcell_run_iteration(state: 'MCELL_STATE *', output_frequency: 'long long', INPUT: 'int *') -> "MCELL_STATUS": + return _pymcell.mcell_run_iteration(state, output_frequency, INPUT) +mcell_run_iteration = _pymcell.mcell_run_iteration + +def mcell_flush_data(state: 'MCELL_STATE *') -> "MCELL_STATUS": + return _pymcell.mcell_flush_data(state) +mcell_flush_data = _pymcell.mcell_flush_data + +def mcell_print_final_warnings(state: 'MCELL_STATE *') -> "MCELL_STATUS": + return _pymcell.mcell_print_final_warnings(state) +mcell_print_final_warnings = _pymcell.mcell_print_final_warnings + +def mcell_print_final_statistics(state: 'MCELL_STATE *') -> "MCELL_STATUS": + return _pymcell.mcell_print_final_statistics(state) +mcell_print_final_statistics = _pymcell.mcell_print_final_statistics +ORIENT_NOT_SET = _pymcell.ORIENT_NOT_SET +class object(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, object, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, object, name) + __repr__ = _swig_repr + __swig_setmethods__["next"] = _pymcell.object_next_set + __swig_getmethods__["next"] = _pymcell.object_next_get + if _newclass: + next = _swig_property(_pymcell.object_next_get, _pymcell.object_next_set) + __swig_setmethods__["parent"] = _pymcell.object_parent_set + __swig_getmethods__["parent"] = _pymcell.object_parent_get + if _newclass: + parent = _swig_property(_pymcell.object_parent_get, _pymcell.object_parent_set) + __swig_setmethods__["first_child"] = _pymcell.object_first_child_set + __swig_getmethods__["first_child"] = _pymcell.object_first_child_get + if _newclass: + first_child = _swig_property(_pymcell.object_first_child_get, _pymcell.object_first_child_set) + __swig_setmethods__["last_child"] = _pymcell.object_last_child_set + __swig_getmethods__["last_child"] = _pymcell.object_last_child_get + if _newclass: + last_child = _swig_property(_pymcell.object_last_child_get, _pymcell.object_last_child_set) + __swig_setmethods__["sym"] = _pymcell.object_sym_set + __swig_getmethods__["sym"] = _pymcell.object_sym_get + if _newclass: + sym = _swig_property(_pymcell.object_sym_get, _pymcell.object_sym_set) + __swig_setmethods__["last_name"] = _pymcell.object_last_name_set + __swig_getmethods__["last_name"] = _pymcell.object_last_name_get + if _newclass: + last_name = _swig_property(_pymcell.object_last_name_get, _pymcell.object_last_name_set) + __swig_setmethods__["object_type"] = _pymcell.object_object_type_set + __swig_getmethods__["object_type"] = _pymcell.object_object_type_get + if _newclass: + object_type = _swig_property(_pymcell.object_object_type_get, _pymcell.object_object_type_set) + __swig_setmethods__["contents"] = _pymcell.object_contents_set + __swig_getmethods__["contents"] = _pymcell.object_contents_get + if _newclass: + contents = _swig_property(_pymcell.object_contents_get, _pymcell.object_contents_set) + __swig_setmethods__["num_regions"] = _pymcell.object_num_regions_set + __swig_getmethods__["num_regions"] = _pymcell.object_num_regions_get + if _newclass: + num_regions = _swig_property(_pymcell.object_num_regions_get, _pymcell.object_num_regions_set) + __swig_setmethods__["regions"] = _pymcell.object_regions_set + __swig_getmethods__["regions"] = _pymcell.object_regions_get + if _newclass: + regions = _swig_property(_pymcell.object_regions_get, _pymcell.object_regions_set) + __swig_setmethods__["n_walls"] = _pymcell.object_n_walls_set + __swig_getmethods__["n_walls"] = _pymcell.object_n_walls_get + if _newclass: + n_walls = _swig_property(_pymcell.object_n_walls_get, _pymcell.object_n_walls_set) + __swig_setmethods__["n_walls_actual"] = _pymcell.object_n_walls_actual_set + __swig_getmethods__["n_walls_actual"] = _pymcell.object_n_walls_actual_get + if _newclass: + n_walls_actual = _swig_property(_pymcell.object_n_walls_actual_get, _pymcell.object_n_walls_actual_set) + __swig_setmethods__["walls"] = _pymcell.object_walls_set + __swig_getmethods__["walls"] = _pymcell.object_walls_get + if _newclass: + walls = _swig_property(_pymcell.object_walls_get, _pymcell.object_walls_set) + __swig_setmethods__["wall_p"] = _pymcell.object_wall_p_set + __swig_getmethods__["wall_p"] = _pymcell.object_wall_p_get + if _newclass: + wall_p = _swig_property(_pymcell.object_wall_p_get, _pymcell.object_wall_p_set) + __swig_setmethods__["n_verts"] = _pymcell.object_n_verts_set + __swig_getmethods__["n_verts"] = _pymcell.object_n_verts_get + if _newclass: + n_verts = _swig_property(_pymcell.object_n_verts_get, _pymcell.object_n_verts_set) + __swig_setmethods__["vertices"] = _pymcell.object_vertices_set + __swig_getmethods__["vertices"] = _pymcell.object_vertices_get + if _newclass: + vertices = _swig_property(_pymcell.object_vertices_get, _pymcell.object_vertices_set) + __swig_setmethods__["total_area"] = _pymcell.object_total_area_set + __swig_getmethods__["total_area"] = _pymcell.object_total_area_get + if _newclass: + total_area = _swig_property(_pymcell.object_total_area_get, _pymcell.object_total_area_set) + __swig_setmethods__["n_tiles"] = _pymcell.object_n_tiles_set + __swig_getmethods__["n_tiles"] = _pymcell.object_n_tiles_get + if _newclass: + n_tiles = _swig_property(_pymcell.object_n_tiles_get, _pymcell.object_n_tiles_set) + __swig_setmethods__["n_occupied_tiles"] = _pymcell.object_n_occupied_tiles_set + __swig_getmethods__["n_occupied_tiles"] = _pymcell.object_n_occupied_tiles_get + if _newclass: + n_occupied_tiles = _swig_property(_pymcell.object_n_occupied_tiles_get, _pymcell.object_n_occupied_tiles_set) + __swig_setmethods__["t_matrix"] = _pymcell.object_t_matrix_set + __swig_getmethods__["t_matrix"] = _pymcell.object_t_matrix_get + if _newclass: + t_matrix = _swig_property(_pymcell.object_t_matrix_get, _pymcell.object_t_matrix_set) + __swig_setmethods__["periodic_x"] = _pymcell.object_periodic_x_set + __swig_getmethods__["periodic_x"] = _pymcell.object_periodic_x_get + if _newclass: + periodic_x = _swig_property(_pymcell.object_periodic_x_get, _pymcell.object_periodic_x_set) + __swig_setmethods__["periodic_y"] = _pymcell.object_periodic_y_set + __swig_getmethods__["periodic_y"] = _pymcell.object_periodic_y_get + if _newclass: + periodic_y = _swig_property(_pymcell.object_periodic_y_get, _pymcell.object_periodic_y_set) + __swig_setmethods__["periodic_z"] = _pymcell.object_periodic_z_set + __swig_getmethods__["periodic_z"] = _pymcell.object_periodic_z_get + if _newclass: + periodic_z = _swig_property(_pymcell.object_periodic_z_get, _pymcell.object_periodic_z_set) + + def __init__(self, *args): + """__init__(self) -> object""" + this = _pymcell.new_object(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_object + __del__ = lambda self: None +object_swigregister = _pymcell.object_swigregister +object_swigregister(object) + +SHAPE_UNDEFINED = _pymcell.SHAPE_UNDEFINED +SHAPE_SPHERICAL = _pymcell.SHAPE_SPHERICAL +SHAPE_CUBIC = _pymcell.SHAPE_CUBIC +SHAPE_ELLIPTIC = _pymcell.SHAPE_ELLIPTIC +SHAPE_RECTANGULAR = _pymcell.SHAPE_RECTANGULAR +SHAPE_SPHERICAL_SHELL = _pymcell.SHAPE_SPHERICAL_SHELL +SHAPE_REGION = _pymcell.SHAPE_REGION +SHAPE_LIST = _pymcell.SHAPE_LIST +NOTIFY_NONE = _pymcell.NOTIFY_NONE +NOTIFY_BRIEF = _pymcell.NOTIFY_BRIEF +NOTIFY_FULL = _pymcell.NOTIFY_FULL +WARN_COPE = _pymcell.WARN_COPE +WARN_WARN = _pymcell.WARN_WARN +WARN_ERROR = _pymcell.WARN_ERROR +FILE_UNDEFINED = _pymcell.FILE_UNDEFINED +FILE_OVERWRITE = _pymcell.FILE_OVERWRITE +FILE_SUBSTITUTE = _pymcell.FILE_SUBSTITUTE +FILE_APPEND = _pymcell.FILE_APPEND +FILE_APPEND_HEADER = _pymcell.FILE_APPEND_HEADER +FILE_CREATE = _pymcell.FILE_CREATE +REPORT_CONTENTS = _pymcell.REPORT_CONTENTS +REPORT_WORLD = _pymcell.REPORT_WORLD +REPORT_ENCLOSED = _pymcell.REPORT_ENCLOSED +REPORT_TRIGGER = _pymcell.REPORT_TRIGGER +class release_pattern(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, release_pattern, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, release_pattern, name) + __repr__ = _swig_repr + __swig_setmethods__["sym"] = _pymcell.release_pattern_sym_set + __swig_getmethods__["sym"] = _pymcell.release_pattern_sym_get + if _newclass: + sym = _swig_property(_pymcell.release_pattern_sym_get, _pymcell.release_pattern_sym_set) + __swig_setmethods__["delay"] = _pymcell.release_pattern_delay_set + __swig_getmethods__["delay"] = _pymcell.release_pattern_delay_get + if _newclass: + delay = _swig_property(_pymcell.release_pattern_delay_get, _pymcell.release_pattern_delay_set) + __swig_setmethods__["release_interval"] = _pymcell.release_pattern_release_interval_set + __swig_getmethods__["release_interval"] = _pymcell.release_pattern_release_interval_get + if _newclass: + release_interval = _swig_property(_pymcell.release_pattern_release_interval_get, _pymcell.release_pattern_release_interval_set) + __swig_setmethods__["train_interval"] = _pymcell.release_pattern_train_interval_set + __swig_getmethods__["train_interval"] = _pymcell.release_pattern_train_interval_get + if _newclass: + train_interval = _swig_property(_pymcell.release_pattern_train_interval_get, _pymcell.release_pattern_train_interval_set) + __swig_setmethods__["train_duration"] = _pymcell.release_pattern_train_duration_set + __swig_getmethods__["train_duration"] = _pymcell.release_pattern_train_duration_get + if _newclass: + train_duration = _swig_property(_pymcell.release_pattern_train_duration_get, _pymcell.release_pattern_train_duration_set) + __swig_setmethods__["number_of_trains"] = _pymcell.release_pattern_number_of_trains_set + __swig_getmethods__["number_of_trains"] = _pymcell.release_pattern_number_of_trains_get + if _newclass: + number_of_trains = _swig_property(_pymcell.release_pattern_number_of_trains_get, _pymcell.release_pattern_number_of_trains_set) + + def __init__(self, *args): + """__init__(self) -> release_pattern""" + this = _pymcell.new_release_pattern(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_release_pattern + __del__ = lambda self: None +release_pattern_swigregister = _pymcell.release_pattern_swigregister +release_pattern_swigregister(release_pattern) + +class release_evaluator(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, release_evaluator, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, release_evaluator, name) + __repr__ = _swig_repr + __swig_setmethods__["op"] = _pymcell.release_evaluator_op_set + __swig_getmethods__["op"] = _pymcell.release_evaluator_op_get + if _newclass: + op = _swig_property(_pymcell.release_evaluator_op_get, _pymcell.release_evaluator_op_set) + __swig_setmethods__["left"] = _pymcell.release_evaluator_left_set + __swig_getmethods__["left"] = _pymcell.release_evaluator_left_get + if _newclass: + left = _swig_property(_pymcell.release_evaluator_left_get, _pymcell.release_evaluator_left_set) + __swig_setmethods__["right"] = _pymcell.release_evaluator_right_set + __swig_getmethods__["right"] = _pymcell.release_evaluator_right_get + if _newclass: + right = _swig_property(_pymcell.release_evaluator_right_get, _pymcell.release_evaluator_right_set) + + def __init__(self, *args): + """__init__(self) -> release_evaluator""" + this = _pymcell.new_release_evaluator(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_release_evaluator + __del__ = lambda self: None +release_evaluator_swigregister = _pymcell.release_evaluator_swigregister +release_evaluator_swigregister(release_evaluator) + +class output_set(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, output_set, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, output_set, name) + __repr__ = _swig_repr + __swig_setmethods__["next"] = _pymcell.output_set_next_set + __swig_getmethods__["next"] = _pymcell.output_set_next_get + if _newclass: + next = _swig_property(_pymcell.output_set_next_get, _pymcell.output_set_next_set) + __swig_setmethods__["block"] = _pymcell.output_set_block_set + __swig_getmethods__["block"] = _pymcell.output_set_block_get + if _newclass: + block = _swig_property(_pymcell.output_set_block_get, _pymcell.output_set_block_set) + __swig_setmethods__["outfile_name"] = _pymcell.output_set_outfile_name_set + __swig_getmethods__["outfile_name"] = _pymcell.output_set_outfile_name_get + if _newclass: + outfile_name = _swig_property(_pymcell.output_set_outfile_name_get, _pymcell.output_set_outfile_name_set) + __swig_setmethods__["file_flags"] = _pymcell.output_set_file_flags_set + __swig_getmethods__["file_flags"] = _pymcell.output_set_file_flags_get + if _newclass: + file_flags = _swig_property(_pymcell.output_set_file_flags_get, _pymcell.output_set_file_flags_set) + __swig_setmethods__["chunk_count"] = _pymcell.output_set_chunk_count_set + __swig_getmethods__["chunk_count"] = _pymcell.output_set_chunk_count_get + if _newclass: + chunk_count = _swig_property(_pymcell.output_set_chunk_count_get, _pymcell.output_set_chunk_count_set) + __swig_setmethods__["header_comment"] = _pymcell.output_set_header_comment_set + __swig_getmethods__["header_comment"] = _pymcell.output_set_header_comment_get + if _newclass: + header_comment = _swig_property(_pymcell.output_set_header_comment_get, _pymcell.output_set_header_comment_set) + __swig_setmethods__["exact_time_flag"] = _pymcell.output_set_exact_time_flag_set + __swig_getmethods__["exact_time_flag"] = _pymcell.output_set_exact_time_flag_get + if _newclass: + exact_time_flag = _swig_property(_pymcell.output_set_exact_time_flag_get, _pymcell.output_set_exact_time_flag_set) + __swig_setmethods__["column_head"] = _pymcell.output_set_column_head_set + __swig_getmethods__["column_head"] = _pymcell.output_set_column_head_get + if _newclass: + column_head = _swig_property(_pymcell.output_set_column_head_get, _pymcell.output_set_column_head_set) + + def __init__(self, *args): + """__init__(self) -> output_set""" + this = _pymcell.new_output_set(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_output_set + __del__ = lambda self: None +output_set_swigregister = _pymcell.output_set_swigregister +output_set_swigregister(output_set) + +OUTPUT_BY_STEP = _pymcell.OUTPUT_BY_STEP +OUTPUT_BY_TIME_LIST = _pymcell.OUTPUT_BY_TIME_LIST +OUTPUT_BY_ITERATION_LIST = _pymcell.OUTPUT_BY_ITERATION_LIST +class sym_table_head(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, sym_table_head, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, sym_table_head, name) + __repr__ = _swig_repr + __swig_setmethods__["entries"] = _pymcell.sym_table_head_entries_set + __swig_getmethods__["entries"] = _pymcell.sym_table_head_entries_get + if _newclass: + entries = _swig_property(_pymcell.sym_table_head_entries_get, _pymcell.sym_table_head_entries_set) + __swig_setmethods__["n_entries"] = _pymcell.sym_table_head_n_entries_set + __swig_getmethods__["n_entries"] = _pymcell.sym_table_head_n_entries_get + if _newclass: + n_entries = _swig_property(_pymcell.sym_table_head_n_entries_get, _pymcell.sym_table_head_n_entries_set) + __swig_setmethods__["n_bins"] = _pymcell.sym_table_head_n_bins_set + __swig_getmethods__["n_bins"] = _pymcell.sym_table_head_n_bins_get + if _newclass: + n_bins = _swig_property(_pymcell.sym_table_head_n_bins_get, _pymcell.sym_table_head_n_bins_set) + + def __init__(self, *args): + """__init__(self) -> sym_table_head""" + this = _pymcell.new_sym_table_head(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_sym_table_head + __del__ = lambda self: None +sym_table_head_swigregister = _pymcell.sym_table_head_swigregister +sym_table_head_swigregister(sym_table_head) + +class sym_entry(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, sym_entry, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, sym_entry, name) + __repr__ = _swig_repr + __swig_setmethods__["next"] = _pymcell.sym_entry_next_set + __swig_getmethods__["next"] = _pymcell.sym_entry_next_get + if _newclass: + next = _swig_property(_pymcell.sym_entry_next_get, _pymcell.sym_entry_next_set) + __swig_setmethods__["sym_type"] = _pymcell.sym_entry_sym_type_set + __swig_getmethods__["sym_type"] = _pymcell.sym_entry_sym_type_get + if _newclass: + sym_type = _swig_property(_pymcell.sym_entry_sym_type_get, _pymcell.sym_entry_sym_type_set) + __swig_setmethods__["name"] = _pymcell.sym_entry_name_set + __swig_getmethods__["name"] = _pymcell.sym_entry_name_get + if _newclass: + name = _swig_property(_pymcell.sym_entry_name_get, _pymcell.sym_entry_name_set) + __swig_setmethods__["value"] = _pymcell.sym_entry_value_set + __swig_getmethods__["value"] = _pymcell.sym_entry_value_get + if _newclass: + value = _swig_property(_pymcell.sym_entry_value_get, _pymcell.sym_entry_value_set) + + def __init__(self, *args): + """__init__(self) -> sym_entry""" + this = _pymcell.new_sym_entry(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_sym_entry + __del__ = lambda self: None +sym_entry_swigregister = _pymcell.sym_entry_swigregister +sym_entry_swigregister(sym_entry) + +class sym_table_list(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, sym_table_list, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, sym_table_list, name) + __repr__ = _swig_repr + __swig_setmethods__["next"] = _pymcell.sym_table_list_next_set + __swig_getmethods__["next"] = _pymcell.sym_table_list_next_get + if _newclass: + next = _swig_property(_pymcell.sym_table_list_next_get, _pymcell.sym_table_list_next_set) + __swig_setmethods__["node"] = _pymcell.sym_table_list_node_set + __swig_getmethods__["node"] = _pymcell.sym_table_list_node_get + if _newclass: + node = _swig_property(_pymcell.sym_table_list_node_get, _pymcell.sym_table_list_node_set) + + def __init__(self, *args): + """__init__(self) -> sym_table_list""" + this = _pymcell.new_sym_table_list(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_sym_table_list + __del__ = lambda self: None +sym_table_list_swigregister = _pymcell.sym_table_list_swigregister +sym_table_list_swigregister(sym_table_list) + +class num_expr_list(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, num_expr_list, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, num_expr_list, name) + __repr__ = _swig_repr + __swig_setmethods__["next"] = _pymcell.num_expr_list_next_set + __swig_getmethods__["next"] = _pymcell.num_expr_list_next_get + if _newclass: + next = _swig_property(_pymcell.num_expr_list_next_get, _pymcell.num_expr_list_next_set) + __swig_setmethods__["value"] = _pymcell.num_expr_list_value_set + __swig_getmethods__["value"] = _pymcell.num_expr_list_value_get + if _newclass: + value = _swig_property(_pymcell.num_expr_list_value_get, _pymcell.num_expr_list_value_set) + + def __init__(self, *args): + """__init__(self) -> num_expr_list""" + this = _pymcell.new_num_expr_list(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_num_expr_list + __del__ = lambda self: None +num_expr_list_swigregister = _pymcell.num_expr_list_swigregister +num_expr_list_swigregister(num_expr_list) + +class mesh_region_string_buffs(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, mesh_region_string_buffs, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, mesh_region_string_buffs, name) + __repr__ = _swig_repr + __swig_setmethods__["old_inst_mesh_names"] = _pymcell.mesh_region_string_buffs_old_inst_mesh_names_set + __swig_getmethods__["old_inst_mesh_names"] = _pymcell.mesh_region_string_buffs_old_inst_mesh_names_get + if _newclass: + old_inst_mesh_names = _swig_property(_pymcell.mesh_region_string_buffs_old_inst_mesh_names_get, _pymcell.mesh_region_string_buffs_old_inst_mesh_names_set) + __swig_setmethods__["old_region_names"] = _pymcell.mesh_region_string_buffs_old_region_names_set + __swig_getmethods__["old_region_names"] = _pymcell.mesh_region_string_buffs_old_region_names_get + if _newclass: + old_region_names = _swig_property(_pymcell.mesh_region_string_buffs_old_region_names_get, _pymcell.mesh_region_string_buffs_old_region_names_set) + + def __init__(self, *args): + """__init__(self) -> mesh_region_string_buffs""" + this = _pymcell.new_mesh_region_string_buffs(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_mesh_region_string_buffs + __del__ = lambda self: None +mesh_region_string_buffs_swigregister = _pymcell.mesh_region_string_buffs_swigregister +mesh_region_string_buffs_swigregister(mesh_region_string_buffs) + + +def mcell_change_geometry(state: 'struct volume *', pobj_list: 'poly_object_list') -> "int": + return _pymcell.mcell_change_geometry(state, pobj_list) +mcell_change_geometry = _pymcell.mcell_change_geometry +class vector2(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, vector2, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, vector2, name) + __repr__ = _swig_repr + __swig_setmethods__["u"] = _pymcell.vector2_u_set + __swig_getmethods__["u"] = _pymcell.vector2_u_get + if _newclass: + u = _swig_property(_pymcell.vector2_u_get, _pymcell.vector2_u_set) + __swig_setmethods__["v"] = _pymcell.vector2_v_set + __swig_getmethods__["v"] = _pymcell.vector2_v_get + if _newclass: + v = _swig_property(_pymcell.vector2_v_get, _pymcell.vector2_v_set) + + def __init__(self, *args): + """__init__(self) -> vector2""" + this = _pymcell.new_vector2(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_vector2 + __del__ = lambda self: None +vector2_swigregister = _pymcell.vector2_swigregister +vector2_swigregister(vector2) + +class vector3(_object): + __swig_setmethods__ = {} + __setattr__ = lambda self, name, value: _swig_setattr(self, vector3, name, value) + __swig_getmethods__ = {} + __getattr__ = lambda self, name: _swig_getattr(self, vector3, name) + __repr__ = _swig_repr + __swig_setmethods__["x"] = _pymcell.vector3_x_set + __swig_getmethods__["x"] = _pymcell.vector3_x_get + if _newclass: + x = _swig_property(_pymcell.vector3_x_get, _pymcell.vector3_x_set) + __swig_setmethods__["y"] = _pymcell.vector3_y_set + __swig_getmethods__["y"] = _pymcell.vector3_y_get + if _newclass: + y = _swig_property(_pymcell.vector3_y_get, _pymcell.vector3_y_set) + __swig_setmethods__["z"] = _pymcell.vector3_z_set + __swig_getmethods__["z"] = _pymcell.vector3_z_get + if _newclass: + z = _swig_property(_pymcell.vector3_z_get, _pymcell.vector3_z_set) + + def __init__(self, *args): + """__init__(self) -> vector3""" + this = _pymcell.new_vector3(*args) + try: + self.this.append(this) + except __builtin__.Exception: + self.this = this + __swig_destroy__ = _pymcell.delete_vector3 + __del__ = lambda self: None +vector3_swigregister = _pymcell.vector3_swigregister +vector3_swigregister(vector3) + + +def mult_matrix(m1: 'double (*)[4]', m2: 'double (*)[4]', om: 'double (*)[4]', l: 'unsigned short', m: 'unsigned short', n: 'unsigned short') -> "void": + return _pymcell.mult_matrix(m1, m2, om, l, m, n) +mult_matrix = _pymcell.mult_matrix + +def normalize(v: 'vector3') -> "void": + return _pymcell.normalize(v) +normalize = _pymcell.normalize + +def init_matrix(im: 'double (*)[4]') -> "void": + return _pymcell.init_matrix(im) +init_matrix = _pymcell.init_matrix + +def scale_matrix(im: 'double (*)[4]', om: 'double (*)[4]', scale: 'vector3') -> "void": + return _pymcell.scale_matrix(im, om, scale) +scale_matrix = _pymcell.scale_matrix + +def translate_matrix(im: 'double (*)[4]', om: 'double (*)[4]', translate: 'vector3') -> "void": + return _pymcell.translate_matrix(im, om, translate) +translate_matrix = _pymcell.translate_matrix + +def rotate_matrix(im: 'double (*)[4]', om: 'double (*)[4]', axis: 'vector3', angle: 'double') -> "void": + return _pymcell.rotate_matrix(im, om, axis, angle) +rotate_matrix = _pymcell.rotate_matrix + +def tform_matrix(scale: 'vector3', translate: 'vector3', axis: 'vector3', angle: 'double', om: 'double (*)[4]') -> "void": + return _pymcell.tform_matrix(scale, translate, axis, angle, om) +tform_matrix = _pymcell.tform_matrix + +def vectorize(p1: 'vector3', p2: 'vector3', v: 'vector3') -> "void": + return _pymcell.vectorize(p1, p2, v) +vectorize = _pymcell.vectorize + +def vect_length(v: 'vector3') -> "double": + return _pymcell.vect_length(v) +vect_length = _pymcell.vect_length + +def dot_prod(v1: 'vector3', v2: 'vector3') -> "double": + return _pymcell.dot_prod(v1, v2) +dot_prod = _pymcell.dot_prod + +def cross_prod(v1: 'vector3', v2: 'vector3', v3: 'vector3') -> "void": + return _pymcell.cross_prod(v1, v2, v3) +cross_prod = _pymcell.cross_prod + +def vect_sum(v1: 'vector3', v2: 'vector3', v3: 'vector3') -> "void": + return _pymcell.vect_sum(v1, v2, v3) +vect_sum = _pymcell.vect_sum + +def scalar_prod(v1: 'vector3', a: 'double', result: 'vector3') -> "void": + return _pymcell.scalar_prod(v1, a, result) +scalar_prod = _pymcell.scalar_prod + +def distinguishable_vec3(a: 'vector3', b: 'vector3', eps: 'double') -> "int": + return _pymcell.distinguishable_vec3(a, b, eps) +distinguishable_vec3 = _pymcell.distinguishable_vec3 + +def distinguishable_vec2(a: 'vector2', b: 'vector2', eps: 'double') -> "int": + return _pymcell.distinguishable_vec2(a, b, eps) +distinguishable_vec2 = _pymcell.distinguishable_vec2 + +def distance_vec3(a: 'vector3', b: 'vector3') -> "double": + return _pymcell.distance_vec3(a, b) +distance_vec3 = _pymcell.distance_vec3 + +def parallel_segments(A: 'vector3', B: 'vector3', R: 'vector3', S: 'vector3') -> "int": + return _pymcell.parallel_segments(A, B, R, S) +parallel_segments = _pymcell.parallel_segments + +def point_in_triangle(p: 'vector3', a: 'vector3', b: 'vector3', c: 'vector3') -> "int": + return _pymcell.point_in_triangle(p, a, b, c) +point_in_triangle = _pymcell.point_in_triangle + +def same_side(p1: 'vector3', p2: 'vector3', a: 'vector3', b: 'vector3') -> "int": + return _pymcell.same_side(p1, p2, a, b) +same_side = _pymcell.same_side + +def intersect_point_segment(P: 'vector3', A: 'vector3', B: 'vector3') -> "int": + return _pymcell.intersect_point_segment(P, A, B) +intersect_point_segment = _pymcell.intersect_point_segment + +def cross2D(a: 'vector2', b: 'vector2') -> "double": + return _pymcell.cross2D(a, b) +cross2D = _pymcell.cross2D + +def vectorize2D(p1: 'vector2', p2: 'vector2', p3: 'vector2') -> "void": + return _pymcell.vectorize2D(p1, p2, p3) +vectorize2D = _pymcell.vectorize2D + +def point_in_triangle_2D(p: 'vector2', a: 'vector2', b: 'vector2', c: 'vector2') -> "int": + return _pymcell.point_in_triangle_2D(p, a, b, c) +point_in_triangle_2D = _pymcell.point_in_triangle_2D + +def point_in_box(low_left: 'vector3', up_right: 'vector3', point: 'vector3') -> "int": + return _pymcell.point_in_box(low_left, up_right, point) +point_in_box = _pymcell.point_in_box +# This file is compatible with both classic and new-style classes. + + diff --git a/src/pymcell_examples/box.py b/mcell/pymcell_examples/box.py similarity index 100% rename from src/pymcell_examples/box.py rename to mcell/pymcell_examples/box.py diff --git a/src/pymcell_examples/lipidraft.json b/mcell/pymcell_examples/lipidraft.json similarity index 100% rename from src/pymcell_examples/lipidraft.json rename to mcell/pymcell_examples/lipidraft.json diff --git a/src/pymcell_examples/lipidraft.txt b/mcell/pymcell_examples/lipidraft.txt similarity index 100% rename from src/pymcell_examples/lipidraft.txt rename to mcell/pymcell_examples/lipidraft.txt diff --git a/src/pymcell_examples/pymcell_test.ipynb b/mcell/pymcell_examples/pymcell_test.ipynb similarity index 100% rename from src/pymcell_examples/pymcell_test.ipynb rename to mcell/pymcell_examples/pymcell_test.ipynb diff --git a/src/pymcell_examples/test.json b/mcell/pymcell_examples/test.json similarity index 100% rename from src/pymcell_examples/test.json rename to mcell/pymcell_examples/test.json diff --git a/src/pymcell_examples/test_api.py b/mcell/pymcell_examples/test_api.py similarity index 100% rename from src/pymcell_examples/test_api.py rename to mcell/pymcell_examples/test_api.py diff --git a/src/pymcell_examples/test_bool.py b/mcell/pymcell_examples/test_bool.py similarity index 100% rename from src/pymcell_examples/test_bool.py rename to mcell/pymcell_examples/test_bool.py diff --git a/src/pymcell_examples/test_dm_read.py b/mcell/pymcell_examples/test_dm_read.py similarity index 100% rename from src/pymcell_examples/test_dm_read.py rename to mcell/pymcell_examples/test_dm_read.py diff --git a/src/pymcell_examples/test_mcell_neuron_python.py b/mcell/pymcell_examples/test_mcell_neuron_python.py similarity index 100% rename from src/pymcell_examples/test_mcell_neuron_python.py rename to mcell/pymcell_examples/test_mcell_neuron_python.py diff --git a/src/pymcell_examples/test_release_list.py b/mcell/pymcell_examples/test_release_list.py similarity index 100% rename from src/pymcell_examples/test_release_list.py rename to mcell/pymcell_examples/test_release_list.py diff --git a/src/pymcell_examples/test_release_pattern.py b/mcell/pymcell_examples/test_release_pattern.py similarity index 100% rename from src/pymcell_examples/test_release_pattern.py rename to mcell/pymcell_examples/test_release_pattern.py diff --git a/src/pymcell_examples/torus.py b/mcell/pymcell_examples/torus.py similarity index 100% rename from src/pymcell_examples/torus.py rename to mcell/pymcell_examples/torus.py diff --git a/src/pymcell_helpers.py b/mcell/pymcell_helpers.py similarity index 100% rename from src/pymcell_helpers.py rename to mcell/pymcell_helpers.py diff --git a/src/pymcell_unittests.py b/mcell/pymcell_unittests.py similarity index 100% rename from src/pymcell_unittests.py rename to mcell/pymcell_unittests.py diff --git a/mcell/pymcell_wrap.c b/mcell/pymcell_wrap.c new file mode 100644 index 000000000..23c3281ed --- /dev/null +++ b/mcell/pymcell_wrap.c @@ -0,0 +1,17775 @@ +/* ---------------------------------------------------------------------------- + * This file was automatically generated by SWIG (http://www.swig.org). + * Version 3.0.10 + * + * This file is not intended to be easily readable and contains a number of + * coding conventions designed to improve portability and efficiency. Do not make + * changes to this file unless you know what you are doing--modify the SWIG + * interface file instead. + * ----------------------------------------------------------------------------- */ + + +#ifndef SWIGPYTHON +#define SWIGPYTHON +#endif + +#define SWIG_PYTHON_DIRECTOR_NO_VTABLE + +/* ----------------------------------------------------------------------------- + * This section contains generic SWIG labels for method/variable + * declarations/attributes, and other compiler dependent labels. + * ----------------------------------------------------------------------------- */ + +/* template workaround for compilers that cannot correctly implement the C++ standard */ +#ifndef SWIGTEMPLATEDISAMBIGUATOR +# if defined(__SUNPRO_CC) && (__SUNPRO_CC <= 0x560) +# define SWIGTEMPLATEDISAMBIGUATOR template +# elif defined(__HP_aCC) +/* Needed even with `aCC -AA' when `aCC -V' reports HP ANSI C++ B3910B A.03.55 */ +/* If we find a maximum version that requires this, the test would be __HP_aCC <= 35500 for A.03.55 */ +# define SWIGTEMPLATEDISAMBIGUATOR template +# else +# define SWIGTEMPLATEDISAMBIGUATOR +# endif +#endif + +/* inline attribute */ +#ifndef SWIGINLINE +# if defined(__cplusplus) || (defined(__GNUC__) && !defined(__STRICT_ANSI__)) +# define SWIGINLINE inline +# else +# define SWIGINLINE +# endif +#endif + +/* attribute recognised by some compilers to avoid 'unused' warnings */ +#ifndef SWIGUNUSED +# if defined(__GNUC__) +# if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) +# define SWIGUNUSED __attribute__ ((__unused__)) +# else +# define SWIGUNUSED +# endif +# elif defined(__ICC) +# define SWIGUNUSED __attribute__ ((__unused__)) +# else +# define SWIGUNUSED +# endif +#endif + +#ifndef SWIG_MSC_UNSUPPRESS_4505 +# if defined(_MSC_VER) +# pragma warning(disable : 4505) /* unreferenced local function has been removed */ +# endif +#endif + +#ifndef SWIGUNUSEDPARM +# ifdef __cplusplus +# define SWIGUNUSEDPARM(p) +# else +# define SWIGUNUSEDPARM(p) p SWIGUNUSED +# endif +#endif + +/* internal SWIG method */ +#ifndef SWIGINTERN +# define SWIGINTERN static SWIGUNUSED +#endif + +/* internal inline SWIG method */ +#ifndef SWIGINTERNINLINE +# define SWIGINTERNINLINE SWIGINTERN SWIGINLINE +#endif + +/* exporting methods */ +#if defined(__GNUC__) +# if (__GNUC__ >= 4) || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4) +# ifndef GCC_HASCLASSVISIBILITY +# define GCC_HASCLASSVISIBILITY +# endif +# endif +#endif + +#ifndef SWIGEXPORT +# if defined(_WIN32) || defined(__WIN32__) || defined(__CYGWIN__) +# if defined(STATIC_LINKED) +# define SWIGEXPORT +# else +# define SWIGEXPORT __declspec(dllexport) +# endif +# else +# if defined(__GNUC__) && defined(GCC_HASCLASSVISIBILITY) +# define SWIGEXPORT __attribute__ ((visibility("default"))) +# else +# define SWIGEXPORT +# endif +# endif +#endif + +/* calling conventions for Windows */ +#ifndef SWIGSTDCALL +# if defined(_WIN32) || defined(__WIN32__) || defined(__CYGWIN__) +# define SWIGSTDCALL __stdcall +# else +# define SWIGSTDCALL +# endif +#endif + +/* Deal with Microsoft's attempt at deprecating C standard runtime functions */ +#if !defined(SWIG_NO_CRT_SECURE_NO_DEPRECATE) && defined(_MSC_VER) && !defined(_CRT_SECURE_NO_DEPRECATE) +# define _CRT_SECURE_NO_DEPRECATE +#endif + +/* Deal with Microsoft's attempt at deprecating methods in the standard C++ library */ +#if !defined(SWIG_NO_SCL_SECURE_NO_DEPRECATE) && defined(_MSC_VER) && !defined(_SCL_SECURE_NO_DEPRECATE) +# define _SCL_SECURE_NO_DEPRECATE +#endif + +/* Deal with Apple's deprecated 'AssertMacros.h' from Carbon-framework */ +#if defined(__APPLE__) && !defined(__ASSERT_MACROS_DEFINE_VERSIONS_WITHOUT_UNDERSCORES) +# define __ASSERT_MACROS_DEFINE_VERSIONS_WITHOUT_UNDERSCORES 0 +#endif + +/* Intel's compiler complains if a variable which was never initialised is + * cast to void, which is a common idiom which we use to indicate that we + * are aware a variable isn't used. So we just silence that warning. + * See: https://github.com/swig/swig/issues/192 for more discussion. + */ +#ifdef __INTEL_COMPILER +# pragma warning disable 592 +#endif + + +#if defined(_DEBUG) && defined(SWIG_PYTHON_INTERPRETER_NO_DEBUG) +/* Use debug wrappers with the Python release dll */ +# undef _DEBUG +# include +# define _DEBUG +#else +# include +#endif + +/* ----------------------------------------------------------------------------- + * swigrun.swg + * + * This file contains generic C API SWIG runtime support for pointer + * type checking. + * ----------------------------------------------------------------------------- */ + +/* This should only be incremented when either the layout of swig_type_info changes, + or for whatever reason, the runtime changes incompatibly */ +#define SWIG_RUNTIME_VERSION "4" + +/* define SWIG_TYPE_TABLE_NAME as "SWIG_TYPE_TABLE" */ +#ifdef SWIG_TYPE_TABLE +# define SWIG_QUOTE_STRING(x) #x +# define SWIG_EXPAND_AND_QUOTE_STRING(x) SWIG_QUOTE_STRING(x) +# define SWIG_TYPE_TABLE_NAME SWIG_EXPAND_AND_QUOTE_STRING(SWIG_TYPE_TABLE) +#else +# define SWIG_TYPE_TABLE_NAME +#endif + +/* + You can use the SWIGRUNTIME and SWIGRUNTIMEINLINE macros for + creating a static or dynamic library from the SWIG runtime code. + In 99.9% of the cases, SWIG just needs to declare them as 'static'. + + But only do this if strictly necessary, ie, if you have problems + with your compiler or suchlike. +*/ + +#ifndef SWIGRUNTIME +# define SWIGRUNTIME SWIGINTERN +#endif + +#ifndef SWIGRUNTIMEINLINE +# define SWIGRUNTIMEINLINE SWIGRUNTIME SWIGINLINE +#endif + +/* Generic buffer size */ +#ifndef SWIG_BUFFER_SIZE +# define SWIG_BUFFER_SIZE 1024 +#endif + +/* Flags for pointer conversions */ +#define SWIG_POINTER_DISOWN 0x1 +#define SWIG_CAST_NEW_MEMORY 0x2 + +/* Flags for new pointer objects */ +#define SWIG_POINTER_OWN 0x1 + + +/* + Flags/methods for returning states. + + The SWIG conversion methods, as ConvertPtr, return an integer + that tells if the conversion was successful or not. And if not, + an error code can be returned (see swigerrors.swg for the codes). + + Use the following macros/flags to set or process the returning + states. + + In old versions of SWIG, code such as the following was usually written: + + if (SWIG_ConvertPtr(obj,vptr,ty.flags) != -1) { + // success code + } else { + //fail code + } + + Now you can be more explicit: + + int res = SWIG_ConvertPtr(obj,vptr,ty.flags); + if (SWIG_IsOK(res)) { + // success code + } else { + // fail code + } + + which is the same really, but now you can also do + + Type *ptr; + int res = SWIG_ConvertPtr(obj,(void **)(&ptr),ty.flags); + if (SWIG_IsOK(res)) { + // success code + if (SWIG_IsNewObj(res) { + ... + delete *ptr; + } else { + ... + } + } else { + // fail code + } + + I.e., now SWIG_ConvertPtr can return new objects and you can + identify the case and take care of the deallocation. Of course that + also requires SWIG_ConvertPtr to return new result values, such as + + int SWIG_ConvertPtr(obj, ptr,...) { + if () { + if () { + *ptr = ; + return SWIG_NEWOBJ; + } else { + *ptr = ; + return SWIG_OLDOBJ; + } + } else { + return SWIG_BADOBJ; + } + } + + Of course, returning the plain '0(success)/-1(fail)' still works, but you can be + more explicit by returning SWIG_BADOBJ, SWIG_ERROR or any of the + SWIG errors code. + + Finally, if the SWIG_CASTRANK_MODE is enabled, the result code + allows to return the 'cast rank', for example, if you have this + + int food(double) + int fooi(int); + + and you call + + food(1) // cast rank '1' (1 -> 1.0) + fooi(1) // cast rank '0' + + just use the SWIG_AddCast()/SWIG_CheckState() +*/ + +#define SWIG_OK (0) +#define SWIG_ERROR (-1) +#define SWIG_IsOK(r) (r >= 0) +#define SWIG_ArgError(r) ((r != SWIG_ERROR) ? r : SWIG_TypeError) + +/* The CastRankLimit says how many bits are used for the cast rank */ +#define SWIG_CASTRANKLIMIT (1 << 8) +/* The NewMask denotes the object was created (using new/malloc) */ +#define SWIG_NEWOBJMASK (SWIG_CASTRANKLIMIT << 1) +/* The TmpMask is for in/out typemaps that use temporal objects */ +#define SWIG_TMPOBJMASK (SWIG_NEWOBJMASK << 1) +/* Simple returning values */ +#define SWIG_BADOBJ (SWIG_ERROR) +#define SWIG_OLDOBJ (SWIG_OK) +#define SWIG_NEWOBJ (SWIG_OK | SWIG_NEWOBJMASK) +#define SWIG_TMPOBJ (SWIG_OK | SWIG_TMPOBJMASK) +/* Check, add and del mask methods */ +#define SWIG_AddNewMask(r) (SWIG_IsOK(r) ? (r | SWIG_NEWOBJMASK) : r) +#define SWIG_DelNewMask(r) (SWIG_IsOK(r) ? (r & ~SWIG_NEWOBJMASK) : r) +#define SWIG_IsNewObj(r) (SWIG_IsOK(r) && (r & SWIG_NEWOBJMASK)) +#define SWIG_AddTmpMask(r) (SWIG_IsOK(r) ? (r | SWIG_TMPOBJMASK) : r) +#define SWIG_DelTmpMask(r) (SWIG_IsOK(r) ? (r & ~SWIG_TMPOBJMASK) : r) +#define SWIG_IsTmpObj(r) (SWIG_IsOK(r) && (r & SWIG_TMPOBJMASK)) + +/* Cast-Rank Mode */ +#if defined(SWIG_CASTRANK_MODE) +# ifndef SWIG_TypeRank +# define SWIG_TypeRank unsigned long +# endif +# ifndef SWIG_MAXCASTRANK /* Default cast allowed */ +# define SWIG_MAXCASTRANK (2) +# endif +# define SWIG_CASTRANKMASK ((SWIG_CASTRANKLIMIT) -1) +# define SWIG_CastRank(r) (r & SWIG_CASTRANKMASK) +SWIGINTERNINLINE int SWIG_AddCast(int r) { + return SWIG_IsOK(r) ? ((SWIG_CastRank(r) < SWIG_MAXCASTRANK) ? (r + 1) : SWIG_ERROR) : r; +} +SWIGINTERNINLINE int SWIG_CheckState(int r) { + return SWIG_IsOK(r) ? SWIG_CastRank(r) + 1 : 0; +} +#else /* no cast-rank mode */ +# define SWIG_AddCast(r) (r) +# define SWIG_CheckState(r) (SWIG_IsOK(r) ? 1 : 0) +#endif + + +#include + +#ifdef __cplusplus +extern "C" { +#endif + +typedef void *(*swig_converter_func)(void *, int *); +typedef struct swig_type_info *(*swig_dycast_func)(void **); + +/* Structure to store information on one type */ +typedef struct swig_type_info { + const char *name; /* mangled name of this type */ + const char *str; /* human readable name of this type */ + swig_dycast_func dcast; /* dynamic cast function down a hierarchy */ + struct swig_cast_info *cast; /* linked list of types that can cast into this type */ + void *clientdata; /* language specific type data */ + int owndata; /* flag if the structure owns the clientdata */ +} swig_type_info; + +/* Structure to store a type and conversion function used for casting */ +typedef struct swig_cast_info { + swig_type_info *type; /* pointer to type that is equivalent to this type */ + swig_converter_func converter; /* function to cast the void pointers */ + struct swig_cast_info *next; /* pointer to next cast in linked list */ + struct swig_cast_info *prev; /* pointer to the previous cast */ +} swig_cast_info; + +/* Structure used to store module information + * Each module generates one structure like this, and the runtime collects + * all of these structures and stores them in a circularly linked list.*/ +typedef struct swig_module_info { + swig_type_info **types; /* Array of pointers to swig_type_info structures that are in this module */ + size_t size; /* Number of types in this module */ + struct swig_module_info *next; /* Pointer to next element in circularly linked list */ + swig_type_info **type_initial; /* Array of initially generated type structures */ + swig_cast_info **cast_initial; /* Array of initially generated casting structures */ + void *clientdata; /* Language specific module data */ +} swig_module_info; + +/* + Compare two type names skipping the space characters, therefore + "char*" == "char *" and "Class" == "Class", etc. + + Return 0 when the two name types are equivalent, as in + strncmp, but skipping ' '. +*/ +SWIGRUNTIME int +SWIG_TypeNameComp(const char *f1, const char *l1, + const char *f2, const char *l2) { + for (;(f1 != l1) && (f2 != l2); ++f1, ++f2) { + while ((*f1 == ' ') && (f1 != l1)) ++f1; + while ((*f2 == ' ') && (f2 != l2)) ++f2; + if (*f1 != *f2) return (*f1 > *f2) ? 1 : -1; + } + return (int)((l1 - f1) - (l2 - f2)); +} + +/* + Check type equivalence in a name list like ||... + Return 0 if equal, -1 if nb < tb, 1 if nb > tb +*/ +SWIGRUNTIME int +SWIG_TypeCmp(const char *nb, const char *tb) { + int equiv = 1; + const char* te = tb + strlen(tb); + const char* ne = nb; + while (equiv != 0 && *ne) { + for (nb = ne; *ne; ++ne) { + if (*ne == '|') break; + } + equiv = SWIG_TypeNameComp(nb, ne, tb, te); + if (*ne) ++ne; + } + return equiv; +} + +/* + Check type equivalence in a name list like ||... + Return 0 if not equal, 1 if equal +*/ +SWIGRUNTIME int +SWIG_TypeEquiv(const char *nb, const char *tb) { + return SWIG_TypeCmp(nb, tb) == 0 ? 1 : 0; +} + +/* + Check the typename +*/ +SWIGRUNTIME swig_cast_info * +SWIG_TypeCheck(const char *c, swig_type_info *ty) { + if (ty) { + swig_cast_info *iter = ty->cast; + while (iter) { + if (strcmp(iter->type->name, c) == 0) { + if (iter == ty->cast) + return iter; + /* Move iter to the top of the linked list */ + iter->prev->next = iter->next; + if (iter->next) + iter->next->prev = iter->prev; + iter->next = ty->cast; + iter->prev = 0; + if (ty->cast) ty->cast->prev = iter; + ty->cast = iter; + return iter; + } + iter = iter->next; + } + } + return 0; +} + +/* + Identical to SWIG_TypeCheck, except strcmp is replaced with a pointer comparison +*/ +SWIGRUNTIME swig_cast_info * +SWIG_TypeCheckStruct(swig_type_info *from, swig_type_info *ty) { + if (ty) { + swig_cast_info *iter = ty->cast; + while (iter) { + if (iter->type == from) { + if (iter == ty->cast) + return iter; + /* Move iter to the top of the linked list */ + iter->prev->next = iter->next; + if (iter->next) + iter->next->prev = iter->prev; + iter->next = ty->cast; + iter->prev = 0; + if (ty->cast) ty->cast->prev = iter; + ty->cast = iter; + return iter; + } + iter = iter->next; + } + } + return 0; +} + +/* + Cast a pointer up an inheritance hierarchy +*/ +SWIGRUNTIMEINLINE void * +SWIG_TypeCast(swig_cast_info *ty, void *ptr, int *newmemory) { + return ((!ty) || (!ty->converter)) ? ptr : (*ty->converter)(ptr, newmemory); +} + +/* + Dynamic pointer casting. Down an inheritance hierarchy +*/ +SWIGRUNTIME swig_type_info * +SWIG_TypeDynamicCast(swig_type_info *ty, void **ptr) { + swig_type_info *lastty = ty; + if (!ty || !ty->dcast) return ty; + while (ty && (ty->dcast)) { + ty = (*ty->dcast)(ptr); + if (ty) lastty = ty; + } + return lastty; +} + +/* + Return the name associated with this type +*/ +SWIGRUNTIMEINLINE const char * +SWIG_TypeName(const swig_type_info *ty) { + return ty->name; +} + +/* + Return the pretty name associated with this type, + that is an unmangled type name in a form presentable to the user. +*/ +SWIGRUNTIME const char * +SWIG_TypePrettyName(const swig_type_info *type) { + /* The "str" field contains the equivalent pretty names of the + type, separated by vertical-bar characters. We choose + to print the last name, as it is often (?) the most + specific. */ + if (!type) return NULL; + if (type->str != NULL) { + const char *last_name = type->str; + const char *s; + for (s = type->str; *s; s++) + if (*s == '|') last_name = s+1; + return last_name; + } + else + return type->name; +} + +/* + Set the clientdata field for a type +*/ +SWIGRUNTIME void +SWIG_TypeClientData(swig_type_info *ti, void *clientdata) { + swig_cast_info *cast = ti->cast; + /* if (ti->clientdata == clientdata) return; */ + ti->clientdata = clientdata; + + while (cast) { + if (!cast->converter) { + swig_type_info *tc = cast->type; + if (!tc->clientdata) { + SWIG_TypeClientData(tc, clientdata); + } + } + cast = cast->next; + } +} +SWIGRUNTIME void +SWIG_TypeNewClientData(swig_type_info *ti, void *clientdata) { + SWIG_TypeClientData(ti, clientdata); + ti->owndata = 1; +} + +/* + Search for a swig_type_info structure only by mangled name + Search is a O(log #types) + + We start searching at module start, and finish searching when start == end. + Note: if start == end at the beginning of the function, we go all the way around + the circular list. +*/ +SWIGRUNTIME swig_type_info * +SWIG_MangledTypeQueryModule(swig_module_info *start, + swig_module_info *end, + const char *name) { + swig_module_info *iter = start; + do { + if (iter->size) { + size_t l = 0; + size_t r = iter->size - 1; + do { + /* since l+r >= 0, we can (>> 1) instead (/ 2) */ + size_t i = (l + r) >> 1; + const char *iname = iter->types[i]->name; + if (iname) { + int compare = strcmp(name, iname); + if (compare == 0) { + return iter->types[i]; + } else if (compare < 0) { + if (i) { + r = i - 1; + } else { + break; + } + } else if (compare > 0) { + l = i + 1; + } + } else { + break; /* should never happen */ + } + } while (l <= r); + } + iter = iter->next; + } while (iter != end); + return 0; +} + +/* + Search for a swig_type_info structure for either a mangled name or a human readable name. + It first searches the mangled names of the types, which is a O(log #types) + If a type is not found it then searches the human readable names, which is O(#types). + + We start searching at module start, and finish searching when start == end. + Note: if start == end at the beginning of the function, we go all the way around + the circular list. +*/ +SWIGRUNTIME swig_type_info * +SWIG_TypeQueryModule(swig_module_info *start, + swig_module_info *end, + const char *name) { + /* STEP 1: Search the name field using binary search */ + swig_type_info *ret = SWIG_MangledTypeQueryModule(start, end, name); + if (ret) { + return ret; + } else { + /* STEP 2: If the type hasn't been found, do a complete search + of the str field (the human readable name) */ + swig_module_info *iter = start; + do { + size_t i = 0; + for (; i < iter->size; ++i) { + if (iter->types[i]->str && (SWIG_TypeEquiv(iter->types[i]->str, name))) + return iter->types[i]; + } + iter = iter->next; + } while (iter != end); + } + + /* neither found a match */ + return 0; +} + +/* + Pack binary data into a string +*/ +SWIGRUNTIME char * +SWIG_PackData(char *c, void *ptr, size_t sz) { + static const char hex[17] = "0123456789abcdef"; + const unsigned char *u = (unsigned char *) ptr; + const unsigned char *eu = u + sz; + for (; u != eu; ++u) { + unsigned char uu = *u; + *(c++) = hex[(uu & 0xf0) >> 4]; + *(c++) = hex[uu & 0xf]; + } + return c; +} + +/* + Unpack binary data from a string +*/ +SWIGRUNTIME const char * +SWIG_UnpackData(const char *c, void *ptr, size_t sz) { + unsigned char *u = (unsigned char *) ptr; + const unsigned char *eu = u + sz; + for (; u != eu; ++u) { + char d = *(c++); + unsigned char uu; + if ((d >= '0') && (d <= '9')) + uu = (unsigned char)((d - '0') << 4); + else if ((d >= 'a') && (d <= 'f')) + uu = (unsigned char)((d - ('a'-10)) << 4); + else + return (char *) 0; + d = *(c++); + if ((d >= '0') && (d <= '9')) + uu |= (unsigned char)(d - '0'); + else if ((d >= 'a') && (d <= 'f')) + uu |= (unsigned char)(d - ('a'-10)); + else + return (char *) 0; + *u = uu; + } + return c; +} + +/* + Pack 'void *' into a string buffer. +*/ +SWIGRUNTIME char * +SWIG_PackVoidPtr(char *buff, void *ptr, const char *name, size_t bsz) { + char *r = buff; + if ((2*sizeof(void *) + 2) > bsz) return 0; + *(r++) = '_'; + r = SWIG_PackData(r,&ptr,sizeof(void *)); + if (strlen(name) + 1 > (bsz - (r - buff))) return 0; + strcpy(r,name); + return buff; +} + +SWIGRUNTIME const char * +SWIG_UnpackVoidPtr(const char *c, void **ptr, const char *name) { + if (*c != '_') { + if (strcmp(c,"NULL") == 0) { + *ptr = (void *) 0; + return name; + } else { + return 0; + } + } + return SWIG_UnpackData(++c,ptr,sizeof(void *)); +} + +SWIGRUNTIME char * +SWIG_PackDataName(char *buff, void *ptr, size_t sz, const char *name, size_t bsz) { + char *r = buff; + size_t lname = (name ? strlen(name) : 0); + if ((2*sz + 2 + lname) > bsz) return 0; + *(r++) = '_'; + r = SWIG_PackData(r,ptr,sz); + if (lname) { + strncpy(r,name,lname+1); + } else { + *r = 0; + } + return buff; +} + +SWIGRUNTIME const char * +SWIG_UnpackDataName(const char *c, void *ptr, size_t sz, const char *name) { + if (*c != '_') { + if (strcmp(c,"NULL") == 0) { + memset(ptr,0,sz); + return name; + } else { + return 0; + } + } + return SWIG_UnpackData(++c,ptr,sz); +} + +#ifdef __cplusplus +} +#endif + +/* Errors in SWIG */ +#define SWIG_UnknownError -1 +#define SWIG_IOError -2 +#define SWIG_RuntimeError -3 +#define SWIG_IndexError -4 +#define SWIG_TypeError -5 +#define SWIG_DivisionByZero -6 +#define SWIG_OverflowError -7 +#define SWIG_SyntaxError -8 +#define SWIG_ValueError -9 +#define SWIG_SystemError -10 +#define SWIG_AttributeError -11 +#define SWIG_MemoryError -12 +#define SWIG_NullReferenceError -13 + + + +/* Compatibility macros for Python 3 */ +#if PY_VERSION_HEX >= 0x03000000 + +#define PyClass_Check(obj) PyObject_IsInstance(obj, (PyObject *)&PyType_Type) +#define PyInt_Check(x) PyLong_Check(x) +#define PyInt_AsLong(x) PyLong_AsLong(x) +#define PyInt_FromLong(x) PyLong_FromLong(x) +#define PyInt_FromSize_t(x) PyLong_FromSize_t(x) +#define PyString_Check(name) PyBytes_Check(name) +#define PyString_FromString(x) PyUnicode_FromString(x) +#define PyString_Format(fmt, args) PyUnicode_Format(fmt, args) +#define PyString_AsString(str) PyBytes_AsString(str) +#define PyString_Size(str) PyBytes_Size(str) +#define PyString_InternFromString(key) PyUnicode_InternFromString(key) +#define Py_TPFLAGS_HAVE_CLASS Py_TPFLAGS_BASETYPE +#define PyString_AS_STRING(x) PyUnicode_AS_STRING(x) +#define _PyLong_FromSsize_t(x) PyLong_FromSsize_t(x) + +#endif + +#ifndef Py_TYPE +# define Py_TYPE(op) ((op)->ob_type) +#endif + +/* SWIG APIs for compatibility of both Python 2 & 3 */ + +#if PY_VERSION_HEX >= 0x03000000 +# define SWIG_Python_str_FromFormat PyUnicode_FromFormat +#else +# define SWIG_Python_str_FromFormat PyString_FromFormat +#endif + + +/* Warning: This function will allocate a new string in Python 3, + * so please call SWIG_Python_str_DelForPy3(x) to free the space. + */ +SWIGINTERN char* +SWIG_Python_str_AsChar(PyObject *str) +{ +#if PY_VERSION_HEX >= 0x03000000 + char *cstr; + char *newstr; + Py_ssize_t len; + str = PyUnicode_AsUTF8String(str); + PyBytes_AsStringAndSize(str, &cstr, &len); + newstr = (char *) malloc(len+1); + memcpy(newstr, cstr, len+1); + Py_XDECREF(str); + return newstr; +#else + return PyString_AsString(str); +#endif +} + +#if PY_VERSION_HEX >= 0x03000000 +# define SWIG_Python_str_DelForPy3(x) free( (void*) (x) ) +#else +# define SWIG_Python_str_DelForPy3(x) +#endif + + +SWIGINTERN PyObject* +SWIG_Python_str_FromChar(const char *c) +{ +#if PY_VERSION_HEX >= 0x03000000 + return PyUnicode_FromString(c); +#else + return PyString_FromString(c); +#endif +} + +/* Add PyOS_snprintf for old Pythons */ +#if PY_VERSION_HEX < 0x02020000 +# if defined(_MSC_VER) || defined(__BORLANDC__) || defined(_WATCOM) +# define PyOS_snprintf _snprintf +# else +# define PyOS_snprintf snprintf +# endif +#endif + +/* A crude PyString_FromFormat implementation for old Pythons */ +#if PY_VERSION_HEX < 0x02020000 + +#ifndef SWIG_PYBUFFER_SIZE +# define SWIG_PYBUFFER_SIZE 1024 +#endif + +static PyObject * +PyString_FromFormat(const char *fmt, ...) { + va_list ap; + char buf[SWIG_PYBUFFER_SIZE * 2]; + int res; + va_start(ap, fmt); + res = vsnprintf(buf, sizeof(buf), fmt, ap); + va_end(ap); + return (res < 0 || res >= (int)sizeof(buf)) ? 0 : PyString_FromString(buf); +} +#endif + +#ifndef PyObject_DEL +# define PyObject_DEL PyObject_Del +#endif + +/* A crude PyExc_StopIteration exception for old Pythons */ +#if PY_VERSION_HEX < 0x02020000 +# ifndef PyExc_StopIteration +# define PyExc_StopIteration PyExc_RuntimeError +# endif +# ifndef PyObject_GenericGetAttr +# define PyObject_GenericGetAttr 0 +# endif +#endif + +/* Py_NotImplemented is defined in 2.1 and up. */ +#if PY_VERSION_HEX < 0x02010000 +# ifndef Py_NotImplemented +# define Py_NotImplemented PyExc_RuntimeError +# endif +#endif + +/* A crude PyString_AsStringAndSize implementation for old Pythons */ +#if PY_VERSION_HEX < 0x02010000 +# ifndef PyString_AsStringAndSize +# define PyString_AsStringAndSize(obj, s, len) {*s = PyString_AsString(obj); *len = *s ? strlen(*s) : 0;} +# endif +#endif + +/* PySequence_Size for old Pythons */ +#if PY_VERSION_HEX < 0x02000000 +# ifndef PySequence_Size +# define PySequence_Size PySequence_Length +# endif +#endif + +/* PyBool_FromLong for old Pythons */ +#if PY_VERSION_HEX < 0x02030000 +static +PyObject *PyBool_FromLong(long ok) +{ + PyObject *result = ok ? Py_True : Py_False; + Py_INCREF(result); + return result; +} +#endif + +/* Py_ssize_t for old Pythons */ +/* This code is as recommended by: */ +/* http://www.python.org/dev/peps/pep-0353/#conversion-guidelines */ +#if PY_VERSION_HEX < 0x02050000 && !defined(PY_SSIZE_T_MIN) +typedef int Py_ssize_t; +# define PY_SSIZE_T_MAX INT_MAX +# define PY_SSIZE_T_MIN INT_MIN +typedef inquiry lenfunc; +typedef intargfunc ssizeargfunc; +typedef intintargfunc ssizessizeargfunc; +typedef intobjargproc ssizeobjargproc; +typedef intintobjargproc ssizessizeobjargproc; +typedef getreadbufferproc readbufferproc; +typedef getwritebufferproc writebufferproc; +typedef getsegcountproc segcountproc; +typedef getcharbufferproc charbufferproc; +static long PyNumber_AsSsize_t (PyObject *x, void *SWIGUNUSEDPARM(exc)) +{ + long result = 0; + PyObject *i = PyNumber_Int(x); + if (i) { + result = PyInt_AsLong(i); + Py_DECREF(i); + } + return result; +} +#endif + +#if PY_VERSION_HEX < 0x02050000 +#define PyInt_FromSize_t(x) PyInt_FromLong((long)x) +#endif + +#if PY_VERSION_HEX < 0x02040000 +#define Py_VISIT(op) \ + do { \ + if (op) { \ + int vret = visit((op), arg); \ + if (vret) \ + return vret; \ + } \ + } while (0) +#endif + +#if PY_VERSION_HEX < 0x02030000 +typedef struct { + PyTypeObject type; + PyNumberMethods as_number; + PyMappingMethods as_mapping; + PySequenceMethods as_sequence; + PyBufferProcs as_buffer; + PyObject *name, *slots; +} PyHeapTypeObject; +#endif + +#if PY_VERSION_HEX < 0x02030000 +typedef destructor freefunc; +#endif + +#if ((PY_MAJOR_VERSION == 2 && PY_MINOR_VERSION > 6) || \ + (PY_MAJOR_VERSION == 3 && PY_MINOR_VERSION > 0) || \ + (PY_MAJOR_VERSION > 3)) +# define SWIGPY_USE_CAPSULE +# define SWIGPY_CAPSULE_NAME ((char*)"swig_runtime_data" SWIG_RUNTIME_VERSION ".type_pointer_capsule" SWIG_TYPE_TABLE_NAME) +#endif + +#if PY_VERSION_HEX < 0x03020000 +#define PyDescr_TYPE(x) (((PyDescrObject *)(x))->d_type) +#define PyDescr_NAME(x) (((PyDescrObject *)(x))->d_name) +#endif + +/* ----------------------------------------------------------------------------- + * error manipulation + * ----------------------------------------------------------------------------- */ + +SWIGRUNTIME PyObject* +SWIG_Python_ErrorType(int code) { + PyObject* type = 0; + switch(code) { + case SWIG_MemoryError: + type = PyExc_MemoryError; + break; + case SWIG_IOError: + type = PyExc_IOError; + break; + case SWIG_RuntimeError: + type = PyExc_RuntimeError; + break; + case SWIG_IndexError: + type = PyExc_IndexError; + break; + case SWIG_TypeError: + type = PyExc_TypeError; + break; + case SWIG_DivisionByZero: + type = PyExc_ZeroDivisionError; + break; + case SWIG_OverflowError: + type = PyExc_OverflowError; + break; + case SWIG_SyntaxError: + type = PyExc_SyntaxError; + break; + case SWIG_ValueError: + type = PyExc_ValueError; + break; + case SWIG_SystemError: + type = PyExc_SystemError; + break; + case SWIG_AttributeError: + type = PyExc_AttributeError; + break; + default: + type = PyExc_RuntimeError; + } + return type; +} + + +SWIGRUNTIME void +SWIG_Python_AddErrorMsg(const char* mesg) +{ + PyObject *type = 0; + PyObject *value = 0; + PyObject *traceback = 0; + + if (PyErr_Occurred()) PyErr_Fetch(&type, &value, &traceback); + if (value) { + char *tmp; + PyObject *old_str = PyObject_Str(value); + PyErr_Clear(); + Py_XINCREF(type); + + PyErr_Format(type, "%s %s", tmp = SWIG_Python_str_AsChar(old_str), mesg); + SWIG_Python_str_DelForPy3(tmp); + Py_DECREF(old_str); + Py_DECREF(value); + } else { + PyErr_SetString(PyExc_RuntimeError, mesg); + } +} + +#if defined(SWIG_PYTHON_NO_THREADS) +# if defined(SWIG_PYTHON_THREADS) +# undef SWIG_PYTHON_THREADS +# endif +#endif +#if defined(SWIG_PYTHON_THREADS) /* Threading support is enabled */ +# if !defined(SWIG_PYTHON_USE_GIL) && !defined(SWIG_PYTHON_NO_USE_GIL) +# if (PY_VERSION_HEX >= 0x02030000) /* For 2.3 or later, use the PyGILState calls */ +# define SWIG_PYTHON_USE_GIL +# endif +# endif +# if defined(SWIG_PYTHON_USE_GIL) /* Use PyGILState threads calls */ +# ifndef SWIG_PYTHON_INITIALIZE_THREADS +# define SWIG_PYTHON_INITIALIZE_THREADS PyEval_InitThreads() +# endif +# ifdef __cplusplus /* C++ code */ + class SWIG_Python_Thread_Block { + bool status; + PyGILState_STATE state; + public: + void end() { if (status) { PyGILState_Release(state); status = false;} } + SWIG_Python_Thread_Block() : status(true), state(PyGILState_Ensure()) {} + ~SWIG_Python_Thread_Block() { end(); } + }; + class SWIG_Python_Thread_Allow { + bool status; + PyThreadState *save; + public: + void end() { if (status) { PyEval_RestoreThread(save); status = false; }} + SWIG_Python_Thread_Allow() : status(true), save(PyEval_SaveThread()) {} + ~SWIG_Python_Thread_Allow() { end(); } + }; +# define SWIG_PYTHON_THREAD_BEGIN_BLOCK SWIG_Python_Thread_Block _swig_thread_block +# define SWIG_PYTHON_THREAD_END_BLOCK _swig_thread_block.end() +# define SWIG_PYTHON_THREAD_BEGIN_ALLOW SWIG_Python_Thread_Allow _swig_thread_allow +# define SWIG_PYTHON_THREAD_END_ALLOW _swig_thread_allow.end() +# else /* C code */ +# define SWIG_PYTHON_THREAD_BEGIN_BLOCK PyGILState_STATE _swig_thread_block = PyGILState_Ensure() +# define SWIG_PYTHON_THREAD_END_BLOCK PyGILState_Release(_swig_thread_block) +# define SWIG_PYTHON_THREAD_BEGIN_ALLOW PyThreadState *_swig_thread_allow = PyEval_SaveThread() +# define SWIG_PYTHON_THREAD_END_ALLOW PyEval_RestoreThread(_swig_thread_allow) +# endif +# else /* Old thread way, not implemented, user must provide it */ +# if !defined(SWIG_PYTHON_INITIALIZE_THREADS) +# define SWIG_PYTHON_INITIALIZE_THREADS +# endif +# if !defined(SWIG_PYTHON_THREAD_BEGIN_BLOCK) +# define SWIG_PYTHON_THREAD_BEGIN_BLOCK +# endif +# if !defined(SWIG_PYTHON_THREAD_END_BLOCK) +# define SWIG_PYTHON_THREAD_END_BLOCK +# endif +# if !defined(SWIG_PYTHON_THREAD_BEGIN_ALLOW) +# define SWIG_PYTHON_THREAD_BEGIN_ALLOW +# endif +# if !defined(SWIG_PYTHON_THREAD_END_ALLOW) +# define SWIG_PYTHON_THREAD_END_ALLOW +# endif +# endif +#else /* No thread support */ +# define SWIG_PYTHON_INITIALIZE_THREADS +# define SWIG_PYTHON_THREAD_BEGIN_BLOCK +# define SWIG_PYTHON_THREAD_END_BLOCK +# define SWIG_PYTHON_THREAD_BEGIN_ALLOW +# define SWIG_PYTHON_THREAD_END_ALLOW +#endif + +/* ----------------------------------------------------------------------------- + * Python API portion that goes into the runtime + * ----------------------------------------------------------------------------- */ + +#ifdef __cplusplus +extern "C" { +#endif + +/* ----------------------------------------------------------------------------- + * Constant declarations + * ----------------------------------------------------------------------------- */ + +/* Constant Types */ +#define SWIG_PY_POINTER 4 +#define SWIG_PY_BINARY 5 + +/* Constant information structure */ +typedef struct swig_const_info { + int type; + char *name; + long lvalue; + double dvalue; + void *pvalue; + swig_type_info **ptype; +} swig_const_info; + + +/* ----------------------------------------------------------------------------- + * Wrapper of PyInstanceMethod_New() used in Python 3 + * It is exported to the generated module, used for -fastproxy + * ----------------------------------------------------------------------------- */ +#if PY_VERSION_HEX >= 0x03000000 +SWIGRUNTIME PyObject* SWIG_PyInstanceMethod_New(PyObject *SWIGUNUSEDPARM(self), PyObject *func) +{ + return PyInstanceMethod_New(func); +} +#else +SWIGRUNTIME PyObject* SWIG_PyInstanceMethod_New(PyObject *SWIGUNUSEDPARM(self), PyObject *SWIGUNUSEDPARM(func)) +{ + return NULL; +} +#endif + +#ifdef __cplusplus +} +#endif + + +/* ----------------------------------------------------------------------------- + * pyrun.swg + * + * This file contains the runtime support for Python modules + * and includes code for managing global variables and pointer + * type checking. + * + * ----------------------------------------------------------------------------- */ + +/* Common SWIG API */ + +/* for raw pointers */ +#define SWIG_Python_ConvertPtr(obj, pptr, type, flags) SWIG_Python_ConvertPtrAndOwn(obj, pptr, type, flags, 0) +#define SWIG_ConvertPtr(obj, pptr, type, flags) SWIG_Python_ConvertPtr(obj, pptr, type, flags) +#define SWIG_ConvertPtrAndOwn(obj,pptr,type,flags,own) SWIG_Python_ConvertPtrAndOwn(obj, pptr, type, flags, own) + +#ifdef SWIGPYTHON_BUILTIN +#define SWIG_NewPointerObj(ptr, type, flags) SWIG_Python_NewPointerObj(self, ptr, type, flags) +#else +#define SWIG_NewPointerObj(ptr, type, flags) SWIG_Python_NewPointerObj(NULL, ptr, type, flags) +#endif + +#define SWIG_InternalNewPointerObj(ptr, type, flags) SWIG_Python_NewPointerObj(NULL, ptr, type, flags) + +#define SWIG_CheckImplicit(ty) SWIG_Python_CheckImplicit(ty) +#define SWIG_AcquirePtr(ptr, src) SWIG_Python_AcquirePtr(ptr, src) +#define swig_owntype int + +/* for raw packed data */ +#define SWIG_ConvertPacked(obj, ptr, sz, ty) SWIG_Python_ConvertPacked(obj, ptr, sz, ty) +#define SWIG_NewPackedObj(ptr, sz, type) SWIG_Python_NewPackedObj(ptr, sz, type) + +/* for class or struct pointers */ +#define SWIG_ConvertInstance(obj, pptr, type, flags) SWIG_ConvertPtr(obj, pptr, type, flags) +#define SWIG_NewInstanceObj(ptr, type, flags) SWIG_NewPointerObj(ptr, type, flags) + +/* for C or C++ function pointers */ +#define SWIG_ConvertFunctionPtr(obj, pptr, type) SWIG_Python_ConvertFunctionPtr(obj, pptr, type) +#define SWIG_NewFunctionPtrObj(ptr, type) SWIG_Python_NewPointerObj(NULL, ptr, type, 0) + +/* for C++ member pointers, ie, member methods */ +#define SWIG_ConvertMember(obj, ptr, sz, ty) SWIG_Python_ConvertPacked(obj, ptr, sz, ty) +#define SWIG_NewMemberObj(ptr, sz, type) SWIG_Python_NewPackedObj(ptr, sz, type) + + +/* Runtime API */ + +#define SWIG_GetModule(clientdata) SWIG_Python_GetModule(clientdata) +#define SWIG_SetModule(clientdata, pointer) SWIG_Python_SetModule(pointer) +#define SWIG_NewClientData(obj) SwigPyClientData_New(obj) + +#define SWIG_SetErrorObj SWIG_Python_SetErrorObj +#define SWIG_SetErrorMsg SWIG_Python_SetErrorMsg +#define SWIG_ErrorType(code) SWIG_Python_ErrorType(code) +#define SWIG_Error(code, msg) SWIG_Python_SetErrorMsg(SWIG_ErrorType(code), msg) +#define SWIG_fail goto fail + + +/* Runtime API implementation */ + +/* Error manipulation */ + +SWIGINTERN void +SWIG_Python_SetErrorObj(PyObject *errtype, PyObject *obj) { + SWIG_PYTHON_THREAD_BEGIN_BLOCK; + PyErr_SetObject(errtype, obj); + Py_DECREF(obj); + SWIG_PYTHON_THREAD_END_BLOCK; +} + +SWIGINTERN void +SWIG_Python_SetErrorMsg(PyObject *errtype, const char *msg) { + SWIG_PYTHON_THREAD_BEGIN_BLOCK; + PyErr_SetString(errtype, msg); + SWIG_PYTHON_THREAD_END_BLOCK; +} + +#define SWIG_Python_Raise(obj, type, desc) SWIG_Python_SetErrorObj(SWIG_Python_ExceptionType(desc), obj) + +/* Set a constant value */ + +#if defined(SWIGPYTHON_BUILTIN) + +SWIGINTERN void +SwigPyBuiltin_AddPublicSymbol(PyObject *seq, const char *key) { + PyObject *s = PyString_InternFromString(key); + PyList_Append(seq, s); + Py_DECREF(s); +} + +SWIGINTERN void +SWIG_Python_SetConstant(PyObject *d, PyObject *public_interface, const char *name, PyObject *obj) { +#if PY_VERSION_HEX < 0x02030000 + PyDict_SetItemString(d, (char *)name, obj); +#else + PyDict_SetItemString(d, name, obj); +#endif + Py_DECREF(obj); + if (public_interface) + SwigPyBuiltin_AddPublicSymbol(public_interface, name); +} + +#else + +SWIGINTERN void +SWIG_Python_SetConstant(PyObject *d, const char *name, PyObject *obj) { +#if PY_VERSION_HEX < 0x02030000 + PyDict_SetItemString(d, (char *)name, obj); +#else + PyDict_SetItemString(d, name, obj); +#endif + Py_DECREF(obj); +} + +#endif + +/* Append a value to the result obj */ + +SWIGINTERN PyObject* +SWIG_Python_AppendOutput(PyObject* result, PyObject* obj) { +#if !defined(SWIG_PYTHON_OUTPUT_TUPLE) + if (!result) { + result = obj; + } else if (result == Py_None) { + Py_DECREF(result); + result = obj; + } else { + if (!PyList_Check(result)) { + PyObject *o2 = result; + result = PyList_New(1); + PyList_SetItem(result, 0, o2); + } + PyList_Append(result,obj); + Py_DECREF(obj); + } + return result; +#else + PyObject* o2; + PyObject* o3; + if (!result) { + result = obj; + } else if (result == Py_None) { + Py_DECREF(result); + result = obj; + } else { + if (!PyTuple_Check(result)) { + o2 = result; + result = PyTuple_New(1); + PyTuple_SET_ITEM(result, 0, o2); + } + o3 = PyTuple_New(1); + PyTuple_SET_ITEM(o3, 0, obj); + o2 = result; + result = PySequence_Concat(o2, o3); + Py_DECREF(o2); + Py_DECREF(o3); + } + return result; +#endif +} + +/* Unpack the argument tuple */ + +SWIGINTERN Py_ssize_t +SWIG_Python_UnpackTuple(PyObject *args, const char *name, Py_ssize_t min, Py_ssize_t max, PyObject **objs) +{ + if (!args) { + if (!min && !max) { + return 1; + } else { + PyErr_Format(PyExc_TypeError, "%s expected %s%d arguments, got none", + name, (min == max ? "" : "at least "), (int)min); + return 0; + } + } + if (!PyTuple_Check(args)) { + if (min <= 1 && max >= 1) { + Py_ssize_t i; + objs[0] = args; + for (i = 1; i < max; ++i) { + objs[i] = 0; + } + return 2; + } + PyErr_SetString(PyExc_SystemError, "UnpackTuple() argument list is not a tuple"); + return 0; + } else { + Py_ssize_t l = PyTuple_GET_SIZE(args); + if (l < min) { + PyErr_Format(PyExc_TypeError, "%s expected %s%d arguments, got %d", + name, (min == max ? "" : "at least "), (int)min, (int)l); + return 0; + } else if (l > max) { + PyErr_Format(PyExc_TypeError, "%s expected %s%d arguments, got %d", + name, (min == max ? "" : "at most "), (int)max, (int)l); + return 0; + } else { + Py_ssize_t i; + for (i = 0; i < l; ++i) { + objs[i] = PyTuple_GET_ITEM(args, i); + } + for (; l < max; ++l) { + objs[l] = 0; + } + return i + 1; + } + } +} + +/* A functor is a function object with one single object argument */ +#if PY_VERSION_HEX >= 0x02020000 +#define SWIG_Python_CallFunctor(functor, obj) PyObject_CallFunctionObjArgs(functor, obj, NULL); +#else +#define SWIG_Python_CallFunctor(functor, obj) PyObject_CallFunction(functor, "O", obj); +#endif + +/* + Helper for static pointer initialization for both C and C++ code, for example + static PyObject *SWIG_STATIC_POINTER(MyVar) = NewSomething(...); +*/ +#ifdef __cplusplus +#define SWIG_STATIC_POINTER(var) var +#else +#define SWIG_STATIC_POINTER(var) var = 0; if (!var) var +#endif + +/* ----------------------------------------------------------------------------- + * Pointer declarations + * ----------------------------------------------------------------------------- */ + +/* Flags for new pointer objects */ +#define SWIG_POINTER_NOSHADOW (SWIG_POINTER_OWN << 1) +#define SWIG_POINTER_NEW (SWIG_POINTER_NOSHADOW | SWIG_POINTER_OWN) + +#define SWIG_POINTER_IMPLICIT_CONV (SWIG_POINTER_DISOWN << 1) + +#define SWIG_BUILTIN_TP_INIT (SWIG_POINTER_OWN << 2) +#define SWIG_BUILTIN_INIT (SWIG_BUILTIN_TP_INIT | SWIG_POINTER_OWN) + +#ifdef __cplusplus +extern "C" { +#endif + +/* How to access Py_None */ +#if defined(_WIN32) || defined(__WIN32__) || defined(__CYGWIN__) +# ifndef SWIG_PYTHON_NO_BUILD_NONE +# ifndef SWIG_PYTHON_BUILD_NONE +# define SWIG_PYTHON_BUILD_NONE +# endif +# endif +#endif + +#ifdef SWIG_PYTHON_BUILD_NONE +# ifdef Py_None +# undef Py_None +# define Py_None SWIG_Py_None() +# endif +SWIGRUNTIMEINLINE PyObject * +_SWIG_Py_None(void) +{ + PyObject *none = Py_BuildValue((char*)""); + Py_DECREF(none); + return none; +} +SWIGRUNTIME PyObject * +SWIG_Py_None(void) +{ + static PyObject *SWIG_STATIC_POINTER(none) = _SWIG_Py_None(); + return none; +} +#endif + +/* The python void return value */ + +SWIGRUNTIMEINLINE PyObject * +SWIG_Py_Void(void) +{ + PyObject *none = Py_None; + Py_INCREF(none); + return none; +} + +/* SwigPyClientData */ + +typedef struct { + PyObject *klass; + PyObject *newraw; + PyObject *newargs; + PyObject *destroy; + int delargs; + int implicitconv; + PyTypeObject *pytype; +} SwigPyClientData; + +SWIGRUNTIMEINLINE int +SWIG_Python_CheckImplicit(swig_type_info *ty) +{ + SwigPyClientData *data = (SwigPyClientData *)ty->clientdata; + return data ? data->implicitconv : 0; +} + +SWIGRUNTIMEINLINE PyObject * +SWIG_Python_ExceptionType(swig_type_info *desc) { + SwigPyClientData *data = desc ? (SwigPyClientData *) desc->clientdata : 0; + PyObject *klass = data ? data->klass : 0; + return (klass ? klass : PyExc_RuntimeError); +} + + +SWIGRUNTIME SwigPyClientData * +SwigPyClientData_New(PyObject* obj) +{ + if (!obj) { + return 0; + } else { + SwigPyClientData *data = (SwigPyClientData *)malloc(sizeof(SwigPyClientData)); + /* the klass element */ + data->klass = obj; + Py_INCREF(data->klass); + /* the newraw method and newargs arguments used to create a new raw instance */ + if (PyClass_Check(obj)) { + data->newraw = 0; + data->newargs = obj; + Py_INCREF(obj); + } else { +#if (PY_VERSION_HEX < 0x02020000) + data->newraw = 0; +#else + data->newraw = PyObject_GetAttrString(data->klass, (char *)"__new__"); +#endif + if (data->newraw) { + Py_INCREF(data->newraw); + data->newargs = PyTuple_New(1); + PyTuple_SetItem(data->newargs, 0, obj); + } else { + data->newargs = obj; + } + Py_INCREF(data->newargs); + } + /* the destroy method, aka as the C++ delete method */ + data->destroy = PyObject_GetAttrString(data->klass, (char *)"__swig_destroy__"); + if (PyErr_Occurred()) { + PyErr_Clear(); + data->destroy = 0; + } + if (data->destroy) { + int flags; + Py_INCREF(data->destroy); + flags = PyCFunction_GET_FLAGS(data->destroy); +#ifdef METH_O + data->delargs = !(flags & (METH_O)); +#else + data->delargs = 0; +#endif + } else { + data->delargs = 0; + } + data->implicitconv = 0; + data->pytype = 0; + return data; + } +} + +SWIGRUNTIME void +SwigPyClientData_Del(SwigPyClientData *data) { + Py_XDECREF(data->newraw); + Py_XDECREF(data->newargs); + Py_XDECREF(data->destroy); +} + +/* =============== SwigPyObject =====================*/ + +typedef struct { + PyObject_HEAD + void *ptr; + swig_type_info *ty; + int own; + PyObject *next; +#ifdef SWIGPYTHON_BUILTIN + PyObject *dict; +#endif +} SwigPyObject; + + +#ifdef SWIGPYTHON_BUILTIN + +SWIGRUNTIME PyObject * +SwigPyObject_get___dict__(PyObject *v, PyObject *SWIGUNUSEDPARM(args)) +{ + SwigPyObject *sobj = (SwigPyObject *)v; + + if (!sobj->dict) + sobj->dict = PyDict_New(); + + Py_INCREF(sobj->dict); + return sobj->dict; +} + +#endif + +SWIGRUNTIME PyObject * +SwigPyObject_long(SwigPyObject *v) +{ + return PyLong_FromVoidPtr(v->ptr); +} + +SWIGRUNTIME PyObject * +SwigPyObject_format(const char* fmt, SwigPyObject *v) +{ + PyObject *res = NULL; + PyObject *args = PyTuple_New(1); + if (args) { + if (PyTuple_SetItem(args, 0, SwigPyObject_long(v)) == 0) { + PyObject *ofmt = SWIG_Python_str_FromChar(fmt); + if (ofmt) { +#if PY_VERSION_HEX >= 0x03000000 + res = PyUnicode_Format(ofmt,args); +#else + res = PyString_Format(ofmt,args); +#endif + Py_DECREF(ofmt); + } + Py_DECREF(args); + } + } + return res; +} + +SWIGRUNTIME PyObject * +SwigPyObject_oct(SwigPyObject *v) +{ + return SwigPyObject_format("%o",v); +} + +SWIGRUNTIME PyObject * +SwigPyObject_hex(SwigPyObject *v) +{ + return SwigPyObject_format("%x",v); +} + +SWIGRUNTIME PyObject * +#ifdef METH_NOARGS +SwigPyObject_repr(SwigPyObject *v) +#else +SwigPyObject_repr(SwigPyObject *v, PyObject *args) +#endif +{ + const char *name = SWIG_TypePrettyName(v->ty); + PyObject *repr = SWIG_Python_str_FromFormat("", (name ? name : "unknown"), (void *)v); + if (v->next) { +# ifdef METH_NOARGS + PyObject *nrep = SwigPyObject_repr((SwigPyObject *)v->next); +# else + PyObject *nrep = SwigPyObject_repr((SwigPyObject *)v->next, args); +# endif +# if PY_VERSION_HEX >= 0x03000000 + PyObject *joined = PyUnicode_Concat(repr, nrep); + Py_DecRef(repr); + Py_DecRef(nrep); + repr = joined; +# else + PyString_ConcatAndDel(&repr,nrep); +# endif + } + return repr; +} + +SWIGRUNTIME int +SwigPyObject_compare(SwigPyObject *v, SwigPyObject *w) +{ + void *i = v->ptr; + void *j = w->ptr; + return (i < j) ? -1 : ((i > j) ? 1 : 0); +} + +/* Added for Python 3.x, would it also be useful for Python 2.x? */ +SWIGRUNTIME PyObject* +SwigPyObject_richcompare(SwigPyObject *v, SwigPyObject *w, int op) +{ + PyObject* res; + if( op != Py_EQ && op != Py_NE ) { + Py_INCREF(Py_NotImplemented); + return Py_NotImplemented; + } + res = PyBool_FromLong( (SwigPyObject_compare(v, w)==0) == (op == Py_EQ) ? 1 : 0); + return res; +} + + +SWIGRUNTIME PyTypeObject* SwigPyObject_TypeOnce(void); + +#ifdef SWIGPYTHON_BUILTIN +static swig_type_info *SwigPyObject_stype = 0; +SWIGRUNTIME PyTypeObject* +SwigPyObject_type(void) { + SwigPyClientData *cd; + assert(SwigPyObject_stype); + cd = (SwigPyClientData*) SwigPyObject_stype->clientdata; + assert(cd); + assert(cd->pytype); + return cd->pytype; +} +#else +SWIGRUNTIME PyTypeObject* +SwigPyObject_type(void) { + static PyTypeObject *SWIG_STATIC_POINTER(type) = SwigPyObject_TypeOnce(); + return type; +} +#endif + +SWIGRUNTIMEINLINE int +SwigPyObject_Check(PyObject *op) { +#ifdef SWIGPYTHON_BUILTIN + PyTypeObject *target_tp = SwigPyObject_type(); + if (PyType_IsSubtype(op->ob_type, target_tp)) + return 1; + return (strcmp(op->ob_type->tp_name, "SwigPyObject") == 0); +#else + return (Py_TYPE(op) == SwigPyObject_type()) + || (strcmp(Py_TYPE(op)->tp_name,"SwigPyObject") == 0); +#endif +} + +SWIGRUNTIME PyObject * +SwigPyObject_New(void *ptr, swig_type_info *ty, int own); + +SWIGRUNTIME void +SwigPyObject_dealloc(PyObject *v) +{ + SwigPyObject *sobj = (SwigPyObject *) v; + PyObject *next = sobj->next; + if (sobj->own == SWIG_POINTER_OWN) { + swig_type_info *ty = sobj->ty; + SwigPyClientData *data = ty ? (SwigPyClientData *) ty->clientdata : 0; + PyObject *destroy = data ? data->destroy : 0; + if (destroy) { + /* destroy is always a VARARGS method */ + PyObject *res; + + /* PyObject_CallFunction() has the potential to silently drop + the active active exception. In cases of unnamed temporary + variable or where we just finished iterating over a generator + StopIteration will be active right now, and this needs to + remain true upon return from SwigPyObject_dealloc. So save + and restore. */ + + PyObject *val = NULL, *type = NULL, *tb = NULL; + PyErr_Fetch(&val, &type, &tb); + + if (data->delargs) { + /* we need to create a temporary object to carry the destroy operation */ + PyObject *tmp = SwigPyObject_New(sobj->ptr, ty, 0); + res = SWIG_Python_CallFunctor(destroy, tmp); + Py_DECREF(tmp); + } else { + PyCFunction meth = PyCFunction_GET_FUNCTION(destroy); + PyObject *mself = PyCFunction_GET_SELF(destroy); + res = ((*meth)(mself, v)); + } + if (!res) + PyErr_WriteUnraisable(destroy); + + PyErr_Restore(val, type, tb); + + Py_XDECREF(res); + } +#if !defined(SWIG_PYTHON_SILENT_MEMLEAK) + else { + const char *name = SWIG_TypePrettyName(ty); + printf("swig/python detected a memory leak of type '%s', no destructor found.\n", (name ? name : "unknown")); + } +#endif + } + Py_XDECREF(next); + PyObject_DEL(v); +} + +SWIGRUNTIME PyObject* +SwigPyObject_append(PyObject* v, PyObject* next) +{ + SwigPyObject *sobj = (SwigPyObject *) v; +#ifndef METH_O + PyObject *tmp = 0; + if (!PyArg_ParseTuple(next,(char *)"O:append", &tmp)) return NULL; + next = tmp; +#endif + if (!SwigPyObject_Check(next)) { + PyErr_SetString(PyExc_TypeError, "Attempt to append a non SwigPyObject"); + return NULL; + } + sobj->next = next; + Py_INCREF(next); + return SWIG_Py_Void(); +} + +SWIGRUNTIME PyObject* +#ifdef METH_NOARGS +SwigPyObject_next(PyObject* v) +#else +SwigPyObject_next(PyObject* v, PyObject *SWIGUNUSEDPARM(args)) +#endif +{ + SwigPyObject *sobj = (SwigPyObject *) v; + if (sobj->next) { + Py_INCREF(sobj->next); + return sobj->next; + } else { + return SWIG_Py_Void(); + } +} + +SWIGINTERN PyObject* +#ifdef METH_NOARGS +SwigPyObject_disown(PyObject *v) +#else +SwigPyObject_disown(PyObject* v, PyObject *SWIGUNUSEDPARM(args)) +#endif +{ + SwigPyObject *sobj = (SwigPyObject *)v; + sobj->own = 0; + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject* +#ifdef METH_NOARGS +SwigPyObject_acquire(PyObject *v) +#else +SwigPyObject_acquire(PyObject* v, PyObject *SWIGUNUSEDPARM(args)) +#endif +{ + SwigPyObject *sobj = (SwigPyObject *)v; + sobj->own = SWIG_POINTER_OWN; + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject* +SwigPyObject_own(PyObject *v, PyObject *args) +{ + PyObject *val = 0; +#if (PY_VERSION_HEX < 0x02020000) + if (!PyArg_ParseTuple(args,(char *)"|O:own",&val)) +#elif (PY_VERSION_HEX < 0x02050000) + if (!PyArg_UnpackTuple(args, (char *)"own", 0, 1, &val)) +#else + if (!PyArg_UnpackTuple(args, "own", 0, 1, &val)) +#endif + { + return NULL; + } + else + { + SwigPyObject *sobj = (SwigPyObject *)v; + PyObject *obj = PyBool_FromLong(sobj->own); + if (val) { +#ifdef METH_NOARGS + if (PyObject_IsTrue(val)) { + SwigPyObject_acquire(v); + } else { + SwigPyObject_disown(v); + } +#else + if (PyObject_IsTrue(val)) { + SwigPyObject_acquire(v,args); + } else { + SwigPyObject_disown(v,args); + } +#endif + } + return obj; + } +} + +#ifdef METH_O +static PyMethodDef +swigobject_methods[] = { + {(char *)"disown", (PyCFunction)SwigPyObject_disown, METH_NOARGS, (char *)"releases ownership of the pointer"}, + {(char *)"acquire", (PyCFunction)SwigPyObject_acquire, METH_NOARGS, (char *)"acquires ownership of the pointer"}, + {(char *)"own", (PyCFunction)SwigPyObject_own, METH_VARARGS, (char *)"returns/sets ownership of the pointer"}, + {(char *)"append", (PyCFunction)SwigPyObject_append, METH_O, (char *)"appends another 'this' object"}, + {(char *)"next", (PyCFunction)SwigPyObject_next, METH_NOARGS, (char *)"returns the next 'this' object"}, + {(char *)"__repr__",(PyCFunction)SwigPyObject_repr, METH_NOARGS, (char *)"returns object representation"}, + {0, 0, 0, 0} +}; +#else +static PyMethodDef +swigobject_methods[] = { + {(char *)"disown", (PyCFunction)SwigPyObject_disown, METH_VARARGS, (char *)"releases ownership of the pointer"}, + {(char *)"acquire", (PyCFunction)SwigPyObject_acquire, METH_VARARGS, (char *)"acquires ownership of the pointer"}, + {(char *)"own", (PyCFunction)SwigPyObject_own, METH_VARARGS, (char *)"returns/sets ownership of the pointer"}, + {(char *)"append", (PyCFunction)SwigPyObject_append, METH_VARARGS, (char *)"appends another 'this' object"}, + {(char *)"next", (PyCFunction)SwigPyObject_next, METH_VARARGS, (char *)"returns the next 'this' object"}, + {(char *)"__repr__",(PyCFunction)SwigPyObject_repr, METH_VARARGS, (char *)"returns object representation"}, + {0, 0, 0, 0} +}; +#endif + +#if PY_VERSION_HEX < 0x02020000 +SWIGINTERN PyObject * +SwigPyObject_getattr(SwigPyObject *sobj,char *name) +{ + return Py_FindMethod(swigobject_methods, (PyObject *)sobj, name); +} +#endif + +SWIGRUNTIME PyTypeObject* +SwigPyObject_TypeOnce(void) { + static char swigobject_doc[] = "Swig object carries a C/C++ instance pointer"; + + static PyNumberMethods SwigPyObject_as_number = { + (binaryfunc)0, /*nb_add*/ + (binaryfunc)0, /*nb_subtract*/ + (binaryfunc)0, /*nb_multiply*/ + /* nb_divide removed in Python 3 */ +#if PY_VERSION_HEX < 0x03000000 + (binaryfunc)0, /*nb_divide*/ +#endif + (binaryfunc)0, /*nb_remainder*/ + (binaryfunc)0, /*nb_divmod*/ + (ternaryfunc)0,/*nb_power*/ + (unaryfunc)0, /*nb_negative*/ + (unaryfunc)0, /*nb_positive*/ + (unaryfunc)0, /*nb_absolute*/ + (inquiry)0, /*nb_nonzero*/ + 0, /*nb_invert*/ + 0, /*nb_lshift*/ + 0, /*nb_rshift*/ + 0, /*nb_and*/ + 0, /*nb_xor*/ + 0, /*nb_or*/ +#if PY_VERSION_HEX < 0x03000000 + 0, /*nb_coerce*/ +#endif + (unaryfunc)SwigPyObject_long, /*nb_int*/ +#if PY_VERSION_HEX < 0x03000000 + (unaryfunc)SwigPyObject_long, /*nb_long*/ +#else + 0, /*nb_reserved*/ +#endif + (unaryfunc)0, /*nb_float*/ +#if PY_VERSION_HEX < 0x03000000 + (unaryfunc)SwigPyObject_oct, /*nb_oct*/ + (unaryfunc)SwigPyObject_hex, /*nb_hex*/ +#endif +#if PY_VERSION_HEX >= 0x03050000 /* 3.5 */ + 0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0 /* nb_inplace_add -> nb_inplace_matrix_multiply */ +#elif PY_VERSION_HEX >= 0x03000000 /* 3.0 */ + 0,0,0,0,0,0,0,0,0,0,0,0,0,0,0 /* nb_inplace_add -> nb_index, nb_inplace_divide removed */ +#elif PY_VERSION_HEX >= 0x02050000 /* 2.5.0 */ + 0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0 /* nb_inplace_add -> nb_index */ +#elif PY_VERSION_HEX >= 0x02020000 /* 2.2.0 */ + 0,0,0,0,0,0,0,0,0,0,0,0,0,0,0 /* nb_inplace_add -> nb_inplace_true_divide */ +#elif PY_VERSION_HEX >= 0x02000000 /* 2.0.0 */ + 0,0,0,0,0,0,0,0,0,0,0 /* nb_inplace_add -> nb_inplace_or */ +#endif + }; + + static PyTypeObject swigpyobject_type; + static int type_init = 0; + if (!type_init) { + const PyTypeObject tmp = { + /* PyObject header changed in Python 3 */ +#if PY_VERSION_HEX >= 0x03000000 + PyVarObject_HEAD_INIT(NULL, 0) +#else + PyObject_HEAD_INIT(NULL) + 0, /* ob_size */ +#endif + (char *)"SwigPyObject", /* tp_name */ + sizeof(SwigPyObject), /* tp_basicsize */ + 0, /* tp_itemsize */ + (destructor)SwigPyObject_dealloc, /* tp_dealloc */ + 0, /* tp_print */ +#if PY_VERSION_HEX < 0x02020000 + (getattrfunc)SwigPyObject_getattr, /* tp_getattr */ +#else + (getattrfunc)0, /* tp_getattr */ +#endif + (setattrfunc)0, /* tp_setattr */ +#if PY_VERSION_HEX >= 0x03000000 + 0, /* tp_reserved in 3.0.1, tp_compare in 3.0.0 but not used */ +#else + (cmpfunc)SwigPyObject_compare, /* tp_compare */ +#endif + (reprfunc)SwigPyObject_repr, /* tp_repr */ + &SwigPyObject_as_number, /* tp_as_number */ + 0, /* tp_as_sequence */ + 0, /* tp_as_mapping */ + (hashfunc)0, /* tp_hash */ + (ternaryfunc)0, /* tp_call */ + 0, /* tp_str */ + PyObject_GenericGetAttr, /* tp_getattro */ + 0, /* tp_setattro */ + 0, /* tp_as_buffer */ + Py_TPFLAGS_DEFAULT, /* tp_flags */ + swigobject_doc, /* tp_doc */ + 0, /* tp_traverse */ + 0, /* tp_clear */ + (richcmpfunc)SwigPyObject_richcompare,/* tp_richcompare */ + 0, /* tp_weaklistoffset */ +#if PY_VERSION_HEX >= 0x02020000 + 0, /* tp_iter */ + 0, /* tp_iternext */ + swigobject_methods, /* tp_methods */ + 0, /* tp_members */ + 0, /* tp_getset */ + 0, /* tp_base */ + 0, /* tp_dict */ + 0, /* tp_descr_get */ + 0, /* tp_descr_set */ + 0, /* tp_dictoffset */ + 0, /* tp_init */ + 0, /* tp_alloc */ + 0, /* tp_new */ + 0, /* tp_free */ + 0, /* tp_is_gc */ + 0, /* tp_bases */ + 0, /* tp_mro */ + 0, /* tp_cache */ + 0, /* tp_subclasses */ + 0, /* tp_weaklist */ +#endif +#if PY_VERSION_HEX >= 0x02030000 + 0, /* tp_del */ +#endif +#if PY_VERSION_HEX >= 0x02060000 + 0, /* tp_version_tag */ +#endif +#if PY_VERSION_HEX >= 0x03040000 + 0, /* tp_finalize */ +#endif +#ifdef COUNT_ALLOCS + 0, /* tp_allocs */ + 0, /* tp_frees */ + 0, /* tp_maxalloc */ +#if PY_VERSION_HEX >= 0x02050000 + 0, /* tp_prev */ +#endif + 0 /* tp_next */ +#endif + }; + swigpyobject_type = tmp; + type_init = 1; +#if PY_VERSION_HEX < 0x02020000 + swigpyobject_type.ob_type = &PyType_Type; +#else + if (PyType_Ready(&swigpyobject_type) < 0) + return NULL; +#endif + } + return &swigpyobject_type; +} + +SWIGRUNTIME PyObject * +SwigPyObject_New(void *ptr, swig_type_info *ty, int own) +{ + SwigPyObject *sobj = PyObject_NEW(SwigPyObject, SwigPyObject_type()); + if (sobj) { + sobj->ptr = ptr; + sobj->ty = ty; + sobj->own = own; + sobj->next = 0; + } + return (PyObject *)sobj; +} + +/* ----------------------------------------------------------------------------- + * Implements a simple Swig Packed type, and use it instead of string + * ----------------------------------------------------------------------------- */ + +typedef struct { + PyObject_HEAD + void *pack; + swig_type_info *ty; + size_t size; +} SwigPyPacked; + +SWIGRUNTIME int +SwigPyPacked_print(SwigPyPacked *v, FILE *fp, int SWIGUNUSEDPARM(flags)) +{ + char result[SWIG_BUFFER_SIZE]; + fputs("pack, v->size, 0, sizeof(result))) { + fputs("at ", fp); + fputs(result, fp); + } + fputs(v->ty->name,fp); + fputs(">", fp); + return 0; +} + +SWIGRUNTIME PyObject * +SwigPyPacked_repr(SwigPyPacked *v) +{ + char result[SWIG_BUFFER_SIZE]; + if (SWIG_PackDataName(result, v->pack, v->size, 0, sizeof(result))) { + return SWIG_Python_str_FromFormat("", result, v->ty->name); + } else { + return SWIG_Python_str_FromFormat("", v->ty->name); + } +} + +SWIGRUNTIME PyObject * +SwigPyPacked_str(SwigPyPacked *v) +{ + char result[SWIG_BUFFER_SIZE]; + if (SWIG_PackDataName(result, v->pack, v->size, 0, sizeof(result))){ + return SWIG_Python_str_FromFormat("%s%s", result, v->ty->name); + } else { + return SWIG_Python_str_FromChar(v->ty->name); + } +} + +SWIGRUNTIME int +SwigPyPacked_compare(SwigPyPacked *v, SwigPyPacked *w) +{ + size_t i = v->size; + size_t j = w->size; + int s = (i < j) ? -1 : ((i > j) ? 1 : 0); + return s ? s : strncmp((char *)v->pack, (char *)w->pack, 2*v->size); +} + +SWIGRUNTIME PyTypeObject* SwigPyPacked_TypeOnce(void); + +SWIGRUNTIME PyTypeObject* +SwigPyPacked_type(void) { + static PyTypeObject *SWIG_STATIC_POINTER(type) = SwigPyPacked_TypeOnce(); + return type; +} + +SWIGRUNTIMEINLINE int +SwigPyPacked_Check(PyObject *op) { + return ((op)->ob_type == SwigPyPacked_TypeOnce()) + || (strcmp((op)->ob_type->tp_name,"SwigPyPacked") == 0); +} + +SWIGRUNTIME void +SwigPyPacked_dealloc(PyObject *v) +{ + if (SwigPyPacked_Check(v)) { + SwigPyPacked *sobj = (SwigPyPacked *) v; + free(sobj->pack); + } + PyObject_DEL(v); +} + +SWIGRUNTIME PyTypeObject* +SwigPyPacked_TypeOnce(void) { + static char swigpacked_doc[] = "Swig object carries a C/C++ instance pointer"; + static PyTypeObject swigpypacked_type; + static int type_init = 0; + if (!type_init) { + const PyTypeObject tmp = { + /* PyObject header changed in Python 3 */ +#if PY_VERSION_HEX>=0x03000000 + PyVarObject_HEAD_INIT(NULL, 0) +#else + PyObject_HEAD_INIT(NULL) + 0, /* ob_size */ +#endif + (char *)"SwigPyPacked", /* tp_name */ + sizeof(SwigPyPacked), /* tp_basicsize */ + 0, /* tp_itemsize */ + (destructor)SwigPyPacked_dealloc, /* tp_dealloc */ + (printfunc)SwigPyPacked_print, /* tp_print */ + (getattrfunc)0, /* tp_getattr */ + (setattrfunc)0, /* tp_setattr */ +#if PY_VERSION_HEX>=0x03000000 + 0, /* tp_reserved in 3.0.1 */ +#else + (cmpfunc)SwigPyPacked_compare, /* tp_compare */ +#endif + (reprfunc)SwigPyPacked_repr, /* tp_repr */ + 0, /* tp_as_number */ + 0, /* tp_as_sequence */ + 0, /* tp_as_mapping */ + (hashfunc)0, /* tp_hash */ + (ternaryfunc)0, /* tp_call */ + (reprfunc)SwigPyPacked_str, /* tp_str */ + PyObject_GenericGetAttr, /* tp_getattro */ + 0, /* tp_setattro */ + 0, /* tp_as_buffer */ + Py_TPFLAGS_DEFAULT, /* tp_flags */ + swigpacked_doc, /* tp_doc */ + 0, /* tp_traverse */ + 0, /* tp_clear */ + 0, /* tp_richcompare */ + 0, /* tp_weaklistoffset */ +#if PY_VERSION_HEX >= 0x02020000 + 0, /* tp_iter */ + 0, /* tp_iternext */ + 0, /* tp_methods */ + 0, /* tp_members */ + 0, /* tp_getset */ + 0, /* tp_base */ + 0, /* tp_dict */ + 0, /* tp_descr_get */ + 0, /* tp_descr_set */ + 0, /* tp_dictoffset */ + 0, /* tp_init */ + 0, /* tp_alloc */ + 0, /* tp_new */ + 0, /* tp_free */ + 0, /* tp_is_gc */ + 0, /* tp_bases */ + 0, /* tp_mro */ + 0, /* tp_cache */ + 0, /* tp_subclasses */ + 0, /* tp_weaklist */ +#endif +#if PY_VERSION_HEX >= 0x02030000 + 0, /* tp_del */ +#endif +#if PY_VERSION_HEX >= 0x02060000 + 0, /* tp_version_tag */ +#endif +#if PY_VERSION_HEX >= 0x03040000 + 0, /* tp_finalize */ +#endif +#ifdef COUNT_ALLOCS + 0, /* tp_allocs */ + 0, /* tp_frees */ + 0, /* tp_maxalloc */ +#if PY_VERSION_HEX >= 0x02050000 + 0, /* tp_prev */ +#endif + 0 /* tp_next */ +#endif + }; + swigpypacked_type = tmp; + type_init = 1; +#if PY_VERSION_HEX < 0x02020000 + swigpypacked_type.ob_type = &PyType_Type; +#else + if (PyType_Ready(&swigpypacked_type) < 0) + return NULL; +#endif + } + return &swigpypacked_type; +} + +SWIGRUNTIME PyObject * +SwigPyPacked_New(void *ptr, size_t size, swig_type_info *ty) +{ + SwigPyPacked *sobj = PyObject_NEW(SwigPyPacked, SwigPyPacked_type()); + if (sobj) { + void *pack = malloc(size); + if (pack) { + memcpy(pack, ptr, size); + sobj->pack = pack; + sobj->ty = ty; + sobj->size = size; + } else { + PyObject_DEL((PyObject *) sobj); + sobj = 0; + } + } + return (PyObject *) sobj; +} + +SWIGRUNTIME swig_type_info * +SwigPyPacked_UnpackData(PyObject *obj, void *ptr, size_t size) +{ + if (SwigPyPacked_Check(obj)) { + SwigPyPacked *sobj = (SwigPyPacked *)obj; + if (sobj->size != size) return 0; + memcpy(ptr, sobj->pack, size); + return sobj->ty; + } else { + return 0; + } +} + +/* ----------------------------------------------------------------------------- + * pointers/data manipulation + * ----------------------------------------------------------------------------- */ + +SWIGRUNTIMEINLINE PyObject * +_SWIG_This(void) +{ + return SWIG_Python_str_FromChar("this"); +} + +static PyObject *swig_this = NULL; + +SWIGRUNTIME PyObject * +SWIG_This(void) +{ + if (swig_this == NULL) + swig_this = _SWIG_This(); + return swig_this; +} + +/* #define SWIG_PYTHON_SLOW_GETSET_THIS */ + +/* TODO: I don't know how to implement the fast getset in Python 3 right now */ +#if PY_VERSION_HEX>=0x03000000 +#define SWIG_PYTHON_SLOW_GETSET_THIS +#endif + +SWIGRUNTIME SwigPyObject * +SWIG_Python_GetSwigThis(PyObject *pyobj) +{ + PyObject *obj; + + if (SwigPyObject_Check(pyobj)) + return (SwigPyObject *) pyobj; + +#ifdef SWIGPYTHON_BUILTIN + (void)obj; +# ifdef PyWeakref_CheckProxy + if (PyWeakref_CheckProxy(pyobj)) { + pyobj = PyWeakref_GET_OBJECT(pyobj); + if (pyobj && SwigPyObject_Check(pyobj)) + return (SwigPyObject*) pyobj; + } +# endif + return NULL; +#else + + obj = 0; + +#if (!defined(SWIG_PYTHON_SLOW_GETSET_THIS) && (PY_VERSION_HEX >= 0x02030000)) + if (PyInstance_Check(pyobj)) { + obj = _PyInstance_Lookup(pyobj, SWIG_This()); + } else { + PyObject **dictptr = _PyObject_GetDictPtr(pyobj); + if (dictptr != NULL) { + PyObject *dict = *dictptr; + obj = dict ? PyDict_GetItem(dict, SWIG_This()) : 0; + } else { +#ifdef PyWeakref_CheckProxy + if (PyWeakref_CheckProxy(pyobj)) { + PyObject *wobj = PyWeakref_GET_OBJECT(pyobj); + return wobj ? SWIG_Python_GetSwigThis(wobj) : 0; + } +#endif + obj = PyObject_GetAttr(pyobj,SWIG_This()); + if (obj) { + Py_DECREF(obj); + } else { + if (PyErr_Occurred()) PyErr_Clear(); + return 0; + } + } + } +#else + obj = PyObject_GetAttr(pyobj,SWIG_This()); + if (obj) { + Py_DECREF(obj); + } else { + if (PyErr_Occurred()) PyErr_Clear(); + return 0; + } +#endif + if (obj && !SwigPyObject_Check(obj)) { + /* a PyObject is called 'this', try to get the 'real this' + SwigPyObject from it */ + return SWIG_Python_GetSwigThis(obj); + } + return (SwigPyObject *)obj; +#endif +} + +/* Acquire a pointer value */ + +SWIGRUNTIME int +SWIG_Python_AcquirePtr(PyObject *obj, int own) { + if (own == SWIG_POINTER_OWN) { + SwigPyObject *sobj = SWIG_Python_GetSwigThis(obj); + if (sobj) { + int oldown = sobj->own; + sobj->own = own; + return oldown; + } + } + return 0; +} + +/* Convert a pointer value */ + +SWIGRUNTIME int +SWIG_Python_ConvertPtrAndOwn(PyObject *obj, void **ptr, swig_type_info *ty, int flags, int *own) { + int res; + SwigPyObject *sobj; + int implicit_conv = (flags & SWIG_POINTER_IMPLICIT_CONV) != 0; + + if (!obj) + return SWIG_ERROR; + if (obj == Py_None && !implicit_conv) { + if (ptr) + *ptr = 0; + return SWIG_OK; + } + + res = SWIG_ERROR; + + sobj = SWIG_Python_GetSwigThis(obj); + if (own) + *own = 0; + while (sobj) { + void *vptr = sobj->ptr; + if (ty) { + swig_type_info *to = sobj->ty; + if (to == ty) { + /* no type cast needed */ + if (ptr) *ptr = vptr; + break; + } else { + swig_cast_info *tc = SWIG_TypeCheck(to->name,ty); + if (!tc) { + sobj = (SwigPyObject *)sobj->next; + } else { + if (ptr) { + int newmemory = 0; + *ptr = SWIG_TypeCast(tc,vptr,&newmemory); + if (newmemory == SWIG_CAST_NEW_MEMORY) { + assert(own); /* badly formed typemap which will lead to a memory leak - it must set and use own to delete *ptr */ + if (own) + *own = *own | SWIG_CAST_NEW_MEMORY; + } + } + break; + } + } + } else { + if (ptr) *ptr = vptr; + break; + } + } + if (sobj) { + if (own) + *own = *own | sobj->own; + if (flags & SWIG_POINTER_DISOWN) { + sobj->own = 0; + } + res = SWIG_OK; + } else { + if (implicit_conv) { + SwigPyClientData *data = ty ? (SwigPyClientData *) ty->clientdata : 0; + if (data && !data->implicitconv) { + PyObject *klass = data->klass; + if (klass) { + PyObject *impconv; + data->implicitconv = 1; /* avoid recursion and call 'explicit' constructors*/ + impconv = SWIG_Python_CallFunctor(klass, obj); + data->implicitconv = 0; + if (PyErr_Occurred()) { + PyErr_Clear(); + impconv = 0; + } + if (impconv) { + SwigPyObject *iobj = SWIG_Python_GetSwigThis(impconv); + if (iobj) { + void *vptr; + res = SWIG_Python_ConvertPtrAndOwn((PyObject*)iobj, &vptr, ty, 0, 0); + if (SWIG_IsOK(res)) { + if (ptr) { + *ptr = vptr; + /* transfer the ownership to 'ptr' */ + iobj->own = 0; + res = SWIG_AddCast(res); + res = SWIG_AddNewMask(res); + } else { + res = SWIG_AddCast(res); + } + } + } + Py_DECREF(impconv); + } + } + } + } + if (!SWIG_IsOK(res) && obj == Py_None) { + if (ptr) + *ptr = 0; + if (PyErr_Occurred()) + PyErr_Clear(); + res = SWIG_OK; + } + } + return res; +} + +/* Convert a function ptr value */ + +SWIGRUNTIME int +SWIG_Python_ConvertFunctionPtr(PyObject *obj, void **ptr, swig_type_info *ty) { + if (!PyCFunction_Check(obj)) { + return SWIG_ConvertPtr(obj, ptr, ty, 0); + } else { + void *vptr = 0; + + /* here we get the method pointer for callbacks */ + const char *doc = (((PyCFunctionObject *)obj) -> m_ml -> ml_doc); + const char *desc = doc ? strstr(doc, "swig_ptr: ") : 0; + if (desc) + desc = ty ? SWIG_UnpackVoidPtr(desc + 10, &vptr, ty->name) : 0; + if (!desc) + return SWIG_ERROR; + if (ty) { + swig_cast_info *tc = SWIG_TypeCheck(desc,ty); + if (tc) { + int newmemory = 0; + *ptr = SWIG_TypeCast(tc,vptr,&newmemory); + assert(!newmemory); /* newmemory handling not yet implemented */ + } else { + return SWIG_ERROR; + } + } else { + *ptr = vptr; + } + return SWIG_OK; + } +} + +/* Convert a packed value value */ + +SWIGRUNTIME int +SWIG_Python_ConvertPacked(PyObject *obj, void *ptr, size_t sz, swig_type_info *ty) { + swig_type_info *to = SwigPyPacked_UnpackData(obj, ptr, sz); + if (!to) return SWIG_ERROR; + if (ty) { + if (to != ty) { + /* check type cast? */ + swig_cast_info *tc = SWIG_TypeCheck(to->name,ty); + if (!tc) return SWIG_ERROR; + } + } + return SWIG_OK; +} + +/* ----------------------------------------------------------------------------- + * Create a new pointer object + * ----------------------------------------------------------------------------- */ + +/* + Create a new instance object, without calling __init__, and set the + 'this' attribute. +*/ + +SWIGRUNTIME PyObject* +SWIG_Python_NewShadowInstance(SwigPyClientData *data, PyObject *swig_this) +{ +#if (PY_VERSION_HEX >= 0x02020000) + PyObject *inst = 0; + PyObject *newraw = data->newraw; + if (newraw) { + inst = PyObject_Call(newraw, data->newargs, NULL); + if (inst) { +#if !defined(SWIG_PYTHON_SLOW_GETSET_THIS) + PyObject **dictptr = _PyObject_GetDictPtr(inst); + if (dictptr != NULL) { + PyObject *dict = *dictptr; + if (dict == NULL) { + dict = PyDict_New(); + *dictptr = dict; + PyDict_SetItem(dict, SWIG_This(), swig_this); + } + } +#else + PyObject *key = SWIG_This(); + PyObject_SetAttr(inst, key, swig_this); +#endif + } + } else { +#if PY_VERSION_HEX >= 0x03000000 + inst = ((PyTypeObject*) data->newargs)->tp_new((PyTypeObject*) data->newargs, Py_None, Py_None); + if (inst) { + PyObject_SetAttr(inst, SWIG_This(), swig_this); + Py_TYPE(inst)->tp_flags &= ~Py_TPFLAGS_VALID_VERSION_TAG; + } +#else + PyObject *dict = PyDict_New(); + if (dict) { + PyDict_SetItem(dict, SWIG_This(), swig_this); + inst = PyInstance_NewRaw(data->newargs, dict); + Py_DECREF(dict); + } +#endif + } + return inst; +#else +#if (PY_VERSION_HEX >= 0x02010000) + PyObject *inst = 0; + PyObject *dict = PyDict_New(); + if (dict) { + PyDict_SetItem(dict, SWIG_This(), swig_this); + inst = PyInstance_NewRaw(data->newargs, dict); + Py_DECREF(dict); + } + return (PyObject *) inst; +#else + PyInstanceObject *inst = PyObject_NEW(PyInstanceObject, &PyInstance_Type); + if (inst == NULL) { + return NULL; + } + inst->in_class = (PyClassObject *)data->newargs; + Py_INCREF(inst->in_class); + inst->in_dict = PyDict_New(); + if (inst->in_dict == NULL) { + Py_DECREF(inst); + return NULL; + } +#ifdef Py_TPFLAGS_HAVE_WEAKREFS + inst->in_weakreflist = NULL; +#endif +#ifdef Py_TPFLAGS_GC + PyObject_GC_Init(inst); +#endif + PyDict_SetItem(inst->in_dict, SWIG_This(), swig_this); + return (PyObject *) inst; +#endif +#endif +} + +SWIGRUNTIME void +SWIG_Python_SetSwigThis(PyObject *inst, PyObject *swig_this) +{ + PyObject *dict; +#if (PY_VERSION_HEX >= 0x02020000) && !defined(SWIG_PYTHON_SLOW_GETSET_THIS) + PyObject **dictptr = _PyObject_GetDictPtr(inst); + if (dictptr != NULL) { + dict = *dictptr; + if (dict == NULL) { + dict = PyDict_New(); + *dictptr = dict; + } + PyDict_SetItem(dict, SWIG_This(), swig_this); + return; + } +#endif + dict = PyObject_GetAttrString(inst, (char*)"__dict__"); + PyDict_SetItem(dict, SWIG_This(), swig_this); + Py_DECREF(dict); +} + + +SWIGINTERN PyObject * +SWIG_Python_InitShadowInstance(PyObject *args) { + PyObject *obj[2]; + if (!SWIG_Python_UnpackTuple(args, "swiginit", 2, 2, obj)) { + return NULL; + } else { + SwigPyObject *sthis = SWIG_Python_GetSwigThis(obj[0]); + if (sthis) { + SwigPyObject_append((PyObject*) sthis, obj[1]); + } else { + SWIG_Python_SetSwigThis(obj[0], obj[1]); + } + return SWIG_Py_Void(); + } +} + +/* Create a new pointer object */ + +SWIGRUNTIME PyObject * +SWIG_Python_NewPointerObj(PyObject *self, void *ptr, swig_type_info *type, int flags) { + SwigPyClientData *clientdata; + PyObject * robj; + int own; + + if (!ptr) + return SWIG_Py_Void(); + + clientdata = type ? (SwigPyClientData *)(type->clientdata) : 0; + own = (flags & SWIG_POINTER_OWN) ? SWIG_POINTER_OWN : 0; + if (clientdata && clientdata->pytype) { + SwigPyObject *newobj; + if (flags & SWIG_BUILTIN_TP_INIT) { + newobj = (SwigPyObject*) self; + if (newobj->ptr) { + PyObject *next_self = clientdata->pytype->tp_alloc(clientdata->pytype, 0); + while (newobj->next) + newobj = (SwigPyObject *) newobj->next; + newobj->next = next_self; + newobj = (SwigPyObject *)next_self; +#ifdef SWIGPYTHON_BUILTIN + newobj->dict = 0; +#endif + } + } else { + newobj = PyObject_New(SwigPyObject, clientdata->pytype); +#ifdef SWIGPYTHON_BUILTIN + newobj->dict = 0; +#endif + } + if (newobj) { + newobj->ptr = ptr; + newobj->ty = type; + newobj->own = own; + newobj->next = 0; + return (PyObject*) newobj; + } + return SWIG_Py_Void(); + } + + assert(!(flags & SWIG_BUILTIN_TP_INIT)); + + robj = SwigPyObject_New(ptr, type, own); + if (robj && clientdata && !(flags & SWIG_POINTER_NOSHADOW)) { + PyObject *inst = SWIG_Python_NewShadowInstance(clientdata, robj); + Py_DECREF(robj); + robj = inst; + } + return robj; +} + +/* Create a new packed object */ + +SWIGRUNTIMEINLINE PyObject * +SWIG_Python_NewPackedObj(void *ptr, size_t sz, swig_type_info *type) { + return ptr ? SwigPyPacked_New((void *) ptr, sz, type) : SWIG_Py_Void(); +} + +/* -----------------------------------------------------------------------------* + * Get type list + * -----------------------------------------------------------------------------*/ + +#ifdef SWIG_LINK_RUNTIME +void *SWIG_ReturnGlobalTypeList(void *); +#endif + +SWIGRUNTIME swig_module_info * +SWIG_Python_GetModule(void *SWIGUNUSEDPARM(clientdata)) { + static void *type_pointer = (void *)0; + /* first check if module already created */ + if (!type_pointer) { +#ifdef SWIG_LINK_RUNTIME + type_pointer = SWIG_ReturnGlobalTypeList((void *)0); +#else +# ifdef SWIGPY_USE_CAPSULE + type_pointer = PyCapsule_Import(SWIGPY_CAPSULE_NAME, 0); +# else + type_pointer = PyCObject_Import((char*)"swig_runtime_data" SWIG_RUNTIME_VERSION, + (char*)"type_pointer" SWIG_TYPE_TABLE_NAME); +# endif + if (PyErr_Occurred()) { + PyErr_Clear(); + type_pointer = (void *)0; + } +#endif + } + return (swig_module_info *) type_pointer; +} + +#if PY_MAJOR_VERSION < 2 +/* PyModule_AddObject function was introduced in Python 2.0. The following function + is copied out of Python/modsupport.c in python version 2.3.4 */ +SWIGINTERN int +PyModule_AddObject(PyObject *m, char *name, PyObject *o) +{ + PyObject *dict; + if (!PyModule_Check(m)) { + PyErr_SetString(PyExc_TypeError, "PyModule_AddObject() needs module as first arg"); + return SWIG_ERROR; + } + if (!o) { + PyErr_SetString(PyExc_TypeError, "PyModule_AddObject() needs non-NULL value"); + return SWIG_ERROR; + } + + dict = PyModule_GetDict(m); + if (dict == NULL) { + /* Internal error -- modules must have a dict! */ + PyErr_Format(PyExc_SystemError, "module '%s' has no __dict__", + PyModule_GetName(m)); + return SWIG_ERROR; + } + if (PyDict_SetItemString(dict, name, o)) + return SWIG_ERROR; + Py_DECREF(o); + return SWIG_OK; +} +#endif + +SWIGRUNTIME void +#ifdef SWIGPY_USE_CAPSULE +SWIG_Python_DestroyModule(PyObject *obj) +#else +SWIG_Python_DestroyModule(void *vptr) +#endif +{ +#ifdef SWIGPY_USE_CAPSULE + swig_module_info *swig_module = (swig_module_info *) PyCapsule_GetPointer(obj, SWIGPY_CAPSULE_NAME); +#else + swig_module_info *swig_module = (swig_module_info *) vptr; +#endif + swig_type_info **types = swig_module->types; + size_t i; + for (i =0; i < swig_module->size; ++i) { + swig_type_info *ty = types[i]; + if (ty->owndata) { + SwigPyClientData *data = (SwigPyClientData *) ty->clientdata; + if (data) SwigPyClientData_Del(data); + } + } + Py_DECREF(SWIG_This()); + swig_this = NULL; +} + +SWIGRUNTIME void +SWIG_Python_SetModule(swig_module_info *swig_module) { +#if PY_VERSION_HEX >= 0x03000000 + /* Add a dummy module object into sys.modules */ + PyObject *module = PyImport_AddModule((char*)"swig_runtime_data" SWIG_RUNTIME_VERSION); +#else + static PyMethodDef swig_empty_runtime_method_table[] = { {NULL, NULL, 0, NULL} }; /* Sentinel */ + PyObject *module = Py_InitModule((char*)"swig_runtime_data" SWIG_RUNTIME_VERSION, swig_empty_runtime_method_table); +#endif +#ifdef SWIGPY_USE_CAPSULE + PyObject *pointer = PyCapsule_New((void *) swig_module, SWIGPY_CAPSULE_NAME, SWIG_Python_DestroyModule); + if (pointer && module) { + PyModule_AddObject(module, (char*)"type_pointer_capsule" SWIG_TYPE_TABLE_NAME, pointer); + } else { + Py_XDECREF(pointer); + } +#else + PyObject *pointer = PyCObject_FromVoidPtr((void *) swig_module, SWIG_Python_DestroyModule); + if (pointer && module) { + PyModule_AddObject(module, (char*)"type_pointer" SWIG_TYPE_TABLE_NAME, pointer); + } else { + Py_XDECREF(pointer); + } +#endif +} + +/* The python cached type query */ +SWIGRUNTIME PyObject * +SWIG_Python_TypeCache(void) { + static PyObject *SWIG_STATIC_POINTER(cache) = PyDict_New(); + return cache; +} + +SWIGRUNTIME swig_type_info * +SWIG_Python_TypeQuery(const char *type) +{ + PyObject *cache = SWIG_Python_TypeCache(); + PyObject *key = SWIG_Python_str_FromChar(type); + PyObject *obj = PyDict_GetItem(cache, key); + swig_type_info *descriptor; + if (obj) { +#ifdef SWIGPY_USE_CAPSULE + descriptor = (swig_type_info *) PyCapsule_GetPointer(obj, NULL); +#else + descriptor = (swig_type_info *) PyCObject_AsVoidPtr(obj); +#endif + } else { + swig_module_info *swig_module = SWIG_GetModule(0); + descriptor = SWIG_TypeQueryModule(swig_module, swig_module, type); + if (descriptor) { +#ifdef SWIGPY_USE_CAPSULE + obj = PyCapsule_New((void*) descriptor, NULL, NULL); +#else + obj = PyCObject_FromVoidPtr(descriptor, NULL); +#endif + PyDict_SetItem(cache, key, obj); + Py_DECREF(obj); + } + } + Py_DECREF(key); + return descriptor; +} + +/* + For backward compatibility only +*/ +#define SWIG_POINTER_EXCEPTION 0 +#define SWIG_arg_fail(arg) SWIG_Python_ArgFail(arg) +#define SWIG_MustGetPtr(p, type, argnum, flags) SWIG_Python_MustGetPtr(p, type, argnum, flags) + +SWIGRUNTIME int +SWIG_Python_AddErrMesg(const char* mesg, int infront) +{ + if (PyErr_Occurred()) { + PyObject *type = 0; + PyObject *value = 0; + PyObject *traceback = 0; + PyErr_Fetch(&type, &value, &traceback); + if (value) { + char *tmp; + PyObject *old_str = PyObject_Str(value); + Py_XINCREF(type); + PyErr_Clear(); + if (infront) { + PyErr_Format(type, "%s %s", mesg, tmp = SWIG_Python_str_AsChar(old_str)); + } else { + PyErr_Format(type, "%s %s", tmp = SWIG_Python_str_AsChar(old_str), mesg); + } + SWIG_Python_str_DelForPy3(tmp); + Py_DECREF(old_str); + } + return 1; + } else { + return 0; + } +} + +SWIGRUNTIME int +SWIG_Python_ArgFail(int argnum) +{ + if (PyErr_Occurred()) { + /* add information about failing argument */ + char mesg[256]; + PyOS_snprintf(mesg, sizeof(mesg), "argument number %d:", argnum); + return SWIG_Python_AddErrMesg(mesg, 1); + } else { + return 0; + } +} + +SWIGRUNTIMEINLINE const char * +SwigPyObject_GetDesc(PyObject *self) +{ + SwigPyObject *v = (SwigPyObject *)self; + swig_type_info *ty = v ? v->ty : 0; + return ty ? ty->str : ""; +} + +SWIGRUNTIME void +SWIG_Python_TypeError(const char *type, PyObject *obj) +{ + if (type) { +#if defined(SWIG_COBJECT_TYPES) + if (obj && SwigPyObject_Check(obj)) { + const char *otype = (const char *) SwigPyObject_GetDesc(obj); + if (otype) { + PyErr_Format(PyExc_TypeError, "a '%s' is expected, 'SwigPyObject(%s)' is received", + type, otype); + return; + } + } else +#endif + { + const char *otype = (obj ? obj->ob_type->tp_name : 0); + if (otype) { + PyObject *str = PyObject_Str(obj); + const char *cstr = str ? SWIG_Python_str_AsChar(str) : 0; + if (cstr) { + PyErr_Format(PyExc_TypeError, "a '%s' is expected, '%s(%s)' is received", + type, otype, cstr); + SWIG_Python_str_DelForPy3(cstr); + } else { + PyErr_Format(PyExc_TypeError, "a '%s' is expected, '%s' is received", + type, otype); + } + Py_XDECREF(str); + return; + } + } + PyErr_Format(PyExc_TypeError, "a '%s' is expected", type); + } else { + PyErr_Format(PyExc_TypeError, "unexpected type is received"); + } +} + + +/* Convert a pointer value, signal an exception on a type mismatch */ +SWIGRUNTIME void * +SWIG_Python_MustGetPtr(PyObject *obj, swig_type_info *ty, int SWIGUNUSEDPARM(argnum), int flags) { + void *result; + if (SWIG_Python_ConvertPtr(obj, &result, ty, flags) == -1) { + PyErr_Clear(); +#if SWIG_POINTER_EXCEPTION + if (flags) { + SWIG_Python_TypeError(SWIG_TypePrettyName(ty), obj); + SWIG_Python_ArgFail(argnum); + } +#endif + } + return result; +} + +#ifdef SWIGPYTHON_BUILTIN +SWIGRUNTIME int +SWIG_Python_NonDynamicSetAttr(PyObject *obj, PyObject *name, PyObject *value) { + PyTypeObject *tp = obj->ob_type; + PyObject *descr; + PyObject *encoded_name; + descrsetfunc f; + int res = -1; + +# ifdef Py_USING_UNICODE + if (PyString_Check(name)) { + name = PyUnicode_Decode(PyString_AsString(name), PyString_Size(name), NULL, NULL); + if (!name) + return -1; + } else if (!PyUnicode_Check(name)) +# else + if (!PyString_Check(name)) +# endif + { + PyErr_Format(PyExc_TypeError, "attribute name must be string, not '%.200s'", name->ob_type->tp_name); + return -1; + } else { + Py_INCREF(name); + } + + if (!tp->tp_dict) { + if (PyType_Ready(tp) < 0) + goto done; + } + + descr = _PyType_Lookup(tp, name); + f = NULL; + if (descr != NULL) + f = descr->ob_type->tp_descr_set; + if (!f) { + if (PyString_Check(name)) { + encoded_name = name; + Py_INCREF(name); + } else { + encoded_name = PyUnicode_AsUTF8String(name); + } + PyErr_Format(PyExc_AttributeError, "'%.100s' object has no attribute '%.200s'", tp->tp_name, PyString_AsString(encoded_name)); + Py_DECREF(encoded_name); + } else { + res = f(descr, obj, value); + } + + done: + Py_DECREF(name); + return res; +} +#endif + + +#ifdef __cplusplus +} +#endif + + + +#define SWIG_exception_fail(code, msg) do { SWIG_Error(code, msg); SWIG_fail; } while(0) + +#define SWIG_contract_assert(expr, msg) if (!(expr)) { SWIG_Error(SWIG_RuntimeError, msg); SWIG_fail; } else + + + +/* -------- TYPES TABLE (BEGIN) -------- */ + +#define SWIGTYPE_p_a_4__double swig_types[0] +#define SWIGTYPE_p_bit_array swig_types[1] +#define SWIGTYPE_p_char swig_types[2] +#define SWIGTYPE_p_count_type_t swig_types[3] +#define SWIGTYPE_p_double swig_types[4] +#define SWIGTYPE_p_dyngeom_parse_vars swig_types[5] +#define SWIGTYPE_p_element_connection_list swig_types[6] +#define SWIGTYPE_p_element_list swig_types[7] +#define SWIGTYPE_p_frame_data_list swig_types[8] +#define SWIGTYPE_p_int swig_types[9] +#define SWIGTYPE_p_mcell_species swig_types[10] +#define SWIGTYPE_p_mcell_species_list swig_types[11] +#define SWIGTYPE_p_mcell_species_spec swig_types[12] +#define SWIGTYPE_p_mesh_region_string_buffs swig_types[13] +#define SWIGTYPE_p_name_list swig_types[14] +#define SWIGTYPE_p_notifications swig_types[15] +#define SWIGTYPE_p_num_expr_list swig_types[16] +#define SWIGTYPE_p_num_expr_list_head swig_types[17] +#define SWIGTYPE_p_object swig_types[18] +#define SWIGTYPE_p_object_creation swig_types[19] +#define SWIGTYPE_p_output_block swig_types[20] +#define SWIGTYPE_p_output_column swig_types[21] +#define SWIGTYPE_p_output_column_list swig_types[22] +#define SWIGTYPE_p_output_expression swig_types[23] +#define SWIGTYPE_p_output_request swig_types[24] +#define SWIGTYPE_p_output_set swig_types[25] +#define SWIGTYPE_p_output_set_list swig_types[26] +#define SWIGTYPE_p_output_times_inlist swig_types[27] +#define SWIGTYPE_p_p_char swig_types[28] +#define SWIGTYPE_p_p_double swig_types[29] +#define SWIGTYPE_p_p_object swig_types[30] +#define SWIGTYPE_p_p_sym_entry swig_types[31] +#define SWIGTYPE_p_p_vector3 swig_types[32] +#define SWIGTYPE_p_p_wall swig_types[33] +#define SWIGTYPE_p_periodic_image swig_types[34] +#define SWIGTYPE_p_poly_object swig_types[35] +#define SWIGTYPE_p_poly_object_list swig_types[36] +#define SWIGTYPE_p_polygon_object swig_types[37] +#define SWIGTYPE_p_reaction_arrow swig_types[38] +#define SWIGTYPE_p_reaction_def swig_types[39] +#define SWIGTYPE_p_reaction_rate swig_types[40] +#define SWIGTYPE_p_reaction_rate_v swig_types[41] +#define SWIGTYPE_p_reaction_rates swig_types[42] +#define SWIGTYPE_p_region swig_types[43] +#define SWIGTYPE_p_region_list swig_types[44] +#define SWIGTYPE_p_release_evaluator swig_types[45] +#define SWIGTYPE_p_release_pattern swig_types[46] +#define SWIGTYPE_p_release_single_molecule swig_types[47] +#define SWIGTYPE_p_release_single_molecule_list swig_types[48] +#define SWIGTYPE_p_release_site_obj swig_types[49] +#define SWIGTYPE_p_sm_dat swig_types[50] +#define SWIGTYPE_p_species swig_types[51] +#define SWIGTYPE_p_string_buffer swig_types[52] +#define SWIGTYPE_p_subdivided_box swig_types[53] +#define SWIGTYPE_p_sym_entry swig_types[54] +#define SWIGTYPE_p_sym_table_head swig_types[55] +#define SWIGTYPE_p_sym_table_list swig_types[56] +#define SWIGTYPE_p_u_int swig_types[57] +#define SWIGTYPE_p_unsigned_char swig_types[58] +#define SWIGTYPE_p_vector2 swig_types[59] +#define SWIGTYPE_p_vector3 swig_types[60] +#define SWIGTYPE_p_vertex_list swig_types[61] +#define SWIGTYPE_p_viz_output_block swig_types[62] +#define SWIGTYPE_p_void swig_types[63] +#define SWIGTYPE_p_volume swig_types[64] +#define SWIGTYPE_p_wall swig_types[65] +static swig_type_info *swig_types[67]; +static swig_module_info swig_module = {swig_types, 66, 0, 0, 0, 0}; +#define SWIG_TypeQuery(name) SWIG_TypeQueryModule(&swig_module, &swig_module, name) +#define SWIG_MangledTypeQuery(name) SWIG_MangledTypeQueryModule(&swig_module, &swig_module, name) + +/* -------- TYPES TABLE (END) -------- */ + +#if (PY_VERSION_HEX <= 0x02000000) +# if !defined(SWIG_PYTHON_CLASSIC) +# error "This python version requires swig to be run with the '-classic' option" +# endif +#endif + +/*----------------------------------------------- + @(target):= _pymcell.so + ------------------------------------------------*/ +#if PY_VERSION_HEX >= 0x03000000 +# define SWIG_init PyInit__pymcell + +#else +# define SWIG_init init_pymcell + +#endif +#define SWIG_name "_pymcell" + +#define SWIGVERSION 0x030010 +#define SWIG_VERSION SWIGVERSION + + +#define SWIG_as_voidptr(a) (void *)((const void *)(a)) +#define SWIG_as_voidptrptr(a) ((void)SWIG_as_voidptr(*a),(void**)(a)) + + +#define SWIG_FILE_WITH_INIT +#include +#include "mcell_init.h" +#include "mcell_misc.h" +#include "mcell_objects.h" +#include "mcell_react_out.h" +#include "mcell_reactions.h" +#include "mcell_release.h" +#include "mcell_species.h" +#include "mcell_viz.h" +#include "mcell_surfclass.h" +#include "mcell_run.h" +#include "mcell_structs.h" +#include "mcell_dyngeom.h" +#include "vector.h" + + + + +SWIGINTERNINLINE PyObject* + SWIG_From_int (int value) +{ + return PyInt_FromLong((long) value); +} + + +#include +#if !defined(SWIG_NO_LLONG_MAX) +# if !defined(LLONG_MAX) && defined(__GNUC__) && defined (__LONG_LONG_MAX__) +# define LLONG_MAX __LONG_LONG_MAX__ +# define LLONG_MIN (-LLONG_MAX - 1LL) +# define ULLONG_MAX (LLONG_MAX * 2ULL + 1ULL) +# endif +#endif + + +SWIGINTERN int +SWIG_AsVal_double (PyObject *obj, double *val) +{ + int res = SWIG_TypeError; + if (PyFloat_Check(obj)) { + if (val) *val = PyFloat_AsDouble(obj); + return SWIG_OK; +#if PY_VERSION_HEX < 0x03000000 + } else if (PyInt_Check(obj)) { + if (val) *val = PyInt_AsLong(obj); + return SWIG_OK; +#endif + } else if (PyLong_Check(obj)) { + double v = PyLong_AsDouble(obj); + if (!PyErr_Occurred()) { + if (val) *val = v; + return SWIG_OK; + } else { + PyErr_Clear(); + } + } +#ifdef SWIG_PYTHON_CAST_MODE + { + int dispatch = 0; + double d = PyFloat_AsDouble(obj); + if (!PyErr_Occurred()) { + if (val) *val = d; + return SWIG_AddCast(SWIG_OK); + } else { + PyErr_Clear(); + } + if (!dispatch) { + long v = PyLong_AsLong(obj); + if (!PyErr_Occurred()) { + if (val) *val = v; + return SWIG_AddCast(SWIG_AddCast(SWIG_OK)); + } else { + PyErr_Clear(); + } + } + } +#endif + return res; +} + + +#include + + +#include + + +SWIGINTERNINLINE int +SWIG_CanCastAsInteger(double *d, double min, double max) { + double x = *d; + if ((min <= x && x <= max)) { + double fx = floor(x); + double cx = ceil(x); + double rd = ((x - fx) < 0.5) ? fx : cx; /* simple rint */ + if ((errno == EDOM) || (errno == ERANGE)) { + errno = 0; + } else { + double summ, reps, diff; + if (rd < x) { + diff = x - rd; + } else if (rd > x) { + diff = rd - x; + } else { + return 1; + } + summ = rd + x; + reps = diff/summ; + if (reps < 8*DBL_EPSILON) { + *d = rd; + return 1; + } + } + } + return 0; +} + + +SWIGINTERN int +SWIG_AsVal_long (PyObject *obj, long* val) +{ +#if PY_VERSION_HEX < 0x03000000 + if (PyInt_Check(obj)) { + if (val) *val = PyInt_AsLong(obj); + return SWIG_OK; + } else +#endif + if (PyLong_Check(obj)) { + long v = PyLong_AsLong(obj); + if (!PyErr_Occurred()) { + if (val) *val = v; + return SWIG_OK; + } else { + PyErr_Clear(); + return SWIG_OverflowError; + } + } +#ifdef SWIG_PYTHON_CAST_MODE + { + int dispatch = 0; + long v = PyInt_AsLong(obj); + if (!PyErr_Occurred()) { + if (val) *val = v; + return SWIG_AddCast(SWIG_OK); + } else { + PyErr_Clear(); + } + if (!dispatch) { + double d; + int res = SWIG_AddCast(SWIG_AsVal_double (obj,&d)); + if (SWIG_IsOK(res) && SWIG_CanCastAsInteger(&d, LONG_MIN, LONG_MAX)) { + if (val) *val = (long)(d); + return res; + } + } + } +#endif + return SWIG_TypeError; +} + + +SWIGINTERN int +SWIG_AsVal_int (PyObject * obj, int *val) +{ + long v; + int res = SWIG_AsVal_long (obj, &v); + if (SWIG_IsOK(res)) { + if ((v < INT_MIN || v > INT_MAX)) { + return SWIG_OverflowError; + } else { + if (val) *val = (int)(v); + } + } + return res; +} + + +#if defined(LLONG_MAX) && !defined(SWIG_LONG_LONG_AVAILABLE) +# define SWIG_LONG_LONG_AVAILABLE +#endif + + +#ifdef SWIG_LONG_LONG_AVAILABLE +SWIGINTERN int +SWIG_AsVal_long_SS_long (PyObject *obj, long long *val) +{ + int res = SWIG_TypeError; + if (PyLong_Check(obj)) { + long long v = PyLong_AsLongLong(obj); + if (!PyErr_Occurred()) { + if (val) *val = v; + return SWIG_OK; + } else { + PyErr_Clear(); + res = SWIG_OverflowError; + } + } else { + long v; + res = SWIG_AsVal_long (obj,&v); + if (SWIG_IsOK(res)) { + if (val) *val = v; + return res; + } + } +#ifdef SWIG_PYTHON_CAST_MODE + { + const double mant_max = 1LL << DBL_MANT_DIG; + const double mant_min = -mant_max; + double d; + res = SWIG_AsVal_double (obj,&d); + if (SWIG_IsOK(res) && SWIG_CanCastAsInteger(&d, mant_min, mant_max)) { + if (val) *val = (long long)(d); + return SWIG_AddCast(res); + } + res = SWIG_TypeError; + } +#endif + return res; +} +#endif + + +SWIGINTERN swig_type_info* +SWIG_pchar_descriptor(void) +{ + static int init = 0; + static swig_type_info* info = 0; + if (!init) { + info = SWIG_TypeQuery("_p_char"); + init = 1; + } + return info; +} + + +SWIGINTERN int +SWIG_AsCharPtrAndSize(PyObject *obj, char** cptr, size_t* psize, int *alloc) +{ +#if PY_VERSION_HEX>=0x03000000 +#if defined(SWIG_PYTHON_STRICT_BYTE_CHAR) + if (PyBytes_Check(obj)) +#else + if (PyUnicode_Check(obj)) +#endif +#else + if (PyString_Check(obj)) +#endif + { + char *cstr; Py_ssize_t len; +#if PY_VERSION_HEX>=0x03000000 +#if !defined(SWIG_PYTHON_STRICT_BYTE_CHAR) + if (!alloc && cptr) { + /* We can't allow converting without allocation, since the internal + representation of string in Python 3 is UCS-2/UCS-4 but we require + a UTF-8 representation. + TODO(bhy) More detailed explanation */ + return SWIG_RuntimeError; + } + obj = PyUnicode_AsUTF8String(obj); + if(alloc) *alloc = SWIG_NEWOBJ; +#endif + PyBytes_AsStringAndSize(obj, &cstr, &len); +#else + PyString_AsStringAndSize(obj, &cstr, &len); +#endif + if (cptr) { + if (alloc) { + /* + In python the user should not be able to modify the inner + string representation. To warranty that, if you define + SWIG_PYTHON_SAFE_CSTRINGS, a new/copy of the python string + buffer is always returned. + + The default behavior is just to return the pointer value, + so, be careful. + */ +#if defined(SWIG_PYTHON_SAFE_CSTRINGS) + if (*alloc != SWIG_OLDOBJ) +#else + if (*alloc == SWIG_NEWOBJ) +#endif + { + *cptr = (char *)memcpy((char *)malloc((len + 1)*sizeof(char)), cstr, sizeof(char)*(len + 1)); + *alloc = SWIG_NEWOBJ; + } else { + *cptr = cstr; + *alloc = SWIG_OLDOBJ; + } + } else { +#if PY_VERSION_HEX>=0x03000000 +#if defined(SWIG_PYTHON_STRICT_BYTE_CHAR) + *cptr = PyBytes_AsString(obj); +#else + assert(0); /* Should never reach here with Unicode strings in Python 3 */ +#endif +#else + *cptr = SWIG_Python_str_AsChar(obj); +#endif + } + } + if (psize) *psize = len + 1; +#if PY_VERSION_HEX>=0x03000000 && !defined(SWIG_PYTHON_STRICT_BYTE_CHAR) + Py_XDECREF(obj); +#endif + return SWIG_OK; + } else { +#if defined(SWIG_PYTHON_2_UNICODE) +#if defined(SWIG_PYTHON_STRICT_BYTE_CHAR) +#error "Cannot use both SWIG_PYTHON_2_UNICODE and SWIG_PYTHON_STRICT_BYTE_CHAR at once" +#endif +#if PY_VERSION_HEX<0x03000000 + if (PyUnicode_Check(obj)) { + char *cstr; Py_ssize_t len; + if (!alloc && cptr) { + return SWIG_RuntimeError; + } + obj = PyUnicode_AsUTF8String(obj); + if (PyString_AsStringAndSize(obj, &cstr, &len) != -1) { + if (cptr) { + if (alloc) *alloc = SWIG_NEWOBJ; + *cptr = (char *)memcpy((char *)malloc((len + 1)*sizeof(char)), cstr, sizeof(char)*(len + 1)); + } + if (psize) *psize = len + 1; + + Py_XDECREF(obj); + return SWIG_OK; + } else { + Py_XDECREF(obj); + } + } +#endif +#endif + + swig_type_info* pchar_descriptor = SWIG_pchar_descriptor(); + if (pchar_descriptor) { + void* vptr = 0; + if (SWIG_ConvertPtr(obj, &vptr, pchar_descriptor, 0) == SWIG_OK) { + if (cptr) *cptr = (char *) vptr; + if (psize) *psize = vptr ? (strlen((char *)vptr) + 1) : 0; + if (alloc) *alloc = SWIG_OLDOBJ; + return SWIG_OK; + } + } + } + return SWIG_TypeError; +} + + + + + +SWIGINTERNINLINE PyObject * +SWIG_FromCharPtrAndSize(const char* carray, size_t size) +{ + if (carray) { + if (size > INT_MAX) { + swig_type_info* pchar_descriptor = SWIG_pchar_descriptor(); + return pchar_descriptor ? + SWIG_InternalNewPointerObj((char *)(carray), pchar_descriptor, 0) : SWIG_Py_Void(); + } else { +#if PY_VERSION_HEX >= 0x03000000 +#if defined(SWIG_PYTHON_STRICT_BYTE_CHAR) + return PyBytes_FromStringAndSize(carray, (Py_ssize_t)(size)); +#else +#if PY_VERSION_HEX >= 0x03010000 + return PyUnicode_DecodeUTF8(carray, (Py_ssize_t)(size), "surrogateescape"); +#else + return PyUnicode_FromStringAndSize(carray, (Py_ssize_t)(size)); +#endif +#endif +#else + return PyString_FromStringAndSize(carray, (Py_ssize_t)(size)); +#endif + } + } else { + return SWIG_Py_Void(); + } +} + + +SWIGINTERNINLINE PyObject * +SWIG_FromCharPtr(const char *cptr) +{ + return SWIG_FromCharPtrAndSize(cptr, (cptr ? strlen(cptr) : 0)); +} + + +SWIGINTERN int +SWIG_AsVal_unsigned_SS_long (PyObject *obj, unsigned long *val) +{ +#if PY_VERSION_HEX < 0x03000000 + if (PyInt_Check(obj)) { + long v = PyInt_AsLong(obj); + if (v >= 0) { + if (val) *val = v; + return SWIG_OK; + } else { + return SWIG_OverflowError; + } + } else +#endif + if (PyLong_Check(obj)) { + unsigned long v = PyLong_AsUnsignedLong(obj); + if (!PyErr_Occurred()) { + if (val) *val = v; + return SWIG_OK; + } else { + PyErr_Clear(); + return SWIG_OverflowError; + } + } +#ifdef SWIG_PYTHON_CAST_MODE + { + int dispatch = 0; + unsigned long v = PyLong_AsUnsignedLong(obj); + if (!PyErr_Occurred()) { + if (val) *val = v; + return SWIG_AddCast(SWIG_OK); + } else { + PyErr_Clear(); + } + if (!dispatch) { + double d; + int res = SWIG_AddCast(SWIG_AsVal_double (obj,&d)); + if (SWIG_IsOK(res) && SWIG_CanCastAsInteger(&d, 0, ULONG_MAX)) { + if (val) *val = (unsigned long)(d); + return res; + } + } + } +#endif + return SWIG_TypeError; +} + + +SWIGINTERN int +SWIG_AsVal_unsigned_SS_int (PyObject * obj, unsigned int *val) +{ + unsigned long v; + int res = SWIG_AsVal_unsigned_SS_long (obj, &v); + if (SWIG_IsOK(res)) { + if ((v > UINT_MAX)) { + return SWIG_OverflowError; + } else { + if (val) *val = (unsigned int)(v); + } + } + return res; +} + + + #define SWIG_From_double PyFloat_FromDouble + + +SWIGINTERN int +SWIG_AsVal_short (PyObject * obj, short *val) +{ + long v; + int res = SWIG_AsVal_long (obj, &v); + if (SWIG_IsOK(res)) { + if ((v < SHRT_MIN || v > SHRT_MAX)) { + return SWIG_OverflowError; + } else { + if (val) *val = (short)(v); + } + } + return res; +} + +typedef union { + double rate_constant; + char *rate_file; +} reaction_rate_v; + + + #define SWIG_From_long PyInt_FromLong + + +SWIGINTERNINLINE PyObject * +SWIG_From_short (short value) +{ + return SWIG_From_long (value); +} + + +SWIGINTERN int +SWIG_AsVal_bool (PyObject *obj, bool *val) +{ + int r; + if (!PyBool_Check(obj)) + return SWIG_ERROR; + r = PyObject_IsTrue(obj); + if (r == -1) + return SWIG_ERROR; + if (val) *val = r ? true : false; + return SWIG_OK; +} + + +SWIGINTERNINLINE PyObject* + SWIG_From_bool (bool value) +{ + return PyBool_FromLong(value ? 1 : 0); +} + + +SWIGINTERN int +SWIG_AsVal_unsigned_SS_char (PyObject * obj, unsigned char *val) +{ + unsigned long v; + int res = SWIG_AsVal_unsigned_SS_long (obj, &v); + if (SWIG_IsOK(res)) { + if ((v > UCHAR_MAX)) { + return SWIG_OverflowError; + } else { + if (val) *val = (unsigned char)(v); + } + } + return res; +} + + +SWIGINTERNINLINE PyObject* +SWIG_From_unsigned_SS_long (unsigned long value) +{ + return (value > LONG_MAX) ? + PyLong_FromUnsignedLong(value) : PyInt_FromLong((long)(value)); +} + + +SWIGINTERNINLINE PyObject * +SWIG_From_unsigned_SS_char (unsigned char value) +{ + return SWIG_From_unsigned_SS_long (value); +} + + +SWIGINTERN int +SWIG_AsVal_unsigned_SS_short (PyObject * obj, unsigned short *val) +{ + unsigned long v; + int res = SWIG_AsVal_unsigned_SS_long (obj, &v); + if (SWIG_IsOK(res)) { + if ((v > USHRT_MAX)) { + return SWIG_OverflowError; + } else { + if (val) *val = (unsigned short)(v); + } + } + return res; +} + +#ifdef __cplusplus +extern "C" { +#endif +SWIGINTERN PyObject *_wrap_num_expr_list_head_value_head_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list_head *arg1 = (struct num_expr_list_head *) 0 ; + struct num_expr_list *arg2 = (struct num_expr_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:num_expr_list_head_value_head_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "num_expr_list_head_value_head_set" "', argument " "1"" of type '" "struct num_expr_list_head *""'"); + } + arg1 = (struct num_expr_list_head *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_num_expr_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "num_expr_list_head_value_head_set" "', argument " "2"" of type '" "struct num_expr_list *""'"); + } + arg2 = (struct num_expr_list *)(argp2); + if (arg1) (arg1)->value_head = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_num_expr_list_head_value_head_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list_head *arg1 = (struct num_expr_list_head *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct num_expr_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:num_expr_list_head_value_head_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "num_expr_list_head_value_head_get" "', argument " "1"" of type '" "struct num_expr_list_head *""'"); + } + arg1 = (struct num_expr_list_head *)(argp1); + result = (struct num_expr_list *) ((arg1)->value_head); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_num_expr_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_num_expr_list_head_value_tail_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list_head *arg1 = (struct num_expr_list_head *) 0 ; + struct num_expr_list *arg2 = (struct num_expr_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:num_expr_list_head_value_tail_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "num_expr_list_head_value_tail_set" "', argument " "1"" of type '" "struct num_expr_list_head *""'"); + } + arg1 = (struct num_expr_list_head *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_num_expr_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "num_expr_list_head_value_tail_set" "', argument " "2"" of type '" "struct num_expr_list *""'"); + } + arg2 = (struct num_expr_list *)(argp2); + if (arg1) (arg1)->value_tail = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_num_expr_list_head_value_tail_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list_head *arg1 = (struct num_expr_list_head *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct num_expr_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:num_expr_list_head_value_tail_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "num_expr_list_head_value_tail_get" "', argument " "1"" of type '" "struct num_expr_list_head *""'"); + } + arg1 = (struct num_expr_list_head *)(argp1); + result = (struct num_expr_list *) ((arg1)->value_tail); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_num_expr_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_num_expr_list_head_value_count_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list_head *arg1 = (struct num_expr_list_head *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:num_expr_list_head_value_count_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "num_expr_list_head_value_count_set" "', argument " "1"" of type '" "struct num_expr_list_head *""'"); + } + arg1 = (struct num_expr_list_head *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "num_expr_list_head_value_count_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->value_count = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_num_expr_list_head_value_count_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list_head *arg1 = (struct num_expr_list_head *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:num_expr_list_head_value_count_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "num_expr_list_head_value_count_get" "', argument " "1"" of type '" "struct num_expr_list_head *""'"); + } + arg1 = (struct num_expr_list_head *)(argp1); + result = (int) ((arg1)->value_count); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_num_expr_list_head_shared_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list_head *arg1 = (struct num_expr_list_head *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:num_expr_list_head_shared_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "num_expr_list_head_shared_set" "', argument " "1"" of type '" "struct num_expr_list_head *""'"); + } + arg1 = (struct num_expr_list_head *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "num_expr_list_head_shared_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->shared = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_num_expr_list_head_shared_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list_head *arg1 = (struct num_expr_list_head *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:num_expr_list_head_shared_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "num_expr_list_head_shared_get" "', argument " "1"" of type '" "struct num_expr_list_head *""'"); + } + arg1 = (struct num_expr_list_head *)(argp1); + result = (int) ((arg1)->shared); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_num_expr_list_head(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list_head *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_num_expr_list_head")) SWIG_fail; + result = (struct num_expr_list_head *)calloc(1, sizeof(struct num_expr_list_head)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_num_expr_list_head, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_num_expr_list_head(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list_head *arg1 = (struct num_expr_list_head *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_num_expr_list_head",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list_head, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_num_expr_list_head" "', argument " "1"" of type '" "struct num_expr_list_head *""'"); + } + arg1 = (struct num_expr_list_head *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *num_expr_list_head_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_num_expr_list_head, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_mcell_set_seed(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_set_seed",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_set_seed" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_set_seed" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + mcell_set_seed(arg1,arg2); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_create(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":mcell_create")) SWIG_fail; + result = (MCELL_STATE *)mcell_create(); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_volume, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_init_state(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_init_state",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_init_state" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (MCELL_STATUS)mcell_init_state(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_init_simulation(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_init_simulation",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_init_simulation" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (MCELL_STATUS)mcell_init_simulation(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_init_read_checkpoint(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_init_read_checkpoint",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_init_read_checkpoint" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (MCELL_STATUS)mcell_init_read_checkpoint(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_init_output(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_init_output",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_init_output" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (MCELL_STATUS)mcell_init_output(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_set_partition(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + int arg2 ; + struct num_expr_list_head *arg3 = (struct num_expr_list_head *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_set_partition",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_set_partition" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_set_partition" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_num_expr_list_head, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_set_partition" "', argument " "3"" of type '" "struct num_expr_list_head *""'"); + } + arg3 = (struct num_expr_list_head *)(argp3); + result = (MCELL_STATUS)mcell_set_partition(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_set_time_step(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_set_time_step",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_set_time_step" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_set_time_step" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + result = (MCELL_STATUS)mcell_set_time_step(arg1,arg2); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_set_iterations(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + long long arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + long long val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_set_iterations",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_set_iterations" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + ecode2 = SWIG_AsVal_long_SS_long(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_set_iterations" "', argument " "2"" of type '" "long long""'"); + } + arg2 = (long long)(val2); + result = (MCELL_STATUS)mcell_set_iterations(arg1,arg2); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_silence_notifications(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_silence_notifications",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_silence_notifications" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (MCELL_STATUS)mcell_silence_notifications(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_enable_notifications(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_enable_notifications",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_enable_notifications" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (MCELL_STATUS)mcell_enable_notifications(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_silence_warnings(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_silence_warnings",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_silence_warnings" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (MCELL_STATUS)mcell_silence_warnings(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_enable_warnings(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_enable_warnings",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_enable_warnings" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (MCELL_STATUS)mcell_enable_warnings(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_print_version(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + + if (!PyArg_ParseTuple(args,(char *)":mcell_print_version")) SWIG_fail; + mcell_print_version(); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_print_usage(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + char *arg1 = (char *) 0 ; + int res1 ; + char *buf1 = 0 ; + int alloc1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_print_usage",&obj0)) SWIG_fail; + res1 = SWIG_AsCharPtrAndSize(obj0, &buf1, NULL, &alloc1); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_print_usage" "', argument " "1"" of type '" "char const *""'"); + } + arg1 = (char *)(buf1); + mcell_print_usage((char const *)arg1); + resultobj = SWIG_Py_Void(); + if (alloc1 == SWIG_NEWOBJ) free((char*)buf1); + return resultobj; +fail: + if (alloc1 == SWIG_NEWOBJ) free((char*)buf1); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_print_stats(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + + if (!PyArg_ParseTuple(args,(char *)":mcell_print_stats")) SWIG_fail; + mcell_print_stats(); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_argparse(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + int arg1 ; + char **arg2 = (char **) 0 ; + MCELL_STATE *arg3 = (MCELL_STATE *) 0 ; + int val1 ; + int ecode1 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_argparse",&obj0,&obj1,&obj2)) SWIG_fail; + ecode1 = SWIG_AsVal_int(obj0, &val1); + if (!SWIG_IsOK(ecode1)) { + SWIG_exception_fail(SWIG_ArgError(ecode1), "in method '" "mcell_argparse" "', argument " "1"" of type '" "int""'"); + } + arg1 = (int)(val1); + { + /* Check if is a list */ + if (PyList_Check(obj1)) + { + int size = PyList_Size(obj1); + int i = 0; + arg2 = (char **) malloc((size+1)*sizeof(char *)); + for (i = 0; i < size; i++) + { + PyObject *o = PyList_GetItem(obj1,i); + if (PyUnicode_Check(o)) + { + arg2[i] = PyUnicode_AsUTF8(PyList_GetItem(obj1,i)); + } + else + { + PyErr_SetString(PyExc_TypeError,"list must contain strings"); + free(arg2); + return NULL; + } + } + arg2[i] = 0; + } + else + { + PyErr_SetString(PyExc_TypeError,"not a list"); + return NULL; + } + } + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_argparse" "', argument " "3"" of type '" "MCELL_STATE *""'"); + } + arg3 = (MCELL_STATE *)(argp3); + result = (int)mcell_argparse(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + { + free((char *) arg2); + } + return resultobj; +fail: + { + free((char *) arg2); + } + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_copysort_numeric_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list *arg1 = (struct num_expr_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct num_expr_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_copysort_numeric_list",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_copysort_numeric_list" "', argument " "1"" of type '" "struct num_expr_list *""'"); + } + arg1 = (struct num_expr_list *)(argp1); + result = (struct num_expr_list *)mcell_copysort_numeric_list(arg1); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_num_expr_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_sort_numeric_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list *arg1 = (struct num_expr_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_sort_numeric_list",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_sort_numeric_list" "', argument " "1"" of type '" "struct num_expr_list *""'"); + } + arg1 = (struct num_expr_list *)(argp1); + mcell_sort_numeric_list(arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_free_numeric_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list *arg1 = (struct num_expr_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_free_numeric_list",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_free_numeric_list" "', argument " "1"" of type '" "struct num_expr_list *""'"); + } + arg1 = (struct num_expr_list *)(argp1); + mcell_free_numeric_list(arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_generate_range(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list_head *arg1 = (struct num_expr_list_head *) 0 ; + double arg2 ; + double arg3 ; + double arg4 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + double val3 ; + int ecode3 = 0 ; + double val4 ; + int ecode4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:mcell_generate_range",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_generate_range" "', argument " "1"" of type '" "struct num_expr_list_head *""'"); + } + arg1 = (struct num_expr_list_head *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_generate_range" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + ecode3 = SWIG_AsVal_double(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "mcell_generate_range" "', argument " "3"" of type '" "double""'"); + } + arg3 = (double)(val3); + ecode4 = SWIG_AsVal_double(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "mcell_generate_range" "', argument " "4"" of type '" "double""'"); + } + arg4 = (double)(val4); + result = (MCELL_STATUS)mcell_generate_range(arg1,arg2,arg3,arg4); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_generate_range_singleton(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list_head *arg1 = (struct num_expr_list_head *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_generate_range_singleton",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_generate_range_singleton" "', argument " "1"" of type '" "struct num_expr_list_head *""'"); + } + arg1 = (struct num_expr_list_head *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_generate_range_singleton" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + result = (int)mcell_generate_range_singleton(arg1,arg2); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_print(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + char *arg1 = (char *) 0 ; + int res1 ; + char *buf1 = 0 ; + int alloc1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_print",&obj0)) SWIG_fail; + res1 = SWIG_AsCharPtrAndSize(obj0, &buf1, NULL, &alloc1); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_print" "', argument " "1"" of type '" "char const *""'"); + } + arg1 = (char *)(buf1); + mcell_print((char const *)arg1); + resultobj = SWIG_Py_Void(); + if (alloc1 == SWIG_NEWOBJ) free((char*)buf1); + return resultobj; +fail: + if (alloc1 == SWIG_NEWOBJ) free((char*)buf1); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_creation_object_name_list_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object_creation *arg1 = (struct object_creation *) 0 ; + struct name_list *arg2 = (struct name_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_creation_object_name_list_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object_creation, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_creation_object_name_list_set" "', argument " "1"" of type '" "struct object_creation *""'"); + } + arg1 = (struct object_creation *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_name_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_creation_object_name_list_set" "', argument " "2"" of type '" "struct name_list *""'"); + } + arg2 = (struct name_list *)(argp2); + if (arg1) (arg1)->object_name_list = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_creation_object_name_list_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object_creation *arg1 = (struct object_creation *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct name_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_creation_object_name_list_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object_creation, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_creation_object_name_list_get" "', argument " "1"" of type '" "struct object_creation *""'"); + } + arg1 = (struct object_creation *)(argp1); + result = (struct name_list *) ((arg1)->object_name_list); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_name_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_creation_object_name_list_end_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object_creation *arg1 = (struct object_creation *) 0 ; + struct name_list *arg2 = (struct name_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_creation_object_name_list_end_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object_creation, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_creation_object_name_list_end_set" "', argument " "1"" of type '" "struct object_creation *""'"); + } + arg1 = (struct object_creation *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_name_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_creation_object_name_list_end_set" "', argument " "2"" of type '" "struct name_list *""'"); + } + arg2 = (struct name_list *)(argp2); + if (arg1) (arg1)->object_name_list_end = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_creation_object_name_list_end_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object_creation *arg1 = (struct object_creation *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct name_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_creation_object_name_list_end_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object_creation, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_creation_object_name_list_end_get" "', argument " "1"" of type '" "struct object_creation *""'"); + } + arg1 = (struct object_creation *)(argp1); + result = (struct name_list *) ((arg1)->object_name_list_end); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_name_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_creation_current_object_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object_creation *arg1 = (struct object_creation *) 0 ; + struct object *arg2 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_creation_current_object_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object_creation, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_creation_current_object_set" "', argument " "1"" of type '" "struct object_creation *""'"); + } + arg1 = (struct object_creation *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_creation_current_object_set" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + if (arg1) (arg1)->current_object = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_creation_current_object_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object_creation *arg1 = (struct object_creation *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct object *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_creation_current_object_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object_creation, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_creation_current_object_get" "', argument " "1"" of type '" "struct object_creation *""'"); + } + arg1 = (struct object_creation *)(argp1); + result = (struct object *) ((arg1)->current_object); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_object, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_object_creation(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object_creation *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_object_creation")) SWIG_fail; + result = (struct object_creation *)calloc(1, sizeof(struct object_creation)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_object_creation, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_object_creation(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object_creation *arg1 = (struct object_creation *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_object_creation",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object_creation, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_object_creation" "', argument " "1"" of type '" "struct object_creation *""'"); + } + arg1 = (struct object_creation *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *object_creation_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_object_creation, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_poly_object_obj_name_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object *arg1 = (struct poly_object *) 0 ; + char *arg2 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:poly_object_obj_name_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_obj_name_set" "', argument " "1"" of type '" "struct poly_object *""'"); + } + arg1 = (struct poly_object *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "poly_object_obj_name_set" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + if (arg1->obj_name) free((char*)arg1->obj_name); + if (arg2) { + size_t size = strlen((const char *)(arg2)) + 1; + arg1->obj_name = (char *)(char *)memcpy((char *)malloc((size)*sizeof(char)), (const char *)(arg2), sizeof(char)*(size)); + } else { + arg1->obj_name = 0; + } + resultobj = SWIG_Py_Void(); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_obj_name_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object *arg1 = (struct poly_object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + char *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:poly_object_obj_name_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_obj_name_get" "', argument " "1"" of type '" "struct poly_object *""'"); + } + arg1 = (struct poly_object *)(argp1); + result = (char *) ((arg1)->obj_name); + resultobj = SWIG_FromCharPtr((const char *)result); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_vertices_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object *arg1 = (struct poly_object *) 0 ; + struct vertex_list *arg2 = (struct vertex_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:poly_object_vertices_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_vertices_set" "', argument " "1"" of type '" "struct poly_object *""'"); + } + arg1 = (struct poly_object *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vertex_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "poly_object_vertices_set" "', argument " "2"" of type '" "struct vertex_list *""'"); + } + arg2 = (struct vertex_list *)(argp2); + if (arg1) (arg1)->vertices = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_vertices_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object *arg1 = (struct poly_object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct vertex_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:poly_object_vertices_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_vertices_get" "', argument " "1"" of type '" "struct poly_object *""'"); + } + arg1 = (struct poly_object *)(argp1); + result = (struct vertex_list *) ((arg1)->vertices); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_vertex_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_num_vert_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object *arg1 = (struct poly_object *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:poly_object_num_vert_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_num_vert_set" "', argument " "1"" of type '" "struct poly_object *""'"); + } + arg1 = (struct poly_object *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "poly_object_num_vert_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->num_vert = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_num_vert_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object *arg1 = (struct poly_object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:poly_object_num_vert_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_num_vert_get" "', argument " "1"" of type '" "struct poly_object *""'"); + } + arg1 = (struct poly_object *)(argp1); + result = (int) ((arg1)->num_vert); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_connections_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object *arg1 = (struct poly_object *) 0 ; + struct element_connection_list *arg2 = (struct element_connection_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:poly_object_connections_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_connections_set" "', argument " "1"" of type '" "struct poly_object *""'"); + } + arg1 = (struct poly_object *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_element_connection_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "poly_object_connections_set" "', argument " "2"" of type '" "struct element_connection_list *""'"); + } + arg2 = (struct element_connection_list *)(argp2); + if (arg1) (arg1)->connections = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_connections_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object *arg1 = (struct poly_object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct element_connection_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:poly_object_connections_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_connections_get" "', argument " "1"" of type '" "struct poly_object *""'"); + } + arg1 = (struct poly_object *)(argp1); + result = (struct element_connection_list *) ((arg1)->connections); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_element_connection_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_num_conn_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object *arg1 = (struct poly_object *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:poly_object_num_conn_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_num_conn_set" "', argument " "1"" of type '" "struct poly_object *""'"); + } + arg1 = (struct poly_object *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "poly_object_num_conn_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->num_conn = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_num_conn_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object *arg1 = (struct poly_object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:poly_object_num_conn_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_num_conn_get" "', argument " "1"" of type '" "struct poly_object *""'"); + } + arg1 = (struct poly_object *)(argp1); + result = (int) ((arg1)->num_conn); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_poly_object(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_poly_object")) SWIG_fail; + result = (struct poly_object *)calloc(1, sizeof(struct poly_object)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_poly_object, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_poly_object(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object *arg1 = (struct poly_object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_poly_object",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_poly_object" "', argument " "1"" of type '" "struct poly_object *""'"); + } + arg1 = (struct poly_object *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *poly_object_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_poly_object, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_poly_object_list_obj_name_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + char *arg2 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:poly_object_list_obj_name_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_obj_name_set" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "poly_object_list_obj_name_set" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + if (arg1->obj_name) free((char*)arg1->obj_name); + if (arg2) { + size_t size = strlen((const char *)(arg2)) + 1; + arg1->obj_name = (char *)(char *)memcpy((char *)malloc((size)*sizeof(char)), (const char *)(arg2), sizeof(char)*(size)); + } else { + arg1->obj_name = 0; + } + resultobj = SWIG_Py_Void(); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_obj_name_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + char *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:poly_object_list_obj_name_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_obj_name_get" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + result = (char *) ((arg1)->obj_name); + resultobj = SWIG_FromCharPtr((const char *)result); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_vertices_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + struct vertex_list *arg2 = (struct vertex_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:poly_object_list_vertices_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_vertices_set" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vertex_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "poly_object_list_vertices_set" "', argument " "2"" of type '" "struct vertex_list *""'"); + } + arg2 = (struct vertex_list *)(argp2); + if (arg1) (arg1)->vertices = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_vertices_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct vertex_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:poly_object_list_vertices_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_vertices_get" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + result = (struct vertex_list *) ((arg1)->vertices); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_vertex_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_num_vert_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:poly_object_list_num_vert_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_num_vert_set" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "poly_object_list_num_vert_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->num_vert = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_num_vert_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:poly_object_list_num_vert_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_num_vert_get" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + result = (int) ((arg1)->num_vert); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_connections_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + struct element_connection_list *arg2 = (struct element_connection_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:poly_object_list_connections_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_connections_set" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_element_connection_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "poly_object_list_connections_set" "', argument " "2"" of type '" "struct element_connection_list *""'"); + } + arg2 = (struct element_connection_list *)(argp2); + if (arg1) (arg1)->connections = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_connections_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct element_connection_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:poly_object_list_connections_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_connections_get" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + result = (struct element_connection_list *) ((arg1)->connections); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_element_connection_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_num_conn_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:poly_object_list_num_conn_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_num_conn_set" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "poly_object_list_num_conn_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->num_conn = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_num_conn_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:poly_object_list_num_conn_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_num_conn_get" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + result = (int) ((arg1)->num_conn); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_surf_reg_faces_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + struct element_list *arg2 = (struct element_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:poly_object_list_surf_reg_faces_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_surf_reg_faces_set" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_element_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "poly_object_list_surf_reg_faces_set" "', argument " "2"" of type '" "struct element_list *""'"); + } + arg2 = (struct element_list *)(argp2); + if (arg1) (arg1)->surf_reg_faces = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_surf_reg_faces_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct element_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:poly_object_list_surf_reg_faces_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_surf_reg_faces_get" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + result = (struct element_list *) ((arg1)->surf_reg_faces); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_element_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_reg_name_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + char *arg2 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:poly_object_list_reg_name_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_reg_name_set" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "poly_object_list_reg_name_set" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + if (arg1->reg_name) free((char*)arg1->reg_name); + if (arg2) { + size_t size = strlen((const char *)(arg2)) + 1; + arg1->reg_name = (char *)(char *)memcpy((char *)malloc((size)*sizeof(char)), (const char *)(arg2), sizeof(char)*(size)); + } else { + arg1->reg_name = 0; + } + resultobj = SWIG_Py_Void(); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_reg_name_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + char *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:poly_object_list_reg_name_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_reg_name_get" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + result = (char *) ((arg1)->reg_name); + resultobj = SWIG_FromCharPtr((const char *)result); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_next_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + struct poly_object_list *arg2 = (struct poly_object_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:poly_object_list_next_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_next_set" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_poly_object_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "poly_object_list_next_set" "', argument " "2"" of type '" "struct poly_object_list *""'"); + } + arg2 = (struct poly_object_list *)(argp2); + if (arg1) (arg1)->next = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_poly_object_list_next_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct poly_object_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:poly_object_list_next_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "poly_object_list_next_get" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + result = (struct poly_object_list *) ((arg1)->next); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_poly_object_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_poly_object_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_poly_object_list")) SWIG_fail; + result = (struct poly_object_list *)calloc(1, sizeof(struct poly_object_list)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_poly_object_list, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_poly_object_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_poly_object_list",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_poly_object_list" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *poly_object_list_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_poly_object_list, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_mcell_create_instance_object(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + char *arg2 = (char *) 0 ; + struct object **arg3 = (struct object **) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + struct object *temp3 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_create_instance_object",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_create_instance_object" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_create_instance_object" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + { + arg3 = &temp3; + } + result = (MCELL_STATUS)mcell_create_instance_object(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + { + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(*arg3), SWIGTYPE_p_object, SWIG_POINTER_OWN); + } + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_create_poly_object(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct object *arg2 = (struct object *) 0 ; + struct poly_object *arg3 = (struct poly_object *) 0 ; + struct object **arg4 = (struct object **) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + struct object *temp4 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:mcell_create_poly_object",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_create_poly_object" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_create_poly_object" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_poly_object, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_create_poly_object" "', argument " "3"" of type '" "struct poly_object *""'"); + } + arg3 = (struct poly_object *)(argp3); + { + arg4 = &temp4; + } + result = (MCELL_STATUS)mcell_create_poly_object(arg1,arg2,arg3,arg4); + resultobj = SWIG_From_int((int)(result)); + { + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(*arg4), SWIGTYPE_p_object, SWIG_POINTER_OWN); + } + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_polygon_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct object *arg2 = (struct object *) 0 ; + int arg3 ; + struct vertex_list *arg4 = (struct vertex_list *) 0 ; + int arg5 ; + struct element_connection_list *arg6 = (struct element_connection_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + int val3 ; + int ecode3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + int val5 ; + int ecode5 = 0 ; + void *argp6 = 0 ; + int res6 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + PyObject * obj5 = 0 ; + struct polygon_object *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOOOOO:new_polygon_list",&obj0,&obj1,&obj2,&obj3,&obj4,&obj5)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "new_polygon_list" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "new_polygon_list" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + ecode3 = SWIG_AsVal_int(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "new_polygon_list" "', argument " "3"" of type '" "int""'"); + } + arg3 = (int)(val3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_vertex_list, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "new_polygon_list" "', argument " "4"" of type '" "struct vertex_list *""'"); + } + arg4 = (struct vertex_list *)(argp4); + ecode5 = SWIG_AsVal_int(obj4, &val5); + if (!SWIG_IsOK(ecode5)) { + SWIG_exception_fail(SWIG_ArgError(ecode5), "in method '" "new_polygon_list" "', argument " "5"" of type '" "int""'"); + } + arg5 = (int)(val5); + res6 = SWIG_ConvertPtr(obj5, &argp6,SWIGTYPE_p_element_connection_list, 0 | 0 ); + if (!SWIG_IsOK(res6)) { + SWIG_exception_fail(SWIG_ArgError(res6), "in method '" "new_polygon_list" "', argument " "6"" of type '" "struct element_connection_list *""'"); + } + arg6 = (struct element_connection_list *)(argp6); + result = (struct polygon_object *)new_polygon_list(arg1,arg2,arg3,arg4,arg5,arg6); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_polygon_object, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_make_new_object(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct dyngeom_parse_vars *arg1 = (struct dyngeom_parse_vars *) 0 ; + struct sym_table_head *arg2 = (struct sym_table_head *) 0 ; + char *arg3 = (char *) 0 ; + int *arg4 = (int *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + int res3 ; + char *buf3 = 0 ; + int alloc3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + struct object *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:make_new_object",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_dyngeom_parse_vars, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "make_new_object" "', argument " "1"" of type '" "struct dyngeom_parse_vars *""'"); + } + arg1 = (struct dyngeom_parse_vars *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_sym_table_head, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "make_new_object" "', argument " "2"" of type '" "struct sym_table_head *""'"); + } + arg2 = (struct sym_table_head *)(argp2); + res3 = SWIG_AsCharPtrAndSize(obj2, &buf3, NULL, &alloc3); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "make_new_object" "', argument " "3"" of type '" "char *""'"); + } + arg3 = (char *)(buf3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_int, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "make_new_object" "', argument " "4"" of type '" "int *""'"); + } + arg4 = (int *)(argp4); + result = (struct object *)make_new_object(arg1,arg2,arg3,arg4); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_object, 0 | 0 ); + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + return resultobj; +fail: + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_push_object_name(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object_creation *arg1 = (struct object_creation *) 0 ; + char *arg2 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + char *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:push_object_name",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object_creation, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "push_object_name" "', argument " "1"" of type '" "struct object_creation *""'"); + } + arg1 = (struct object_creation *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "push_object_name" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + result = (char *)push_object_name(arg1,arg2); + resultobj = SWIG_FromCharPtr((const char *)result); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_pop_object_name(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object_creation *arg1 = (struct object_creation *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:pop_object_name",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object_creation, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "pop_object_name" "', argument " "1"" of type '" "struct object_creation *""'"); + } + arg1 = (struct object_creation *)(argp1); + pop_object_name(arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_add_to_vertex_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + double arg1 ; + double arg2 ; + double arg3 ; + struct vertex_list *arg4 = (struct vertex_list *) 0 ; + double val1 ; + int ecode1 = 0 ; + double val2 ; + int ecode2 = 0 ; + double val3 ; + int ecode3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + struct vertex_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:mcell_add_to_vertex_list",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + ecode1 = SWIG_AsVal_double(obj0, &val1); + if (!SWIG_IsOK(ecode1)) { + SWIG_exception_fail(SWIG_ArgError(ecode1), "in method '" "mcell_add_to_vertex_list" "', argument " "1"" of type '" "double""'"); + } + arg1 = (double)(val1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_add_to_vertex_list" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + ecode3 = SWIG_AsVal_double(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "mcell_add_to_vertex_list" "', argument " "3"" of type '" "double""'"); + } + arg3 = (double)(val3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_vertex_list, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "mcell_add_to_vertex_list" "', argument " "4"" of type '" "struct vertex_list *""'"); + } + arg4 = (struct vertex_list *)(argp4); + result = (struct vertex_list *)mcell_add_to_vertex_list(arg1,arg2,arg3,arg4); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_vertex_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_free_vertex_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vertex_list *arg1 = (struct vertex_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:free_vertex_list",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vertex_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "free_vertex_list" "', argument " "1"" of type '" "struct vertex_list *""'"); + } + arg1 = (struct vertex_list *)(argp1); + free_vertex_list(arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_add_to_connection_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + int arg1 ; + int arg2 ; + int arg3 ; + struct element_connection_list *arg4 = (struct element_connection_list *) 0 ; + int val1 ; + int ecode1 = 0 ; + int val2 ; + int ecode2 = 0 ; + int val3 ; + int ecode3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + struct element_connection_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:mcell_add_to_connection_list",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + ecode1 = SWIG_AsVal_int(obj0, &val1); + if (!SWIG_IsOK(ecode1)) { + SWIG_exception_fail(SWIG_ArgError(ecode1), "in method '" "mcell_add_to_connection_list" "', argument " "1"" of type '" "int""'"); + } + arg1 = (int)(val1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_add_to_connection_list" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + ecode3 = SWIG_AsVal_int(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "mcell_add_to_connection_list" "', argument " "3"" of type '" "int""'"); + } + arg3 = (int)(val3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_element_connection_list, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "mcell_add_to_connection_list" "', argument " "4"" of type '" "struct element_connection_list *""'"); + } + arg4 = (struct element_connection_list *)(argp4); + result = (struct element_connection_list *)mcell_add_to_connection_list(arg1,arg2,arg3,arg4); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_element_connection_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_free_connection_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct element_connection_list *arg1 = (struct element_connection_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:free_connection_list",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_element_connection_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "free_connection_list" "', argument " "1"" of type '" "struct element_connection_list *""'"); + } + arg1 = (struct element_connection_list *)(argp1); + free_connection_list(arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_set_region_elements(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct region *arg1 = (struct region *) 0 ; + struct element_list *arg2 = (struct element_list *) 0 ; + int arg3 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + int val3 ; + int ecode3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_set_region_elements",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_region, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_set_region_elements" "', argument " "1"" of type '" "struct region *""'"); + } + arg1 = (struct region *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_element_list, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_set_region_elements" "', argument " "2"" of type '" "struct element_list *""'"); + } + arg2 = (struct element_list *)(argp2); + ecode3 = SWIG_AsVal_int(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "mcell_set_region_elements" "', argument " "3"" of type '" "int""'"); + } + arg3 = (int)(val3); + result = (int)mcell_set_region_elements(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_add_to_region_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct element_list *arg1 = (struct element_list *) 0 ; + unsigned int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + unsigned int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + struct element_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_add_to_region_list",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_element_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_add_to_region_list" "', argument " "1"" of type '" "struct element_list *""'"); + } + arg1 = (struct element_list *)(argp1); + ecode2 = SWIG_AsVal_unsigned_SS_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_add_to_region_list" "', argument " "2"" of type '" "unsigned int""'"); + } + arg2 = (unsigned int)(val2); + result = (struct element_list *)mcell_add_to_region_list(arg1,arg2); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_element_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_add_child_objects(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + struct object *arg2 = (struct object *) 0 ; + struct object *arg3 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOO:add_child_objects",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "add_child_objects" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "add_child_objects" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "add_child_objects" "', argument " "3"" of type '" "struct object *""'"); + } + arg3 = (struct object *)(argp3); + add_child_objects(arg1,arg2,arg3); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_create_region(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct object *arg2 = (struct object *) 0 ; + char *arg3 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + int res3 ; + char *buf3 = 0 ; + int alloc3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + struct region *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_create_region",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_create_region" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_create_region" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + res3 = SWIG_AsCharPtrAndSize(obj2, &buf3, NULL, &alloc3); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_create_region" "', argument " "3"" of type '" "char *""'"); + } + arg3 = (char *)(buf3); + result = (struct region *)mcell_create_region(arg1,arg2,arg3); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_region, 0 | 0 ); + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + return resultobj; +fail: + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_make_new_region(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct dyngeom_parse_vars *arg1 = (struct dyngeom_parse_vars *) 0 ; + MCELL_STATE *arg2 = (MCELL_STATE *) 0 ; + char *arg3 = (char *) 0 ; + char *arg4 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + int res3 ; + char *buf3 = 0 ; + int alloc3 = 0 ; + int res4 ; + char *buf4 = 0 ; + int alloc4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + struct region *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:make_new_region",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_dyngeom_parse_vars, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "make_new_region" "', argument " "1"" of type '" "struct dyngeom_parse_vars *""'"); + } + arg1 = (struct dyngeom_parse_vars *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "make_new_region" "', argument " "2"" of type '" "MCELL_STATE *""'"); + } + arg2 = (MCELL_STATE *)(argp2); + res3 = SWIG_AsCharPtrAndSize(obj2, &buf3, NULL, &alloc3); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "make_new_region" "', argument " "3"" of type '" "char *""'"); + } + arg3 = (char *)(buf3); + res4 = SWIG_AsCharPtrAndSize(obj3, &buf4, NULL, &alloc4); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "make_new_region" "', argument " "4"" of type '" "char *""'"); + } + arg4 = (char *)(buf4); + result = (struct region *)make_new_region(arg1,arg2,arg3,arg4); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_region, 0 | 0 ); + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + if (alloc4 == SWIG_NEWOBJ) free((char*)buf4); + return resultobj; +fail: + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + if (alloc4 == SWIG_NEWOBJ) free((char*)buf4); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_remove_gaps_from_regions(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:remove_gaps_from_regions",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "remove_gaps_from_regions" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + remove_gaps_from_regions(arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_check_degenerate_polygon_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:check_degenerate_polygon_list",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "check_degenerate_polygon_list" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (int)check_degenerate_polygon_list(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_common_ancestor(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + struct object *arg2 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + struct object *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:common_ancestor",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "common_ancestor" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "common_ancestor" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + result = (struct object *)common_ancestor(arg1,arg2); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_object, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_allocate_polygon_object(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + char *arg1 = (char *) 0 ; + int res1 ; + char *buf1 = 0 ; + int alloc1 = 0 ; + PyObject * obj0 = 0 ; + struct polygon_object *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:allocate_polygon_object",&obj0)) SWIG_fail; + res1 = SWIG_AsCharPtrAndSize(obj0, &buf1, NULL, &alloc1); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "allocate_polygon_object" "', argument " "1"" of type '" "char const *""'"); + } + arg1 = (char *)(buf1); + result = (struct polygon_object *)allocate_polygon_object((char const *)arg1); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_polygon_object, 0 | 0 ); + if (alloc1 == SWIG_NEWOBJ) free((char*)buf1); + return resultobj; +fail: + if (alloc1 == SWIG_NEWOBJ) free((char*)buf1); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_element_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + unsigned int arg1 ; + unsigned int arg2 ; + unsigned int val1 ; + int ecode1 = 0 ; + unsigned int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + struct element_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:new_element_list",&obj0,&obj1)) SWIG_fail; + ecode1 = SWIG_AsVal_unsigned_SS_int(obj0, &val1); + if (!SWIG_IsOK(ecode1)) { + SWIG_exception_fail(SWIG_ArgError(ecode1), "in method '" "new_element_list" "', argument " "1"" of type '" "unsigned int""'"); + } + arg1 = (unsigned int)(val1); + ecode2 = SWIG_AsVal_unsigned_SS_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "new_element_list" "', argument " "2"" of type '" "unsigned int""'"); + } + arg2 = (unsigned int)(val2); + result = (struct element_list *)new_element_list(arg1,arg2); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_element_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_normalize_elements(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct region *arg1 = (struct region *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OO:normalize_elements",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_region, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "normalize_elements" "', argument " "1"" of type '" "struct region *""'"); + } + arg1 = (struct region *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "normalize_elements" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + result = (int)normalize_elements(arg1,arg2); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_count_cuboid_elements(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct subdivided_box *arg1 = (struct subdivided_box *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:count_cuboid_elements",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_subdivided_box, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "count_cuboid_elements" "', argument " "1"" of type '" "struct subdivided_box *""'"); + } + arg1 = (struct subdivided_box *)(argp1); + result = (int)count_cuboid_elements(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_cuboid_patch_to_bits(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct subdivided_box *arg1 = (struct subdivided_box *) 0 ; + struct vector3 *arg2 = (struct vector3 *) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + struct bit_array *arg4 = (struct bit_array *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:cuboid_patch_to_bits",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_subdivided_box, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "cuboid_patch_to_bits" "', argument " "1"" of type '" "struct subdivided_box *""'"); + } + arg1 = (struct subdivided_box *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "cuboid_patch_to_bits" "', argument " "2"" of type '" "struct vector3 *""'"); + } + arg2 = (struct vector3 *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "cuboid_patch_to_bits" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_bit_array, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "cuboid_patch_to_bits" "', argument " "4"" of type '" "struct bit_array *""'"); + } + arg4 = (struct bit_array *)(argp4); + result = (int)cuboid_patch_to_bits(arg1,arg2,arg3,arg4); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_check_patch(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct subdivided_box *arg1 = (struct subdivided_box *) 0 ; + struct vector3 *arg2 = (struct vector3 *) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + double arg4 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + double val4 ; + int ecode4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:check_patch",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_subdivided_box, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "check_patch" "', argument " "1"" of type '" "struct subdivided_box *""'"); + } + arg1 = (struct subdivided_box *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "check_patch" "', argument " "2"" of type '" "struct vector3 *""'"); + } + arg2 = (struct vector3 *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "check_patch" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + ecode4 = SWIG_AsVal_double(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "check_patch" "', argument " "4"" of type '" "double""'"); + } + arg4 = (double)(val4); + result = (int)check_patch(arg1,arg2,arg3,arg4); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_get_obj_sym(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_get_obj_sym",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_get_obj_sym" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (struct sym_entry *)mcell_get_obj_sym(arg1); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_get_reg_sym(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct region *arg1 = (struct region *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_get_reg_sym",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_region, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_get_reg_sym" "', argument " "1"" of type '" "struct region *""'"); + } + arg1 = (struct region *)(argp1); + result = (struct sym_entry *)mcell_get_reg_sym(arg1); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_get_all_mol_sym(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_get_all_mol_sym",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_get_all_mol_sym" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (struct sym_entry *)mcell_get_all_mol_sym(arg1); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_get_all_volume_mol_sym(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_get_all_volume_mol_sym",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_get_all_volume_mol_sym" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (struct sym_entry *)mcell_get_all_volume_mol_sym(arg1); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_get_all_surface_mol_sym(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_get_all_surface_mol_sym",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_get_all_surface_mol_sym" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (struct sym_entry *)mcell_get_all_surface_mol_sym(arg1); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_add_to_poly_obj_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct poly_object_list *arg1 = (struct poly_object_list *) 0 ; + char *arg2 = (char *) 0 ; + struct vertex_list *arg3 = (struct vertex_list *) 0 ; + int arg4 ; + struct element_connection_list *arg5 = (struct element_connection_list *) 0 ; + int arg6 ; + struct element_list *arg7 = (struct element_list *) 0 ; + char *arg8 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + int val4 ; + int ecode4 = 0 ; + void *argp5 = 0 ; + int res5 = 0 ; + int val6 ; + int ecode6 = 0 ; + void *argp7 = 0 ; + int res7 = 0 ; + int res8 ; + char *buf8 = 0 ; + int alloc8 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + PyObject * obj5 = 0 ; + PyObject * obj6 = 0 ; + PyObject * obj7 = 0 ; + struct poly_object_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOOOOOOO:mcell_add_to_poly_obj_list",&obj0,&obj1,&obj2,&obj3,&obj4,&obj5,&obj6,&obj7)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_add_to_poly_obj_list" "', argument " "1"" of type '" "struct poly_object_list *""'"); + } + arg1 = (struct poly_object_list *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_add_to_poly_obj_list" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vertex_list, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_add_to_poly_obj_list" "', argument " "3"" of type '" "struct vertex_list *""'"); + } + arg3 = (struct vertex_list *)(argp3); + ecode4 = SWIG_AsVal_int(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "mcell_add_to_poly_obj_list" "', argument " "4"" of type '" "int""'"); + } + arg4 = (int)(val4); + res5 = SWIG_ConvertPtr(obj4, &argp5,SWIGTYPE_p_element_connection_list, 0 | 0 ); + if (!SWIG_IsOK(res5)) { + SWIG_exception_fail(SWIG_ArgError(res5), "in method '" "mcell_add_to_poly_obj_list" "', argument " "5"" of type '" "struct element_connection_list *""'"); + } + arg5 = (struct element_connection_list *)(argp5); + ecode6 = SWIG_AsVal_int(obj5, &val6); + if (!SWIG_IsOK(ecode6)) { + SWIG_exception_fail(SWIG_ArgError(ecode6), "in method '" "mcell_add_to_poly_obj_list" "', argument " "6"" of type '" "int""'"); + } + arg6 = (int)(val6); + res7 = SWIG_ConvertPtr(obj6, &argp7,SWIGTYPE_p_element_list, 0 | 0 ); + if (!SWIG_IsOK(res7)) { + SWIG_exception_fail(SWIG_ArgError(res7), "in method '" "mcell_add_to_poly_obj_list" "', argument " "7"" of type '" "struct element_list *""'"); + } + arg7 = (struct element_list *)(argp7); + res8 = SWIG_AsCharPtrAndSize(obj7, &buf8, NULL, &alloc8); + if (!SWIG_IsOK(res8)) { + SWIG_exception_fail(SWIG_ArgError(res8), "in method '" "mcell_add_to_poly_obj_list" "', argument " "8"" of type '" "char *""'"); + } + arg8 = (char *)(buf8); + result = (struct poly_object_list *)mcell_add_to_poly_obj_list(arg1,arg2,arg3,arg4,arg5,arg6,arg7,arg8); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + if (alloc8 == SWIG_NEWOBJ) free((char*)buf8); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + if (alloc8 == SWIG_NEWOBJ) free((char*)buf8); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_column_list_column_head_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_column_list *arg1 = (struct output_column_list *) 0 ; + struct output_column *arg2 = (struct output_column *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_column_list_column_head_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_column_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_column_list_column_head_set" "', argument " "1"" of type '" "struct output_column_list *""'"); + } + arg1 = (struct output_column_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_output_column, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "output_column_list_column_head_set" "', argument " "2"" of type '" "struct output_column *""'"); + } + arg2 = (struct output_column *)(argp2); + if (arg1) (arg1)->column_head = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_column_list_column_head_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_column_list *arg1 = (struct output_column_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct output_column *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:output_column_list_column_head_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_column_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_column_list_column_head_get" "', argument " "1"" of type '" "struct output_column_list *""'"); + } + arg1 = (struct output_column_list *)(argp1); + result = (struct output_column *) ((arg1)->column_head); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_output_column, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_column_list_column_tail_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_column_list *arg1 = (struct output_column_list *) 0 ; + struct output_column *arg2 = (struct output_column *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_column_list_column_tail_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_column_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_column_list_column_tail_set" "', argument " "1"" of type '" "struct output_column_list *""'"); + } + arg1 = (struct output_column_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_output_column, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "output_column_list_column_tail_set" "', argument " "2"" of type '" "struct output_column *""'"); + } + arg2 = (struct output_column *)(argp2); + if (arg1) (arg1)->column_tail = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_column_list_column_tail_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_column_list *arg1 = (struct output_column_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct output_column *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:output_column_list_column_tail_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_column_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_column_list_column_tail_get" "', argument " "1"" of type '" "struct output_column_list *""'"); + } + arg1 = (struct output_column_list *)(argp1); + result = (struct output_column *) ((arg1)->column_tail); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_output_column, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_output_column_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_column_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_output_column_list")) SWIG_fail; + result = (struct output_column_list *)calloc(1, sizeof(struct output_column_list)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_output_column_list, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_output_column_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_column_list *arg1 = (struct output_column_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_output_column_list",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_column_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_output_column_list" "', argument " "1"" of type '" "struct output_column_list *""'"); + } + arg1 = (struct output_column_list *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *output_column_list_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_output_column_list, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_output_set_list_set_head_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set_list *arg1 = (struct output_set_list *) 0 ; + struct output_set *arg2 = (struct output_set *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_set_list_set_head_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_list_set_head_set" "', argument " "1"" of type '" "struct output_set_list *""'"); + } + arg1 = (struct output_set_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_output_set, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "output_set_list_set_head_set" "', argument " "2"" of type '" "struct output_set *""'"); + } + arg2 = (struct output_set *)(argp2); + if (arg1) (arg1)->set_head = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_list_set_head_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set_list *arg1 = (struct output_set_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct output_set *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:output_set_list_set_head_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_list_set_head_get" "', argument " "1"" of type '" "struct output_set_list *""'"); + } + arg1 = (struct output_set_list *)(argp1); + result = (struct output_set *) ((arg1)->set_head); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_output_set, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_list_set_tail_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set_list *arg1 = (struct output_set_list *) 0 ; + struct output_set *arg2 = (struct output_set *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_set_list_set_tail_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_list_set_tail_set" "', argument " "1"" of type '" "struct output_set_list *""'"); + } + arg1 = (struct output_set_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_output_set, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "output_set_list_set_tail_set" "', argument " "2"" of type '" "struct output_set *""'"); + } + arg2 = (struct output_set *)(argp2); + if (arg1) (arg1)->set_tail = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_list_set_tail_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set_list *arg1 = (struct output_set_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct output_set *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:output_set_list_set_tail_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_list_set_tail_get" "', argument " "1"" of type '" "struct output_set_list *""'"); + } + arg1 = (struct output_set_list *)(argp1); + result = (struct output_set *) ((arg1)->set_tail); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_output_set, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_output_set_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_output_set_list")) SWIG_fail; + result = (struct output_set_list *)calloc(1, sizeof(struct output_set_list)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_output_set_list, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_output_set_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set_list *arg1 = (struct output_set_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_output_set_list",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_output_set_list" "', argument " "1"" of type '" "struct output_set_list *""'"); + } + arg1 = (struct output_set_list *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *output_set_list_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_output_set_list, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_output_times_inlist_type_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_times_inlist *arg1 = (struct output_times_inlist *) 0 ; + enum output_timer_type_t arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_times_inlist_type_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_times_inlist, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_times_inlist_type_set" "', argument " "1"" of type '" "struct output_times_inlist *""'"); + } + arg1 = (struct output_times_inlist *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "output_times_inlist_type_set" "', argument " "2"" of type '" "enum output_timer_type_t""'"); + } + arg2 = (enum output_timer_type_t)(val2); + if (arg1) (arg1)->type = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_times_inlist_type_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_times_inlist *arg1 = (struct output_times_inlist *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + enum output_timer_type_t result; + + if (!PyArg_ParseTuple(args,(char *)"O:output_times_inlist_type_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_times_inlist, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_times_inlist_type_get" "', argument " "1"" of type '" "struct output_times_inlist *""'"); + } + arg1 = (struct output_times_inlist *)(argp1); + result = (enum output_timer_type_t) ((arg1)->type); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_times_inlist_step_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_times_inlist *arg1 = (struct output_times_inlist *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_times_inlist_step_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_times_inlist, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_times_inlist_step_set" "', argument " "1"" of type '" "struct output_times_inlist *""'"); + } + arg1 = (struct output_times_inlist *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "output_times_inlist_step_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->step = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_times_inlist_step_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_times_inlist *arg1 = (struct output_times_inlist *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:output_times_inlist_step_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_times_inlist, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_times_inlist_step_get" "', argument " "1"" of type '" "struct output_times_inlist *""'"); + } + arg1 = (struct output_times_inlist *)(argp1); + result = (double) ((arg1)->step); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_times_inlist_values_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_times_inlist *arg1 = (struct output_times_inlist *) 0 ; + struct num_expr_list_head *arg2 = (struct num_expr_list_head *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_times_inlist_values_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_times_inlist, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_times_inlist_values_set" "', argument " "1"" of type '" "struct output_times_inlist *""'"); + } + arg1 = (struct output_times_inlist *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_num_expr_list_head, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "output_times_inlist_values_set" "', argument " "2"" of type '" "struct num_expr_list_head *""'"); + } + arg2 = (struct num_expr_list_head *)(argp2); + if (arg1) (arg1)->values = *arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_times_inlist_values_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_times_inlist *arg1 = (struct output_times_inlist *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct num_expr_list_head *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:output_times_inlist_values_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_times_inlist, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_times_inlist_values_get" "', argument " "1"" of type '" "struct output_times_inlist *""'"); + } + arg1 = (struct output_times_inlist *)(argp1); + result = (struct num_expr_list_head *)& ((arg1)->values); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_num_expr_list_head, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_output_times_inlist(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_times_inlist *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_output_times_inlist")) SWIG_fail; + result = (struct output_times_inlist *)calloc(1, sizeof(struct output_times_inlist)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_output_times_inlist, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_output_times_inlist(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_times_inlist *arg1 = (struct output_times_inlist *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_output_times_inlist",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_times_inlist, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_output_times_inlist" "', argument " "1"" of type '" "struct output_times_inlist *""'"); + } + arg1 = (struct output_times_inlist *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *output_times_inlist_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_output_times_inlist, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_mcell_get_count(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + char *arg1 = (char *) 0 ; + char *arg2 = (char *) 0 ; + struct volume *arg3 = (struct volume *) 0 ; + int res1 ; + char *buf1 = 0 ; + int alloc1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_get_count",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_AsCharPtrAndSize(obj0, &buf1, NULL, &alloc1); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_get_count" "', argument " "1"" of type '" "char *""'"); + } + arg1 = (char *)(buf1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_get_count" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_get_count" "', argument " "3"" of type '" "struct volume *""'"); + } + arg3 = (struct volume *)(argp3); + result = (int)mcell_get_count(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + if (alloc1 == SWIG_NEWOBJ) free((char*)buf1); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc1 == SWIG_NEWOBJ) free((char*)buf1); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_new_output_request(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct sym_entry *arg2 = (struct sym_entry *) 0 ; + short arg3 ; + struct sym_entry *arg4 = (struct sym_entry *) 0 ; + struct periodic_image *arg5 = (struct periodic_image *) 0 ; + int arg6 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + short val3 ; + int ecode3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + void *argp5 = 0 ; + int res5 = 0 ; + int val6 ; + int ecode6 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + PyObject * obj5 = 0 ; + struct output_request *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOOOOO:mcell_new_output_request",&obj0,&obj1,&obj2,&obj3,&obj4,&obj5)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_new_output_request" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_new_output_request" "', argument " "2"" of type '" "struct sym_entry *""'"); + } + arg2 = (struct sym_entry *)(argp2); + ecode3 = SWIG_AsVal_short(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "mcell_new_output_request" "', argument " "3"" of type '" "short""'"); + } + arg3 = (short)(val3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "mcell_new_output_request" "', argument " "4"" of type '" "struct sym_entry *""'"); + } + arg4 = (struct sym_entry *)(argp4); + res5 = SWIG_ConvertPtr(obj4, &argp5,SWIGTYPE_p_periodic_image, 0 | 0 ); + if (!SWIG_IsOK(res5)) { + SWIG_exception_fail(SWIG_ArgError(res5), "in method '" "mcell_new_output_request" "', argument " "5"" of type '" "struct periodic_image *""'"); + } + arg5 = (struct periodic_image *)(argp5); + ecode6 = SWIG_AsVal_int(obj5, &val6); + if (!SWIG_IsOK(ecode6)) { + SWIG_exception_fail(SWIG_ArgError(ecode6), "in method '" "mcell_new_output_request" "', argument " "6"" of type '" "int""'"); + } + arg6 = (int)(val6); + result = (struct output_request *)mcell_new_output_request(arg1,arg2,arg3,arg4,arg5,arg6); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_output_request, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_create_new_output_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + char *arg1 = (char *) 0 ; + int arg2 ; + struct output_column *arg3 = (struct output_column *) 0 ; + int arg4 ; + char *arg5 = (char *) 0 ; + int res1 ; + char *buf1 = 0 ; + int alloc1 = 0 ; + int val2 ; + int ecode2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + int val4 ; + int ecode4 = 0 ; + int res5 ; + char *buf5 = 0 ; + int alloc5 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + struct output_set *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOOOO:mcell_create_new_output_set",&obj0,&obj1,&obj2,&obj3,&obj4)) SWIG_fail; + res1 = SWIG_AsCharPtrAndSize(obj0, &buf1, NULL, &alloc1); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_create_new_output_set" "', argument " "1"" of type '" "char *""'"); + } + arg1 = (char *)(buf1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_create_new_output_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_output_column, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_create_new_output_set" "', argument " "3"" of type '" "struct output_column *""'"); + } + arg3 = (struct output_column *)(argp3); + ecode4 = SWIG_AsVal_int(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "mcell_create_new_output_set" "', argument " "4"" of type '" "int""'"); + } + arg4 = (int)(val4); + res5 = SWIG_AsCharPtrAndSize(obj4, &buf5, NULL, &alloc5); + if (!SWIG_IsOK(res5)) { + SWIG_exception_fail(SWIG_ArgError(res5), "in method '" "mcell_create_new_output_set" "', argument " "5"" of type '" "char *""'"); + } + arg5 = (char *)(buf5); + result = (struct output_set *)mcell_create_new_output_set(arg1,arg2,arg3,arg4,arg5); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_output_set, 0 | 0 ); + if (alloc1 == SWIG_NEWOBJ) free((char*)buf1); + if (alloc5 == SWIG_NEWOBJ) free((char*)buf5); + return resultobj; +fail: + if (alloc1 == SWIG_NEWOBJ) free((char*)buf1); + if (alloc5 == SWIG_NEWOBJ) free((char*)buf5); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_prepare_single_count_expr(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_column_list *arg1 = (struct output_column_list *) 0 ; + struct output_expression *arg2 = (struct output_expression *) 0 ; + char *arg3 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + int res3 ; + char *buf3 = 0 ; + int alloc3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_prepare_single_count_expr",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_column_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_prepare_single_count_expr" "', argument " "1"" of type '" "struct output_column_list *""'"); + } + arg1 = (struct output_column_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_output_expression, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_prepare_single_count_expr" "', argument " "2"" of type '" "struct output_expression *""'"); + } + arg2 = (struct output_expression *)(argp2); + res3 = SWIG_AsCharPtrAndSize(obj2, &buf3, NULL, &alloc3); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_prepare_single_count_expr" "', argument " "3"" of type '" "char *""'"); + } + arg3 = (char *)(buf3); + result = (MCELL_STATUS)mcell_prepare_single_count_expr(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + return resultobj; +fail: + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_add_reaction_output_block(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct output_set_list *arg2 = (struct output_set_list *) 0 ; + int arg3 ; + struct output_times_inlist *arg4 = (struct output_times_inlist *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + int val3 ; + int ecode3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:mcell_add_reaction_output_block",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_add_reaction_output_block" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_output_set_list, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_add_reaction_output_block" "', argument " "2"" of type '" "struct output_set_list *""'"); + } + arg2 = (struct output_set_list *)(argp2); + ecode3 = SWIG_AsVal_int(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "mcell_add_reaction_output_block" "', argument " "3"" of type '" "int""'"); + } + arg3 = (int)(val3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_output_times_inlist, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "mcell_add_reaction_output_block" "', argument " "4"" of type '" "struct output_times_inlist *""'"); + } + arg4 = (struct output_times_inlist *)(argp4); + result = (MCELL_STATUS)mcell_add_reaction_output_block(arg1,arg2,arg3,arg4); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_create_count(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct sym_entry *arg2 = (struct sym_entry *) 0 ; + short arg3 ; + struct sym_entry *arg4 = (struct sym_entry *) 0 ; + int arg5 ; + char *arg6 = (char *) 0 ; + struct output_column_list *arg7 = (struct output_column_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + short val3 ; + int ecode3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + int val5 ; + int ecode5 = 0 ; + int res6 ; + char *buf6 = 0 ; + int alloc6 = 0 ; + void *argp7 = 0 ; + int res7 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + PyObject * obj5 = 0 ; + PyObject * obj6 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOOOOO:mcell_create_count",&obj0,&obj1,&obj2,&obj3,&obj4,&obj5,&obj6)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_create_count" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_create_count" "', argument " "2"" of type '" "struct sym_entry *""'"); + } + arg2 = (struct sym_entry *)(argp2); + ecode3 = SWIG_AsVal_short(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "mcell_create_count" "', argument " "3"" of type '" "short""'"); + } + arg3 = (short)(val3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "mcell_create_count" "', argument " "4"" of type '" "struct sym_entry *""'"); + } + arg4 = (struct sym_entry *)(argp4); + ecode5 = SWIG_AsVal_int(obj4, &val5); + if (!SWIG_IsOK(ecode5)) { + SWIG_exception_fail(SWIG_ArgError(ecode5), "in method '" "mcell_create_count" "', argument " "5"" of type '" "int""'"); + } + arg5 = (int)(val5); + res6 = SWIG_AsCharPtrAndSize(obj5, &buf6, NULL, &alloc6); + if (!SWIG_IsOK(res6)) { + SWIG_exception_fail(SWIG_ArgError(res6), "in method '" "mcell_create_count" "', argument " "6"" of type '" "char *""'"); + } + arg6 = (char *)(buf6); + res7 = SWIG_ConvertPtr(obj6, &argp7,SWIGTYPE_p_output_column_list, 0 | 0 ); + if (!SWIG_IsOK(res7)) { + SWIG_exception_fail(SWIG_ArgError(res7), "in method '" "mcell_create_count" "', argument " "7"" of type '" "struct output_column_list *""'"); + } + arg7 = (struct output_column_list *)(argp7); + result = (MCELL_STATUS)mcell_create_count(arg1,arg2,arg3,arg4,arg5,arg6,arg7); + resultobj = SWIG_From_int((int)(result)); + { + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(arg7), SWIGTYPE_p_output_column_list, SWIG_POINTER_OWN); + } + if (alloc6 == SWIG_NEWOBJ) free((char*)buf6); + return resultobj; +fail: + if (alloc6 == SWIG_NEWOBJ) free((char*)buf6); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_get_counter_value(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + char *arg2 = (char *) 0 ; + int arg3 ; + double *arg4 = (double *) 0 ; + enum count_type_t *arg5 = (enum count_type_t *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + int val3 ; + int ecode3 = 0 ; + void *argp5 = 0 ; + int res5 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOOO:mcell_get_counter_value",&obj0,&obj1,&obj2,&obj3,&obj4)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_get_counter_value" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_get_counter_value" "', argument " "2"" of type '" "char const *""'"); + } + arg2 = (char *)(buf2); + ecode3 = SWIG_AsVal_int(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "mcell_get_counter_value" "', argument " "3"" of type '" "int""'"); + } + arg3 = (int)(val3); + { + /* Check if is a list */ + if (PyList_Check(obj3)) + { + int size = PyList_Size(obj3); + int i = 0; + arg4 = (double *) malloc((size+1)*sizeof(double)); + for (i = 0; i < size; i++) + { + PyObject *o = PyList_GetItem(obj3,i); + if (PyFloat_Check(o)) + { + arg4[i] = PyFloat_AsDouble(PyList_GetItem(obj3,i)); + } + else + { + PyErr_SetString(PyExc_TypeError,"list must contain floats"); + free(arg4); + return NULL; + } + } + arg4[i] = 0; + } + else + { + PyErr_SetString(PyExc_TypeError,"not a list"); + return NULL; + } + } + res5 = SWIG_ConvertPtr(obj4, &argp5,SWIGTYPE_p_count_type_t, 0 | 0 ); + if (!SWIG_IsOK(res5)) { + SWIG_exception_fail(SWIG_ArgError(res5), "in method '" "mcell_get_counter_value" "', argument " "5"" of type '" "enum count_type_t *""'"); + } + arg5 = (enum count_type_t *)(argp5); + result = (MCELL_STATUS)mcell_get_counter_value(arg1,(char const *)arg2,arg3,arg4,arg5); + resultobj = SWIG_From_int((int)(result)); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + { + free(arg4); + } + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + { + free(arg4); + } + return NULL; +} + + +SWIGINTERN PyObject *_wrap_reaction_def_sym_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_def *arg1 = (struct reaction_def *) 0 ; + struct sym_entry *arg2 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:reaction_def_sym_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_def, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_def_sym_set" "', argument " "1"" of type '" "struct reaction_def *""'"); + } + arg1 = (struct reaction_def *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_sym_entry, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "reaction_def_sym_set" "', argument " "2"" of type '" "struct sym_entry *""'"); + } + arg2 = (struct sym_entry *)(argp2); + if (arg1) (arg1)->sym = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_reaction_def_sym_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_def *arg1 = (struct reaction_def *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:reaction_def_sym_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_def, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_def_sym_get" "', argument " "1"" of type '" "struct reaction_def *""'"); + } + arg1 = (struct reaction_def *)(argp1); + result = (struct sym_entry *) ((arg1)->sym); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_reaction_def(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_def *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_reaction_def")) SWIG_fail; + result = (struct reaction_def *)calloc(1, sizeof(struct reaction_def)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_reaction_def, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_reaction_def(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_def *arg1 = (struct reaction_def *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_reaction_def",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_def, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_reaction_def" "', argument " "1"" of type '" "struct reaction_def *""'"); + } + arg1 = (struct reaction_def *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *reaction_def_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_reaction_def, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_release_single_molecule_list_rsm_head_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_single_molecule_list *arg1 = (struct release_single_molecule_list *) 0 ; + struct release_single_molecule *arg2 = (struct release_single_molecule *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:release_single_molecule_list_rsm_head_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_single_molecule_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_single_molecule_list_rsm_head_set" "', argument " "1"" of type '" "struct release_single_molecule_list *""'"); + } + arg1 = (struct release_single_molecule_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_release_single_molecule, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "release_single_molecule_list_rsm_head_set" "', argument " "2"" of type '" "struct release_single_molecule *""'"); + } + arg2 = (struct release_single_molecule *)(argp2); + if (arg1) (arg1)->rsm_head = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_single_molecule_list_rsm_head_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_single_molecule_list *arg1 = (struct release_single_molecule_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct release_single_molecule *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:release_single_molecule_list_rsm_head_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_single_molecule_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_single_molecule_list_rsm_head_get" "', argument " "1"" of type '" "struct release_single_molecule_list *""'"); + } + arg1 = (struct release_single_molecule_list *)(argp1); + result = (struct release_single_molecule *) ((arg1)->rsm_head); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_release_single_molecule, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_single_molecule_list_rsm_tail_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_single_molecule_list *arg1 = (struct release_single_molecule_list *) 0 ; + struct release_single_molecule *arg2 = (struct release_single_molecule *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:release_single_molecule_list_rsm_tail_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_single_molecule_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_single_molecule_list_rsm_tail_set" "', argument " "1"" of type '" "struct release_single_molecule_list *""'"); + } + arg1 = (struct release_single_molecule_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_release_single_molecule, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "release_single_molecule_list_rsm_tail_set" "', argument " "2"" of type '" "struct release_single_molecule *""'"); + } + arg2 = (struct release_single_molecule *)(argp2); + if (arg1) (arg1)->rsm_tail = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_single_molecule_list_rsm_tail_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_single_molecule_list *arg1 = (struct release_single_molecule_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct release_single_molecule *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:release_single_molecule_list_rsm_tail_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_single_molecule_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_single_molecule_list_rsm_tail_get" "', argument " "1"" of type '" "struct release_single_molecule_list *""'"); + } + arg1 = (struct release_single_molecule_list *)(argp1); + result = (struct release_single_molecule *) ((arg1)->rsm_tail); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_release_single_molecule, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_single_molecule_list_rsm_count_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_single_molecule_list *arg1 = (struct release_single_molecule_list *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:release_single_molecule_list_rsm_count_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_single_molecule_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_single_molecule_list_rsm_count_set" "', argument " "1"" of type '" "struct release_single_molecule_list *""'"); + } + arg1 = (struct release_single_molecule_list *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "release_single_molecule_list_rsm_count_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->rsm_count = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_single_molecule_list_rsm_count_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_single_molecule_list *arg1 = (struct release_single_molecule_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:release_single_molecule_list_rsm_count_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_single_molecule_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_single_molecule_list_rsm_count_get" "', argument " "1"" of type '" "struct release_single_molecule_list *""'"); + } + arg1 = (struct release_single_molecule_list *)(argp1); + result = (int) ((arg1)->rsm_count); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_release_single_molecule_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_single_molecule_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_release_single_molecule_list")) SWIG_fail; + result = (struct release_single_molecule_list *)calloc(1, sizeof(struct release_single_molecule_list)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_release_single_molecule_list, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_release_single_molecule_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_single_molecule_list *arg1 = (struct release_single_molecule_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_release_single_molecule_list",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_single_molecule_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_release_single_molecule_list" "', argument " "1"" of type '" "struct release_single_molecule_list *""'"); + } + arg1 = (struct release_single_molecule_list *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *release_single_molecule_list_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_release_single_molecule_list, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_reaction_arrow_flags_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_arrow *arg1 = (struct reaction_arrow *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:reaction_arrow_flags_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_arrow, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_arrow_flags_set" "', argument " "1"" of type '" "struct reaction_arrow *""'"); + } + arg1 = (struct reaction_arrow *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "reaction_arrow_flags_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->flags = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_reaction_arrow_flags_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_arrow *arg1 = (struct reaction_arrow *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:reaction_arrow_flags_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_arrow, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_arrow_flags_get" "', argument " "1"" of type '" "struct reaction_arrow *""'"); + } + arg1 = (struct reaction_arrow *)(argp1); + result = (int) ((arg1)->flags); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_reaction_arrow_catalyst_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_arrow *arg1 = (struct reaction_arrow *) 0 ; + struct mcell_species *arg2 = (struct mcell_species *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:reaction_arrow_catalyst_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_arrow, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_arrow_catalyst_set" "', argument " "1"" of type '" "struct reaction_arrow *""'"); + } + arg1 = (struct reaction_arrow *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "reaction_arrow_catalyst_set" "', argument " "2"" of type '" "struct mcell_species *""'"); + } + arg2 = (struct mcell_species *)(argp2); + if (arg1) (arg1)->catalyst = *arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_reaction_arrow_catalyst_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_arrow *arg1 = (struct reaction_arrow *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct mcell_species *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:reaction_arrow_catalyst_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_arrow, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_arrow_catalyst_get" "', argument " "1"" of type '" "struct reaction_arrow *""'"); + } + arg1 = (struct reaction_arrow *)(argp1); + result = (struct mcell_species *)& ((arg1)->catalyst); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_mcell_species, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_reaction_arrow(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_arrow *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_reaction_arrow")) SWIG_fail; + result = (struct reaction_arrow *)calloc(1, sizeof(struct reaction_arrow)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_reaction_arrow, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_reaction_arrow(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_arrow *arg1 = (struct reaction_arrow *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_reaction_arrow",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_arrow, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_reaction_arrow" "', argument " "1"" of type '" "struct reaction_arrow *""'"); + } + arg1 = (struct reaction_arrow *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *reaction_arrow_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_reaction_arrow, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_reaction_rate_rate_type_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_rate *arg1 = (struct reaction_rate *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:reaction_rate_rate_type_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_rate, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_rate_rate_type_set" "', argument " "1"" of type '" "struct reaction_rate *""'"); + } + arg1 = (struct reaction_rate *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "reaction_rate_rate_type_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->rate_type = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_reaction_rate_rate_type_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_rate *arg1 = (struct reaction_rate *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:reaction_rate_rate_type_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_rate, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_rate_rate_type_get" "', argument " "1"" of type '" "struct reaction_rate *""'"); + } + arg1 = (struct reaction_rate *)(argp1); + result = (int) ((arg1)->rate_type); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_reaction_rate_v_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_rate *arg1 = (struct reaction_rate *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + reaction_rate_v *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:reaction_rate_v_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_rate, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_rate_v_get" "', argument " "1"" of type '" "struct reaction_rate *""'"); + } + arg1 = (struct reaction_rate *)(argp1); + result = (reaction_rate_v *)& ((arg1)->v); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_reaction_rate_v, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_reaction_rate(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_rate *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_reaction_rate")) SWIG_fail; + result = (struct reaction_rate *)calloc(1, sizeof(struct reaction_rate)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_reaction_rate, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_reaction_rate(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_rate *arg1 = (struct reaction_rate *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_reaction_rate",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_rate, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_reaction_rate" "', argument " "1"" of type '" "struct reaction_rate *""'"); + } + arg1 = (struct reaction_rate *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *reaction_rate_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_reaction_rate, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_reaction_rate_v_rate_constant_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + reaction_rate_v *arg1 = (reaction_rate_v *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:reaction_rate_v_rate_constant_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_rate_v, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_rate_v_rate_constant_set" "', argument " "1"" of type '" "reaction_rate_v *""'"); + } + arg1 = (reaction_rate_v *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "reaction_rate_v_rate_constant_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->rate_constant = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_reaction_rate_v_rate_constant_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + reaction_rate_v *arg1 = (reaction_rate_v *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:reaction_rate_v_rate_constant_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_rate_v, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_rate_v_rate_constant_get" "', argument " "1"" of type '" "reaction_rate_v *""'"); + } + arg1 = (reaction_rate_v *)(argp1); + result = (double) ((arg1)->rate_constant); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_reaction_rate_v_rate_file_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + reaction_rate_v *arg1 = (reaction_rate_v *) 0 ; + char *arg2 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:reaction_rate_v_rate_file_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_rate_v, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_rate_v_rate_file_set" "', argument " "1"" of type '" "reaction_rate_v *""'"); + } + arg1 = (reaction_rate_v *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "reaction_rate_v_rate_file_set" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + if (arg1->rate_file) free((char*)arg1->rate_file); + if (arg2) { + size_t size = strlen((const char *)(arg2)) + 1; + arg1->rate_file = (char *)(char *)memcpy((char *)malloc((size)*sizeof(char)), (const char *)(arg2), sizeof(char)*(size)); + } else { + arg1->rate_file = 0; + } + resultobj = SWIG_Py_Void(); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_reaction_rate_v_rate_file_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + reaction_rate_v *arg1 = (reaction_rate_v *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + char *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:reaction_rate_v_rate_file_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_rate_v, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_rate_v_rate_file_get" "', argument " "1"" of type '" "reaction_rate_v *""'"); + } + arg1 = (reaction_rate_v *)(argp1); + result = (char *) ((arg1)->rate_file); + resultobj = SWIG_FromCharPtr((const char *)result); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_reaction_rate_v(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + reaction_rate_v *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_reaction_rate_v")) SWIG_fail; + result = (reaction_rate_v *)calloc(1, sizeof(reaction_rate_v)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_reaction_rate_v, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_reaction_rate_v(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + reaction_rate_v *arg1 = (reaction_rate_v *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_reaction_rate_v",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_rate_v, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_reaction_rate_v" "', argument " "1"" of type '" "reaction_rate_v *""'"); + } + arg1 = (reaction_rate_v *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *reaction_rate_v_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_reaction_rate_v, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_reaction_rates_forward_rate_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_rates *arg1 = (struct reaction_rates *) 0 ; + struct reaction_rate *arg2 = (struct reaction_rate *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:reaction_rates_forward_rate_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_rates, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_rates_forward_rate_set" "', argument " "1"" of type '" "struct reaction_rates *""'"); + } + arg1 = (struct reaction_rates *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_reaction_rate, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "reaction_rates_forward_rate_set" "', argument " "2"" of type '" "struct reaction_rate *""'"); + } + arg2 = (struct reaction_rate *)(argp2); + if (arg1) (arg1)->forward_rate = *arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_reaction_rates_forward_rate_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_rates *arg1 = (struct reaction_rates *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct reaction_rate *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:reaction_rates_forward_rate_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_rates, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_rates_forward_rate_get" "', argument " "1"" of type '" "struct reaction_rates *""'"); + } + arg1 = (struct reaction_rates *)(argp1); + result = (struct reaction_rate *)& ((arg1)->forward_rate); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_reaction_rate, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_reaction_rates_backward_rate_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_rates *arg1 = (struct reaction_rates *) 0 ; + struct reaction_rate *arg2 = (struct reaction_rate *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:reaction_rates_backward_rate_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_rates, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_rates_backward_rate_set" "', argument " "1"" of type '" "struct reaction_rates *""'"); + } + arg1 = (struct reaction_rates *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_reaction_rate, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "reaction_rates_backward_rate_set" "', argument " "2"" of type '" "struct reaction_rate *""'"); + } + arg2 = (struct reaction_rate *)(argp2); + if (arg1) (arg1)->backward_rate = *arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_reaction_rates_backward_rate_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_rates *arg1 = (struct reaction_rates *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct reaction_rate *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:reaction_rates_backward_rate_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_rates, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "reaction_rates_backward_rate_get" "', argument " "1"" of type '" "struct reaction_rates *""'"); + } + arg1 = (struct reaction_rates *)(argp1); + result = (struct reaction_rate *)& ((arg1)->backward_rate); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_reaction_rate, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_reaction_rates(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_rates *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_reaction_rates")) SWIG_fail; + result = (struct reaction_rates *)calloc(1, sizeof(struct reaction_rates)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_reaction_rates, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_reaction_rates(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct reaction_rates *arg1 = (struct reaction_rates *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_reaction_rates",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_reaction_rates, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_reaction_rates" "', argument " "1"" of type '" "struct reaction_rates *""'"); + } + arg1 = (struct reaction_rates *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *reaction_rates_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_reaction_rates, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_mcell_modify_multiple_rate_constants(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct volume *arg1 = (struct volume *) 0 ; + char **arg2 = (char **) 0 ; + double *arg3 = (double *) 0 ; + int arg4 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val4 ; + int ecode4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:mcell_modify_multiple_rate_constants",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_modify_multiple_rate_constants" "', argument " "1"" of type '" "struct volume *""'"); + } + arg1 = (struct volume *)(argp1); + { + /* Check if is a list */ + if (PyList_Check(obj1)) + { + int size = PyList_Size(obj1); + int i = 0; + arg2 = (char **) malloc((size+1)*sizeof(char *)); + for (i = 0; i < size; i++) + { + PyObject *o = PyList_GetItem(obj1,i); + if (PyUnicode_Check(o)) + { + arg2[i] = PyUnicode_AsUTF8(PyList_GetItem(obj1,i)); + } + else + { + PyErr_SetString(PyExc_TypeError,"list must contain strings"); + free(arg2); + return NULL; + } + } + arg2[i] = 0; + } + else + { + PyErr_SetString(PyExc_TypeError,"not a list"); + return NULL; + } + } + { + /* Check if is a list */ + if (PyList_Check(obj2)) + { + int size = PyList_Size(obj2); + int i = 0; + arg3 = (double *) malloc((size+1)*sizeof(double)); + for (i = 0; i < size; i++) + { + PyObject *o = PyList_GetItem(obj2,i); + if (PyFloat_Check(o)) + { + arg3[i] = PyFloat_AsDouble(PyList_GetItem(obj2,i)); + } + else + { + PyErr_SetString(PyExc_TypeError,"list must contain floats"); + free(arg3); + return NULL; + } + } + arg3[i] = 0; + } + else + { + PyErr_SetString(PyExc_TypeError,"not a list"); + return NULL; + } + } + ecode4 = SWIG_AsVal_int(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "mcell_modify_multiple_rate_constants" "', argument " "4"" of type '" "int""'"); + } + arg4 = (int)(val4); + result = (MCELL_STATUS)mcell_modify_multiple_rate_constants(arg1,arg2,arg3,arg4); + resultobj = SWIG_From_int((int)(result)); + { + free((char *) arg2); + } + { + free(arg3); + } + return resultobj; +fail: + { + free((char *) arg2); + } + { + free(arg3); + } + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_modify_rate_constant(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct volume *arg1 = (struct volume *) 0 ; + char *arg2 = (char *) 0 ; + double arg3 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + double val3 ; + int ecode3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_modify_rate_constant",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_modify_rate_constant" "', argument " "1"" of type '" "struct volume *""'"); + } + arg1 = (struct volume *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_modify_rate_constant" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + ecode3 = SWIG_AsVal_double(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "mcell_modify_rate_constant" "', argument " "3"" of type '" "double""'"); + } + arg3 = (double)(val3); + result = (MCELL_STATUS)mcell_modify_rate_constant(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_add_reaction_simplified(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct volume *arg1 = (struct volume *) 0 ; + struct mcell_species *arg2 = (struct mcell_species *) 0 ; + struct reaction_arrow *arg3 = (struct reaction_arrow *) 0 ; + struct mcell_species *arg4 = (struct mcell_species *) 0 ; + struct mcell_species *arg5 = (struct mcell_species *) 0 ; + struct reaction_rates *arg6 = (struct reaction_rates *) 0 ; + struct sym_entry *arg7 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + void *argp5 = 0 ; + int res5 = 0 ; + void *argp6 = 0 ; + int res6 = 0 ; + void *argp7 = 0 ; + int res7 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + PyObject * obj5 = 0 ; + PyObject * obj6 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOOOOO:mcell_add_reaction_simplified",&obj0,&obj1,&obj2,&obj3,&obj4,&obj5,&obj6)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_add_reaction_simplified" "', argument " "1"" of type '" "struct volume *""'"); + } + arg1 = (struct volume *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_add_reaction_simplified" "', argument " "2"" of type '" "struct mcell_species *""'"); + } + arg2 = (struct mcell_species *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_reaction_arrow, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_add_reaction_simplified" "', argument " "3"" of type '" "struct reaction_arrow *""'"); + } + arg3 = (struct reaction_arrow *)(argp3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "mcell_add_reaction_simplified" "', argument " "4"" of type '" "struct mcell_species *""'"); + } + arg4 = (struct mcell_species *)(argp4); + res5 = SWIG_ConvertPtr(obj4, &argp5,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res5)) { + SWIG_exception_fail(SWIG_ArgError(res5), "in method '" "mcell_add_reaction_simplified" "', argument " "5"" of type '" "struct mcell_species *""'"); + } + arg5 = (struct mcell_species *)(argp5); + res6 = SWIG_ConvertPtr(obj5, &argp6,SWIGTYPE_p_reaction_rates, 0 | 0 ); + if (!SWIG_IsOK(res6)) { + SWIG_exception_fail(SWIG_ArgError(res6), "in method '" "mcell_add_reaction_simplified" "', argument " "6"" of type '" "struct reaction_rates *""'"); + } + arg6 = (struct reaction_rates *)(argp6); + res7 = SWIG_ConvertPtr(obj6, &argp7,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res7)) { + SWIG_exception_fail(SWIG_ArgError(res7), "in method '" "mcell_add_reaction_simplified" "', argument " "7"" of type '" "struct sym_entry *""'"); + } + arg7 = (struct sym_entry *)(argp7); + result = (MCELL_STATUS)mcell_add_reaction_simplified(arg1,arg2,arg3,arg4,arg5,arg6,arg7); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_add_reaction(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct notifications *arg1 = (struct notifications *) 0 ; + double **arg2 = (double **) 0 ; + struct sym_table_head *arg3 = (struct sym_table_head *) 0 ; + u_int arg4 ; + double arg5 ; + struct mcell_species *arg6 = (struct mcell_species *) 0 ; + struct reaction_arrow *arg7 = (struct reaction_arrow *) 0 ; + struct mcell_species *arg8 = (struct mcell_species *) 0 ; + struct mcell_species *arg9 = (struct mcell_species *) 0 ; + struct sym_entry *arg10 = (struct sym_entry *) 0 ; + struct reaction_rates *arg11 = (struct reaction_rates *) 0 ; + char *arg12 = (char *) 0 ; + char *arg13 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + void *argp4 ; + int res4 = 0 ; + double val5 ; + int ecode5 = 0 ; + void *argp6 = 0 ; + int res6 = 0 ; + void *argp7 = 0 ; + int res7 = 0 ; + void *argp8 = 0 ; + int res8 = 0 ; + void *argp9 = 0 ; + int res9 = 0 ; + void *argp10 = 0 ; + int res10 = 0 ; + void *argp11 = 0 ; + int res11 = 0 ; + int res12 ; + char *buf12 = 0 ; + int alloc12 = 0 ; + int res13 ; + char *buf13 = 0 ; + int alloc13 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + PyObject * obj5 = 0 ; + PyObject * obj6 = 0 ; + PyObject * obj7 = 0 ; + PyObject * obj8 = 0 ; + PyObject * obj9 = 0 ; + PyObject * obj10 = 0 ; + PyObject * obj11 = 0 ; + PyObject * obj12 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOOOOOOOOOOO:mcell_add_reaction",&obj0,&obj1,&obj2,&obj3,&obj4,&obj5,&obj6,&obj7,&obj8,&obj9,&obj10,&obj11,&obj12)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_notifications, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_add_reaction" "', argument " "1"" of type '" "struct notifications *""'"); + } + arg1 = (struct notifications *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_p_double, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_add_reaction" "', argument " "2"" of type '" "double **""'"); + } + arg2 = (double **)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_sym_table_head, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_add_reaction" "', argument " "3"" of type '" "struct sym_table_head *""'"); + } + arg3 = (struct sym_table_head *)(argp3); + { + res4 = SWIG_ConvertPtr(obj3, &argp4, SWIGTYPE_p_u_int, 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "mcell_add_reaction" "', argument " "4"" of type '" "u_int""'"); + } + if (!argp4) { + SWIG_exception_fail(SWIG_ValueError, "invalid null reference " "in method '" "mcell_add_reaction" "', argument " "4"" of type '" "u_int""'"); + } else { + arg4 = *((u_int *)(argp4)); + } + } + ecode5 = SWIG_AsVal_double(obj4, &val5); + if (!SWIG_IsOK(ecode5)) { + SWIG_exception_fail(SWIG_ArgError(ecode5), "in method '" "mcell_add_reaction" "', argument " "5"" of type '" "double""'"); + } + arg5 = (double)(val5); + res6 = SWIG_ConvertPtr(obj5, &argp6,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res6)) { + SWIG_exception_fail(SWIG_ArgError(res6), "in method '" "mcell_add_reaction" "', argument " "6"" of type '" "struct mcell_species *""'"); + } + arg6 = (struct mcell_species *)(argp6); + res7 = SWIG_ConvertPtr(obj6, &argp7,SWIGTYPE_p_reaction_arrow, 0 | 0 ); + if (!SWIG_IsOK(res7)) { + SWIG_exception_fail(SWIG_ArgError(res7), "in method '" "mcell_add_reaction" "', argument " "7"" of type '" "struct reaction_arrow *""'"); + } + arg7 = (struct reaction_arrow *)(argp7); + res8 = SWIG_ConvertPtr(obj7, &argp8,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res8)) { + SWIG_exception_fail(SWIG_ArgError(res8), "in method '" "mcell_add_reaction" "', argument " "8"" of type '" "struct mcell_species *""'"); + } + arg8 = (struct mcell_species *)(argp8); + res9 = SWIG_ConvertPtr(obj8, &argp9,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res9)) { + SWIG_exception_fail(SWIG_ArgError(res9), "in method '" "mcell_add_reaction" "', argument " "9"" of type '" "struct mcell_species *""'"); + } + arg9 = (struct mcell_species *)(argp9); + res10 = SWIG_ConvertPtr(obj9, &argp10,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res10)) { + SWIG_exception_fail(SWIG_ArgError(res10), "in method '" "mcell_add_reaction" "', argument " "10"" of type '" "struct sym_entry *""'"); + } + arg10 = (struct sym_entry *)(argp10); + res11 = SWIG_ConvertPtr(obj10, &argp11,SWIGTYPE_p_reaction_rates, 0 | 0 ); + if (!SWIG_IsOK(res11)) { + SWIG_exception_fail(SWIG_ArgError(res11), "in method '" "mcell_add_reaction" "', argument " "11"" of type '" "struct reaction_rates *""'"); + } + arg11 = (struct reaction_rates *)(argp11); + res12 = SWIG_AsCharPtrAndSize(obj11, &buf12, NULL, &alloc12); + if (!SWIG_IsOK(res12)) { + SWIG_exception_fail(SWIG_ArgError(res12), "in method '" "mcell_add_reaction" "', argument " "12"" of type '" "char const *""'"); + } + arg12 = (char *)(buf12); + res13 = SWIG_AsCharPtrAndSize(obj12, &buf13, NULL, &alloc13); + if (!SWIG_IsOK(res13)) { + SWIG_exception_fail(SWIG_ArgError(res13), "in method '" "mcell_add_reaction" "', argument " "13"" of type '" "char const *""'"); + } + arg13 = (char *)(buf13); + result = (MCELL_STATUS)mcell_add_reaction(arg1,arg2,arg3,arg4,arg5,arg6,arg7,arg8,arg9,arg10,arg11,(char const *)arg12,(char const *)arg13); + resultobj = SWIG_From_int((int)(result)); + if (alloc12 == SWIG_NEWOBJ) free((char*)buf12); + if (alloc13 == SWIG_NEWOBJ) free((char*)buf13); + return resultobj; +fail: + if (alloc12 == SWIG_NEWOBJ) free((char*)buf12); + if (alloc13 == SWIG_NEWOBJ) free((char*)buf13); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_add_surface_reaction(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_head *arg1 = (struct sym_table_head *) 0 ; + int arg2 ; + struct species *arg3 = (struct species *) 0 ; + struct sym_entry *arg4 = (struct sym_entry *) 0 ; + short arg5 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + short val5 ; + int ecode5 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOOO:mcell_add_surface_reaction",&obj0,&obj1,&obj2,&obj3,&obj4)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_table_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_add_surface_reaction" "', argument " "1"" of type '" "struct sym_table_head *""'"); + } + arg1 = (struct sym_table_head *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_add_surface_reaction" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_species, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_add_surface_reaction" "', argument " "3"" of type '" "struct species *""'"); + } + arg3 = (struct species *)(argp3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "mcell_add_surface_reaction" "', argument " "4"" of type '" "struct sym_entry *""'"); + } + arg4 = (struct sym_entry *)(argp4); + ecode5 = SWIG_AsVal_short(obj4, &val5); + if (!SWIG_IsOK(ecode5)) { + SWIG_exception_fail(SWIG_ArgError(ecode5), "in method '" "mcell_add_surface_reaction" "', argument " "5"" of type '" "short""'"); + } + arg5 = (short)(val5); + result = (MCELL_STATUS)mcell_add_surface_reaction(arg1,arg2,arg3,arg4,arg5); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_add_concentration_clamp(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_head *arg1 = (struct sym_table_head *) 0 ; + struct species *arg2 = (struct species *) 0 ; + struct sym_entry *arg3 = (struct sym_entry *) 0 ; + short arg4 ; + double arg5 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + short val4 ; + int ecode4 = 0 ; + double val5 ; + int ecode5 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOOO:mcell_add_concentration_clamp",&obj0,&obj1,&obj2,&obj3,&obj4)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_table_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_add_concentration_clamp" "', argument " "1"" of type '" "struct sym_table_head *""'"); + } + arg1 = (struct sym_table_head *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_species, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_add_concentration_clamp" "', argument " "2"" of type '" "struct species *""'"); + } + arg2 = (struct species *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_add_concentration_clamp" "', argument " "3"" of type '" "struct sym_entry *""'"); + } + arg3 = (struct sym_entry *)(argp3); + ecode4 = SWIG_AsVal_short(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "mcell_add_concentration_clamp" "', argument " "4"" of type '" "short""'"); + } + arg4 = (short)(val4); + ecode5 = SWIG_AsVal_double(obj4, &val5); + if (!SWIG_IsOK(ecode5)) { + SWIG_exception_fail(SWIG_ArgError(ecode5), "in method '" "mcell_add_concentration_clamp" "', argument " "5"" of type '" "double""'"); + } + arg5 = (double)(val5); + result = (MCELL_STATUS)mcell_add_concentration_clamp(arg1,arg2,arg3,arg4,arg5); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_init_reactions(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"O:init_reactions",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "init_reactions" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (MCELL_STATUS)init_reactions(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_change_reaction_rate(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + char *arg2 = (char *) 0 ; + double arg3 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + double val3 ; + int ecode3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_change_reaction_rate",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_change_reaction_rate" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_change_reaction_rate" "', argument " "2"" of type '" "char const *""'"); + } + arg2 = (char *)(buf2); + ecode3 = SWIG_AsVal_double(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "mcell_change_reaction_rate" "', argument " "3"" of type '" "double""'"); + } + arg3 = (double)(val3); + result = (MCELL_STATUS)mcell_change_reaction_rate(arg1,(char const *)arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_create_reaction_rates(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + int arg1 ; + double arg2 ; + int arg3 ; + double arg4 ; + int val1 ; + int ecode1 = 0 ; + double val2 ; + int ecode2 = 0 ; + int val3 ; + int ecode3 = 0 ; + double val4 ; + int ecode4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + struct reaction_rates result; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:mcell_create_reaction_rates",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + ecode1 = SWIG_AsVal_int(obj0, &val1); + if (!SWIG_IsOK(ecode1)) { + SWIG_exception_fail(SWIG_ArgError(ecode1), "in method '" "mcell_create_reaction_rates" "', argument " "1"" of type '" "int""'"); + } + arg1 = (int)(val1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_create_reaction_rates" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + ecode3 = SWIG_AsVal_int(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "mcell_create_reaction_rates" "', argument " "3"" of type '" "int""'"); + } + arg3 = (int)(val3); + ecode4 = SWIG_AsVal_double(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "mcell_create_reaction_rates" "', argument " "4"" of type '" "double""'"); + } + arg4 = (double)(val4); + result = mcell_create_reaction_rates(arg1,arg2,arg3,arg4); + resultobj = SWIG_NewPointerObj((struct reaction_rates *)memcpy((struct reaction_rates *)malloc(sizeof(struct reaction_rates)),&result,sizeof(struct reaction_rates)), SWIGTYPE_p_reaction_rates, SWIG_POINTER_OWN | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_new_rxn_pathname(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct volume *arg1 = (struct volume *) 0 ; + char *arg2 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_new_rxn_pathname",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_new_rxn_pathname" "', argument " "1"" of type '" "struct volume *""'"); + } + arg1 = (struct volume *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_new_rxn_pathname" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + result = (struct sym_entry *)mcell_new_rxn_pathname(arg1,arg2); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, 0 | 0 ); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_create_list_release_site(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct object *arg2 = (struct object *) 0 ; + char *arg3 = (char *) 0 ; + struct mcell_species *arg4 = (struct mcell_species *) 0 ; + double *arg5 = (double *) 0 ; + double *arg6 = (double *) 0 ; + double *arg7 = (double *) 0 ; + int arg8 ; + struct vector3 *arg9 = (struct vector3 *) 0 ; + struct object **arg10 = (struct object **) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + int res3 ; + char *buf3 = 0 ; + int alloc3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + int val8 ; + int ecode8 = 0 ; + void *argp9 = 0 ; + int res9 = 0 ; + struct object *temp10 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + PyObject * obj5 = 0 ; + PyObject * obj6 = 0 ; + PyObject * obj7 = 0 ; + PyObject * obj8 = 0 ; + PyObject * obj9 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOOOOOOOO:mcell_create_list_release_site",&obj0,&obj1,&obj2,&obj3,&obj4,&obj5,&obj6,&obj7,&obj8,&obj9)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_create_list_release_site" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_create_list_release_site" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + res3 = SWIG_AsCharPtrAndSize(obj2, &buf3, NULL, &alloc3); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_create_list_release_site" "', argument " "3"" of type '" "char *""'"); + } + arg3 = (char *)(buf3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "mcell_create_list_release_site" "', argument " "4"" of type '" "struct mcell_species *""'"); + } + arg4 = (struct mcell_species *)(argp4); + { + /* Check if is a list */ + if (PyList_Check(obj4)) + { + int size = PyList_Size(obj4); + int i = 0; + arg5 = (double *) malloc((size+1)*sizeof(double)); + for (i = 0; i < size; i++) + { + PyObject *o = PyList_GetItem(obj4,i); + if (PyFloat_Check(o)) + { + arg5[i] = PyFloat_AsDouble(PyList_GetItem(obj4,i)); + } + else + { + PyErr_SetString(PyExc_TypeError,"list must contain floats"); + free(arg5); + return NULL; + } + } + arg5[i] = 0; + } + else + { + PyErr_SetString(PyExc_TypeError,"not a list"); + return NULL; + } + } + { + /* Check if is a list */ + if (PyList_Check(obj5)) + { + int size = PyList_Size(obj5); + int i = 0; + arg6 = (double *) malloc((size+1)*sizeof(double)); + for (i = 0; i < size; i++) + { + PyObject *o = PyList_GetItem(obj5,i); + if (PyFloat_Check(o)) + { + arg6[i] = PyFloat_AsDouble(PyList_GetItem(obj5,i)); + } + else + { + PyErr_SetString(PyExc_TypeError,"list must contain floats"); + free(arg6); + return NULL; + } + } + arg6[i] = 0; + } + else + { + PyErr_SetString(PyExc_TypeError,"not a list"); + return NULL; + } + } + { + /* Check if is a list */ + if (PyList_Check(obj6)) + { + int size = PyList_Size(obj6); + int i = 0; + arg7 = (double *) malloc((size+1)*sizeof(double)); + for (i = 0; i < size; i++) + { + PyObject *o = PyList_GetItem(obj6,i); + if (PyFloat_Check(o)) + { + arg7[i] = PyFloat_AsDouble(PyList_GetItem(obj6,i)); + } + else + { + PyErr_SetString(PyExc_TypeError,"list must contain floats"); + free(arg7); + return NULL; + } + } + arg7[i] = 0; + } + else + { + PyErr_SetString(PyExc_TypeError,"not a list"); + return NULL; + } + } + ecode8 = SWIG_AsVal_int(obj7, &val8); + if (!SWIG_IsOK(ecode8)) { + SWIG_exception_fail(SWIG_ArgError(ecode8), "in method '" "mcell_create_list_release_site" "', argument " "8"" of type '" "int""'"); + } + arg8 = (int)(val8); + res9 = SWIG_ConvertPtr(obj8, &argp9,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res9)) { + SWIG_exception_fail(SWIG_ArgError(res9), "in method '" "mcell_create_list_release_site" "', argument " "9"" of type '" "struct vector3 *""'"); + } + arg9 = (struct vector3 *)(argp9); + { + arg10 = &temp10; + } + result = (MCELL_STATUS)mcell_create_list_release_site(arg1,arg2,arg3,arg4,arg5,arg6,arg7,arg8,arg9,arg10); + resultobj = SWIG_From_int((int)(result)); + { + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(*arg10), SWIGTYPE_p_object, SWIG_POINTER_OWN); + } + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + { + free(arg5); + } + { + free(arg6); + } + { + free(arg7); + } + return resultobj; +fail: + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + { + free(arg5); + } + { + free(arg6); + } + { + free(arg7); + } + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_create_geometrical_release_site(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct object *arg2 = (struct object *) 0 ; + char *arg3 = (char *) 0 ; + int arg4 ; + struct vector3 *arg5 = (struct vector3 *) 0 ; + struct vector3 *arg6 = (struct vector3 *) 0 ; + struct mcell_species *arg7 = (struct mcell_species *) 0 ; + double arg8 ; + int arg9 ; + double arg10 ; + struct release_pattern *arg11 = (struct release_pattern *) 0 ; + struct object **arg12 = (struct object **) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + int res3 ; + char *buf3 = 0 ; + int alloc3 = 0 ; + int val4 ; + int ecode4 = 0 ; + void *argp5 = 0 ; + int res5 = 0 ; + void *argp6 = 0 ; + int res6 = 0 ; + void *argp7 = 0 ; + int res7 = 0 ; + double val8 ; + int ecode8 = 0 ; + int val9 ; + int ecode9 = 0 ; + double val10 ; + int ecode10 = 0 ; + void *argp11 = 0 ; + int res11 = 0 ; + struct object *temp12 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + PyObject * obj5 = 0 ; + PyObject * obj6 = 0 ; + PyObject * obj7 = 0 ; + PyObject * obj8 = 0 ; + PyObject * obj9 = 0 ; + PyObject * obj10 = 0 ; + PyObject * obj11 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOOOOOOOOOO:mcell_create_geometrical_release_site",&obj0,&obj1,&obj2,&obj3,&obj4,&obj5,&obj6,&obj7,&obj8,&obj9,&obj10,&obj11)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_create_geometrical_release_site" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_create_geometrical_release_site" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + res3 = SWIG_AsCharPtrAndSize(obj2, &buf3, NULL, &alloc3); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_create_geometrical_release_site" "', argument " "3"" of type '" "char *""'"); + } + arg3 = (char *)(buf3); + ecode4 = SWIG_AsVal_int(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "mcell_create_geometrical_release_site" "', argument " "4"" of type '" "int""'"); + } + arg4 = (int)(val4); + res5 = SWIG_ConvertPtr(obj4, &argp5,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res5)) { + SWIG_exception_fail(SWIG_ArgError(res5), "in method '" "mcell_create_geometrical_release_site" "', argument " "5"" of type '" "struct vector3 *""'"); + } + arg5 = (struct vector3 *)(argp5); + res6 = SWIG_ConvertPtr(obj5, &argp6,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res6)) { + SWIG_exception_fail(SWIG_ArgError(res6), "in method '" "mcell_create_geometrical_release_site" "', argument " "6"" of type '" "struct vector3 *""'"); + } + arg6 = (struct vector3 *)(argp6); + res7 = SWIG_ConvertPtr(obj6, &argp7,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res7)) { + SWIG_exception_fail(SWIG_ArgError(res7), "in method '" "mcell_create_geometrical_release_site" "', argument " "7"" of type '" "struct mcell_species *""'"); + } + arg7 = (struct mcell_species *)(argp7); + ecode8 = SWIG_AsVal_double(obj7, &val8); + if (!SWIG_IsOK(ecode8)) { + SWIG_exception_fail(SWIG_ArgError(ecode8), "in method '" "mcell_create_geometrical_release_site" "', argument " "8"" of type '" "double""'"); + } + arg8 = (double)(val8); + ecode9 = SWIG_AsVal_int(obj8, &val9); + if (!SWIG_IsOK(ecode9)) { + SWIG_exception_fail(SWIG_ArgError(ecode9), "in method '" "mcell_create_geometrical_release_site" "', argument " "9"" of type '" "int""'"); + } + arg9 = (int)(val9); + ecode10 = SWIG_AsVal_double(obj9, &val10); + if (!SWIG_IsOK(ecode10)) { + SWIG_exception_fail(SWIG_ArgError(ecode10), "in method '" "mcell_create_geometrical_release_site" "', argument " "10"" of type '" "double""'"); + } + arg10 = (double)(val10); + res11 = SWIG_ConvertPtr(obj10, &argp11,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res11)) { + SWIG_exception_fail(SWIG_ArgError(res11), "in method '" "mcell_create_geometrical_release_site" "', argument " "11"" of type '" "struct release_pattern *""'"); + } + arg11 = (struct release_pattern *)(argp11); + { + arg12 = &temp12; + } + result = (MCELL_STATUS)mcell_create_geometrical_release_site(arg1,arg2,arg3,arg4,arg5,arg6,arg7,arg8,arg9,arg10,arg11,arg12); + resultobj = SWIG_From_int((int)(result)); + { + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(*arg12), SWIGTYPE_p_object, SWIG_POINTER_OWN); + } + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + return resultobj; +fail: + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_start_release_site(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct sym_entry *arg2 = (struct sym_entry *) 0 ; + struct object **arg3 = (struct object **) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_start_release_site",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_start_release_site" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_start_release_site" "', argument " "2"" of type '" "struct sym_entry *""'"); + } + arg2 = (struct sym_entry *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_p_object, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_start_release_site" "', argument " "3"" of type '" "struct object **""'"); + } + arg3 = (struct object **)(argp3); + result = (MCELL_STATUS)mcell_start_release_site(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_finish_release_site(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + struct object **arg2 = (struct object **) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_finish_release_site",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_finish_release_site" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_p_object, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_finish_release_site" "', argument " "2"" of type '" "struct object **""'"); + } + arg2 = (struct object **)(argp2); + result = (MCELL_STATUS)mcell_finish_release_site(arg1,arg2); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_set_release_site_concentration(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_site_obj *arg1 = (struct release_site_obj *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OO:set_release_site_concentration",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_site_obj, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "set_release_site_concentration" "', argument " "1"" of type '" "struct release_site_obj *""'"); + } + arg1 = (struct release_site_obj *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "set_release_site_concentration" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + result = (int)set_release_site_concentration(arg1,arg2); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_create_region_release(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct object *arg2 = (struct object *) 0 ; + struct object *arg3 = (struct object *) 0 ; + char *arg4 = (char *) 0 ; + char *arg5 = (char *) 0 ; + struct mcell_species *arg6 = (struct mcell_species *) 0 ; + double arg7 ; + int arg8 ; + double arg9 ; + struct release_pattern *arg10 = (struct release_pattern *) 0 ; + struct object **arg11 = (struct object **) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + int res4 ; + char *buf4 = 0 ; + int alloc4 = 0 ; + int res5 ; + char *buf5 = 0 ; + int alloc5 = 0 ; + void *argp6 = 0 ; + int res6 = 0 ; + double val7 ; + int ecode7 = 0 ; + int val8 ; + int ecode8 = 0 ; + double val9 ; + int ecode9 = 0 ; + void *argp10 = 0 ; + int res10 = 0 ; + struct object *temp11 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + PyObject * obj5 = 0 ; + PyObject * obj6 = 0 ; + PyObject * obj7 = 0 ; + PyObject * obj8 = 0 ; + PyObject * obj9 = 0 ; + PyObject * obj10 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOOOOOOOOO:mcell_create_region_release",&obj0,&obj1,&obj2,&obj3,&obj4,&obj5,&obj6,&obj7,&obj8,&obj9,&obj10)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_create_region_release" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_create_region_release" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_create_region_release" "', argument " "3"" of type '" "struct object *""'"); + } + arg3 = (struct object *)(argp3); + res4 = SWIG_AsCharPtrAndSize(obj3, &buf4, NULL, &alloc4); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "mcell_create_region_release" "', argument " "4"" of type '" "char *""'"); + } + arg4 = (char *)(buf4); + res5 = SWIG_AsCharPtrAndSize(obj4, &buf5, NULL, &alloc5); + if (!SWIG_IsOK(res5)) { + SWIG_exception_fail(SWIG_ArgError(res5), "in method '" "mcell_create_region_release" "', argument " "5"" of type '" "char *""'"); + } + arg5 = (char *)(buf5); + res6 = SWIG_ConvertPtr(obj5, &argp6,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res6)) { + SWIG_exception_fail(SWIG_ArgError(res6), "in method '" "mcell_create_region_release" "', argument " "6"" of type '" "struct mcell_species *""'"); + } + arg6 = (struct mcell_species *)(argp6); + ecode7 = SWIG_AsVal_double(obj6, &val7); + if (!SWIG_IsOK(ecode7)) { + SWIG_exception_fail(SWIG_ArgError(ecode7), "in method '" "mcell_create_region_release" "', argument " "7"" of type '" "double""'"); + } + arg7 = (double)(val7); + ecode8 = SWIG_AsVal_int(obj7, &val8); + if (!SWIG_IsOK(ecode8)) { + SWIG_exception_fail(SWIG_ArgError(ecode8), "in method '" "mcell_create_region_release" "', argument " "8"" of type '" "int""'"); + } + arg8 = (int)(val8); + ecode9 = SWIG_AsVal_double(obj8, &val9); + if (!SWIG_IsOK(ecode9)) { + SWIG_exception_fail(SWIG_ArgError(ecode9), "in method '" "mcell_create_region_release" "', argument " "9"" of type '" "double""'"); + } + arg9 = (double)(val9); + res10 = SWIG_ConvertPtr(obj9, &argp10,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res10)) { + SWIG_exception_fail(SWIG_ArgError(res10), "in method '" "mcell_create_region_release" "', argument " "10"" of type '" "struct release_pattern *""'"); + } + arg10 = (struct release_pattern *)(argp10); + { + arg11 = &temp11; + } + result = (MCELL_STATUS)mcell_create_region_release(arg1,arg2,arg3,arg4,arg5,arg6,arg7,arg8,arg9,arg10,arg11); + resultobj = SWIG_From_int((int)(result)); + { + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(*arg11), SWIGTYPE_p_object, SWIG_POINTER_OWN); + } + if (alloc4 == SWIG_NEWOBJ) free((char*)buf4); + if (alloc5 == SWIG_NEWOBJ) free((char*)buf5); + return resultobj; +fail: + if (alloc4 == SWIG_NEWOBJ) free((char*)buf4); + if (alloc5 == SWIG_NEWOBJ) free((char*)buf5); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_create_region_release_boolean(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct object *arg2 = (struct object *) 0 ; + char *arg3 = (char *) 0 ; + struct mcell_species *arg4 = (struct mcell_species *) 0 ; + double arg5 ; + int arg6 ; + double arg7 ; + struct release_pattern *arg8 = (struct release_pattern *) 0 ; + struct release_evaluator *arg9 = (struct release_evaluator *) 0 ; + struct object **arg10 = (struct object **) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + int res3 ; + char *buf3 = 0 ; + int alloc3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + double val5 ; + int ecode5 = 0 ; + int val6 ; + int ecode6 = 0 ; + double val7 ; + int ecode7 = 0 ; + void *argp8 = 0 ; + int res8 = 0 ; + void *argp9 = 0 ; + int res9 = 0 ; + struct object *temp10 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + PyObject * obj5 = 0 ; + PyObject * obj6 = 0 ; + PyObject * obj7 = 0 ; + PyObject * obj8 = 0 ; + PyObject * obj9 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOOOOOOOO:mcell_create_region_release_boolean",&obj0,&obj1,&obj2,&obj3,&obj4,&obj5,&obj6,&obj7,&obj8,&obj9)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_create_region_release_boolean" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_create_region_release_boolean" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + res3 = SWIG_AsCharPtrAndSize(obj2, &buf3, NULL, &alloc3); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_create_region_release_boolean" "', argument " "3"" of type '" "char *""'"); + } + arg3 = (char *)(buf3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "mcell_create_region_release_boolean" "', argument " "4"" of type '" "struct mcell_species *""'"); + } + arg4 = (struct mcell_species *)(argp4); + ecode5 = SWIG_AsVal_double(obj4, &val5); + if (!SWIG_IsOK(ecode5)) { + SWIG_exception_fail(SWIG_ArgError(ecode5), "in method '" "mcell_create_region_release_boolean" "', argument " "5"" of type '" "double""'"); + } + arg5 = (double)(val5); + ecode6 = SWIG_AsVal_int(obj5, &val6); + if (!SWIG_IsOK(ecode6)) { + SWIG_exception_fail(SWIG_ArgError(ecode6), "in method '" "mcell_create_region_release_boolean" "', argument " "6"" of type '" "int""'"); + } + arg6 = (int)(val6); + ecode7 = SWIG_AsVal_double(obj6, &val7); + if (!SWIG_IsOK(ecode7)) { + SWIG_exception_fail(SWIG_ArgError(ecode7), "in method '" "mcell_create_region_release_boolean" "', argument " "7"" of type '" "double""'"); + } + arg7 = (double)(val7); + res8 = SWIG_ConvertPtr(obj7, &argp8,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res8)) { + SWIG_exception_fail(SWIG_ArgError(res8), "in method '" "mcell_create_region_release_boolean" "', argument " "8"" of type '" "struct release_pattern *""'"); + } + arg8 = (struct release_pattern *)(argp8); + res9 = SWIG_ConvertPtr(obj8, &argp9,SWIGTYPE_p_release_evaluator, 0 | 0 ); + if (!SWIG_IsOK(res9)) { + SWIG_exception_fail(SWIG_ArgError(res9), "in method '" "mcell_create_region_release_boolean" "', argument " "9"" of type '" "struct release_evaluator *""'"); + } + arg9 = (struct release_evaluator *)(argp9); + { + arg10 = &temp10; + } + result = (MCELL_STATUS)mcell_create_region_release_boolean(arg1,arg2,arg3,arg4,arg5,arg6,arg7,arg8,arg9,arg10); + resultobj = SWIG_From_int((int)(result)); + { + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(*arg10), SWIGTYPE_p_object, SWIG_POINTER_OWN); + } + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + return resultobj; +fail: + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_create_release_pattern(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + char *arg2 = (char *) 0 ; + double arg3 ; + double arg4 ; + double arg5 ; + double arg6 ; + int arg7 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + double val3 ; + int ecode3 = 0 ; + double val4 ; + int ecode4 = 0 ; + double val5 ; + int ecode5 = 0 ; + double val6 ; + int ecode6 = 0 ; + int val7 ; + int ecode7 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + PyObject * obj5 = 0 ; + PyObject * obj6 = 0 ; + struct release_pattern *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOOOOOO:mcell_create_release_pattern",&obj0,&obj1,&obj2,&obj3,&obj4,&obj5,&obj6)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_create_release_pattern" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_create_release_pattern" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + ecode3 = SWIG_AsVal_double(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "mcell_create_release_pattern" "', argument " "3"" of type '" "double""'"); + } + arg3 = (double)(val3); + ecode4 = SWIG_AsVal_double(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "mcell_create_release_pattern" "', argument " "4"" of type '" "double""'"); + } + arg4 = (double)(val4); + ecode5 = SWIG_AsVal_double(obj4, &val5); + if (!SWIG_IsOK(ecode5)) { + SWIG_exception_fail(SWIG_ArgError(ecode5), "in method '" "mcell_create_release_pattern" "', argument " "5"" of type '" "double""'"); + } + arg5 = (double)(val5); + ecode6 = SWIG_AsVal_double(obj5, &val6); + if (!SWIG_IsOK(ecode6)) { + SWIG_exception_fail(SWIG_ArgError(ecode6), "in method '" "mcell_create_release_pattern" "', argument " "6"" of type '" "double""'"); + } + arg6 = (double)(val6); + ecode7 = SWIG_AsVal_int(obj6, &val7); + if (!SWIG_IsOK(ecode7)) { + SWIG_exception_fail(SWIG_ArgError(ecode7), "in method '" "mcell_create_release_pattern" "', argument " "7"" of type '" "int""'"); + } + arg7 = (int)(val7); + result = (struct release_pattern *)mcell_create_release_pattern(arg1,arg2,arg3,arg4,arg5,arg6,arg7); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_release_pattern, 0 | 0 ); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_set_release_site_geometry_region(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct release_site_obj *arg2 = (struct release_site_obj *) 0 ; + struct object *arg3 = (struct object *) 0 ; + struct release_evaluator *arg4 = (struct release_evaluator *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:mcell_set_release_site_geometry_region",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_set_release_site_geometry_region" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_release_site_obj, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_set_release_site_geometry_region" "', argument " "2"" of type '" "struct release_site_obj *""'"); + } + arg2 = (struct release_site_obj *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_set_release_site_geometry_region" "', argument " "3"" of type '" "struct object *""'"); + } + arg3 = (struct object *)(argp3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_release_evaluator, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "mcell_set_release_site_geometry_region" "', argument " "4"" of type '" "struct release_evaluator *""'"); + } + arg4 = (struct release_evaluator *)(argp4); + result = (int)mcell_set_release_site_geometry_region(arg1,arg2,arg3,arg4); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_check_release_regions(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_evaluator *arg1 = (struct release_evaluator *) 0 ; + struct object *arg2 = (struct object *) 0 ; + struct object *arg3 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:check_release_regions",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_evaluator, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "check_release_regions" "', argument " "1"" of type '" "struct release_evaluator *""'"); + } + arg1 = (struct release_evaluator *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "check_release_regions" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "check_release_regions" "', argument " "3"" of type '" "struct object *""'"); + } + arg3 = (struct object *)(argp3); + result = (int)check_release_regions(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_is_release_site_valid(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_site_obj *arg1 = (struct release_site_obj *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:is_release_site_valid",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_site_obj, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "is_release_site_valid" "', argument " "1"" of type '" "struct release_site_obj *""'"); + } + arg1 = (struct release_site_obj *)(argp1); + result = (int)is_release_site_valid(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_release_region_expr_term(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct release_evaluator *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:new_release_region_expr_term",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "new_release_region_expr_term" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + result = (struct release_evaluator *)new_release_region_expr_term(arg1); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_release_evaluator, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_set_release_site_constant_number(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_site_obj *arg1 = (struct release_site_obj *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:set_release_site_constant_number",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_site_obj, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "set_release_site_constant_number" "', argument " "1"" of type '" "struct release_site_obj *""'"); + } + arg1 = (struct release_site_obj *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "set_release_site_constant_number" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + set_release_site_constant_number(arg1,arg2); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_set_release_site_gaussian_number(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_site_obj *arg1 = (struct release_site_obj *) 0 ; + double arg2 ; + double arg3 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + double val3 ; + int ecode3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOO:set_release_site_gaussian_number",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_site_obj, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "set_release_site_gaussian_number" "', argument " "1"" of type '" "struct release_site_obj *""'"); + } + arg1 = (struct release_site_obj *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "set_release_site_gaussian_number" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + ecode3 = SWIG_AsVal_double(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "set_release_site_gaussian_number" "', argument " "3"" of type '" "double""'"); + } + arg3 = (double)(val3); + set_release_site_gaussian_number(arg1,arg2,arg3); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_release_region_expr_binary(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_evaluator *arg1 = (struct release_evaluator *) 0 ; + struct release_evaluator *arg2 = (struct release_evaluator *) 0 ; + int arg3 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + int val3 ; + int ecode3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + struct release_evaluator *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOO:new_release_region_expr_binary",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_evaluator, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "new_release_region_expr_binary" "', argument " "1"" of type '" "struct release_evaluator *""'"); + } + arg1 = (struct release_evaluator *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_release_evaluator, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "new_release_region_expr_binary" "', argument " "2"" of type '" "struct release_evaluator *""'"); + } + arg2 = (struct release_evaluator *)(argp2); + ecode3 = SWIG_AsVal_int(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "new_release_region_expr_binary" "', argument " "3"" of type '" "int""'"); + } + arg3 = (int)(val3); + result = (struct release_evaluator *)new_release_region_expr_binary(arg1,arg2,arg3); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_release_evaluator, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_set_release_site_location(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct release_site_obj *arg2 = (struct release_site_obj *) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOO:set_release_site_location",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "set_release_site_location" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_release_site_obj, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "set_release_site_location" "', argument " "2"" of type '" "struct release_site_obj *""'"); + } + arg2 = (struct release_site_obj *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "set_release_site_location" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + set_release_site_location(arg1,arg2,arg3); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_existing_region(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct sym_entry *arg2 = (struct sym_entry *) 0 ; + char *arg3 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + int res3 ; + char *buf3 = 0 ; + int alloc3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOO:existing_region",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "existing_region" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "existing_region" "', argument " "2"" of type '" "struct sym_entry *""'"); + } + arg2 = (struct sym_entry *)(argp2); + res3 = SWIG_AsCharPtrAndSize(obj2, &buf3, NULL, &alloc3); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "existing_region" "', argument " "3"" of type '" "char *""'"); + } + arg3 = (char *)(buf3); + result = (struct sym_entry *)existing_region(arg1,arg2,arg3); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, 0 | 0 ); + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + return resultobj; +fail: + if (alloc3 == SWIG_NEWOBJ) free((char*)buf3); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_symbol_next_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + struct sym_entry *arg2 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_symbol_next_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_symbol_next_set" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_sym_entry, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_symbol_next_set" "', argument " "2"" of type '" "struct sym_entry *""'"); + } + arg2 = (struct sym_entry *)(argp2); + if (arg1) (arg1)->next = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_symbol_next_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_symbol_next_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_symbol_next_get" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + result = (struct sym_entry *) ((arg1)->next); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_symbol_sym_type_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_symbol_sym_type_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_symbol_sym_type_set" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_symbol_sym_type_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->sym_type = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_symbol_sym_type_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_symbol_sym_type_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_symbol_sym_type_get" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + result = (int) ((arg1)->sym_type); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_symbol_name_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + char *arg2 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_symbol_name_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_symbol_name_set" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_symbol_name_set" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + if (arg1->name) free((char*)arg1->name); + if (arg2) { + size_t size = strlen((const char *)(arg2)) + 1; + arg1->name = (char *)(char *)memcpy((char *)malloc((size)*sizeof(char)), (const char *)(arg2), sizeof(char)*(size)); + } else { + arg1->name = 0; + } + resultobj = SWIG_Py_Void(); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_symbol_name_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + char *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_symbol_name_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_symbol_name_get" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + result = (char *) ((arg1)->name); + resultobj = SWIG_FromCharPtr((const char *)result); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_symbol_value_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + void *arg2 = (void *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_symbol_value_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_symbol_value_set" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + res2 = SWIG_ConvertPtr(obj1,SWIG_as_voidptrptr(&arg2), 0, SWIG_POINTER_DISOWN); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_symbol_value_set" "', argument " "2"" of type '" "void *""'"); + } + if (arg1) (arg1)->value = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_symbol_value_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + void *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_symbol_value_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_symbol_value_get" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + result = (void *) ((arg1)->value); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_void, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_mcell_symbol(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_mcell_symbol")) SWIG_fail; + result = (struct sym_entry *)calloc(1, sizeof(struct sym_entry)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_mcell_symbol(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_mcell_symbol",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_mcell_symbol" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *mcell_symbol_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_sym_entry, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_mcell_species_spec_name_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + char *arg2 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_species_spec_name_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_spec_name_set" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_species_spec_name_set" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + if (arg1->name) free((char*)arg1->name); + if (arg2) { + size_t size = strlen((const char *)(arg2)) + 1; + arg1->name = (char *)(char *)memcpy((char *)malloc((size)*sizeof(char)), (const char *)(arg2), sizeof(char)*(size)); + } else { + arg1->name = 0; + } + resultobj = SWIG_Py_Void(); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_spec_name_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + char *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_species_spec_name_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_spec_name_get" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + result = (char *) ((arg1)->name); + resultobj = SWIG_FromCharPtr((const char *)result); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_spec_D_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_species_spec_D_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_spec_D_set" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_species_spec_D_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->D = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_spec_D_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_species_spec_D_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_spec_D_get" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + result = (double) ((arg1)->D); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_spec_is_2d_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_species_spec_is_2d_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_spec_is_2d_set" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_species_spec_is_2d_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->is_2d = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_spec_is_2d_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_species_spec_is_2d_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_spec_is_2d_get" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + result = (int) ((arg1)->is_2d); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_spec_custom_time_step_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_species_spec_custom_time_step_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_spec_custom_time_step_set" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_species_spec_custom_time_step_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->custom_time_step = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_spec_custom_time_step_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_species_spec_custom_time_step_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_spec_custom_time_step_get" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + result = (double) ((arg1)->custom_time_step); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_spec_target_only_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_species_spec_target_only_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_spec_target_only_set" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_species_spec_target_only_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->target_only = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_spec_target_only_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_species_spec_target_only_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_spec_target_only_get" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + result = (int) ((arg1)->target_only); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_spec_max_step_length_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_species_spec_max_step_length_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_spec_max_step_length_set" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_species_spec_max_step_length_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->max_step_length = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_spec_max_step_length_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_species_spec_max_step_length_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_spec_max_step_length_get" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + result = (double) ((arg1)->max_step_length); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_spec_space_step_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_species_spec_space_step_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_spec_space_step_set" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_species_spec_space_step_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->space_step = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_spec_space_step_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_species_spec_space_step_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_spec_space_step_get" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + result = (double) ((arg1)->space_step); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_mcell_species_spec(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_mcell_species_spec")) SWIG_fail; + result = (struct mcell_species_spec *)calloc(1, sizeof(struct mcell_species_spec)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_mcell_species_spec, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_mcell_species_spec(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_spec *arg1 = (struct mcell_species_spec *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_mcell_species_spec",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_spec, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_mcell_species_spec" "', argument " "1"" of type '" "struct mcell_species_spec *""'"); + } + arg1 = (struct mcell_species_spec *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *mcell_species_spec_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_mcell_species_spec, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_mcell_species_next_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species *arg1 = (struct mcell_species *) 0 ; + struct mcell_species *arg2 = (struct mcell_species *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_species_next_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_next_set" "', argument " "1"" of type '" "struct mcell_species *""'"); + } + arg1 = (struct mcell_species *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_mcell_species, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_species_next_set" "', argument " "2"" of type '" "struct mcell_species *""'"); + } + arg2 = (struct mcell_species *)(argp2); + if (arg1) (arg1)->next = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_next_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species *arg1 = (struct mcell_species *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct mcell_species *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_species_next_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_next_get" "', argument " "1"" of type '" "struct mcell_species *""'"); + } + arg1 = (struct mcell_species *)(argp1); + result = (struct mcell_species *) ((arg1)->next); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_mcell_species, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_mol_type_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species *arg1 = (struct mcell_species *) 0 ; + struct sym_entry *arg2 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_species_mol_type_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_mol_type_set" "', argument " "1"" of type '" "struct mcell_species *""'"); + } + arg1 = (struct mcell_species *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_sym_entry, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_species_mol_type_set" "', argument " "2"" of type '" "struct sym_entry *""'"); + } + arg2 = (struct sym_entry *)(argp2); + if (arg1) (arg1)->mol_type = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_mol_type_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species *arg1 = (struct mcell_species *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_species_mol_type_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_mol_type_get" "', argument " "1"" of type '" "struct mcell_species *""'"); + } + arg1 = (struct mcell_species *)(argp1); + result = (struct sym_entry *) ((arg1)->mol_type); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_orient_set_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species *arg1 = (struct mcell_species *) 0 ; + short arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + short val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_species_orient_set_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_orient_set_set" "', argument " "1"" of type '" "struct mcell_species *""'"); + } + arg1 = (struct mcell_species *)(argp1); + ecode2 = SWIG_AsVal_short(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_species_orient_set_set" "', argument " "2"" of type '" "short""'"); + } + arg2 = (short)(val2); + if (arg1) (arg1)->orient_set = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_orient_set_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species *arg1 = (struct mcell_species *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + short result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_species_orient_set_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_orient_set_get" "', argument " "1"" of type '" "struct mcell_species *""'"); + } + arg1 = (struct mcell_species *)(argp1); + result = (short) ((arg1)->orient_set); + resultobj = SWIG_From_short((short)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_orient_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species *arg1 = (struct mcell_species *) 0 ; + short arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + short val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_species_orient_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_orient_set" "', argument " "1"" of type '" "struct mcell_species *""'"); + } + arg1 = (struct mcell_species *)(argp1); + ecode2 = SWIG_AsVal_short(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_species_orient_set" "', argument " "2"" of type '" "short""'"); + } + arg2 = (short)(val2); + if (arg1) (arg1)->orient = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_orient_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species *arg1 = (struct mcell_species *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + short result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_species_orient_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_orient_get" "', argument " "1"" of type '" "struct mcell_species *""'"); + } + arg1 = (struct mcell_species *)(argp1); + result = (short) ((arg1)->orient); + resultobj = SWIG_From_short((short)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_mcell_species(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_mcell_species")) SWIG_fail; + result = (struct mcell_species *)calloc(1, sizeof(struct mcell_species)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_mcell_species, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_mcell_species(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species *arg1 = (struct mcell_species *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_mcell_species",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_mcell_species" "', argument " "1"" of type '" "struct mcell_species *""'"); + } + arg1 = (struct mcell_species *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *mcell_species_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_mcell_species, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_mcell_species_list_mol_type_head_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_list *arg1 = (struct mcell_species_list *) 0 ; + struct mcell_species *arg2 = (struct mcell_species *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_species_list_mol_type_head_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_list_mol_type_head_set" "', argument " "1"" of type '" "struct mcell_species_list *""'"); + } + arg1 = (struct mcell_species_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_mcell_species, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_species_list_mol_type_head_set" "', argument " "2"" of type '" "struct mcell_species *""'"); + } + arg2 = (struct mcell_species *)(argp2); + if (arg1) (arg1)->mol_type_head = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_list_mol_type_head_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_list *arg1 = (struct mcell_species_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct mcell_species *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_species_list_mol_type_head_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_list_mol_type_head_get" "', argument " "1"" of type '" "struct mcell_species_list *""'"); + } + arg1 = (struct mcell_species_list *)(argp1); + result = (struct mcell_species *) ((arg1)->mol_type_head); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_mcell_species, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_list_mol_type_tail_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_list *arg1 = (struct mcell_species_list *) 0 ; + struct mcell_species *arg2 = (struct mcell_species *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_species_list_mol_type_tail_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_list_mol_type_tail_set" "', argument " "1"" of type '" "struct mcell_species_list *""'"); + } + arg1 = (struct mcell_species_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_mcell_species, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_species_list_mol_type_tail_set" "', argument " "2"" of type '" "struct mcell_species *""'"); + } + arg2 = (struct mcell_species *)(argp2); + if (arg1) (arg1)->mol_type_tail = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_species_list_mol_type_tail_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_list *arg1 = (struct mcell_species_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct mcell_species *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_species_list_mol_type_tail_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_species_list_mol_type_tail_get" "', argument " "1"" of type '" "struct mcell_species_list *""'"); + } + arg1 = (struct mcell_species_list *)(argp1); + result = (struct mcell_species *) ((arg1)->mol_type_tail); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_mcell_species, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_mcell_species_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_mcell_species_list")) SWIG_fail; + result = (struct mcell_species_list *)calloc(1, sizeof(struct mcell_species_list)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_mcell_species_list, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_mcell_species_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species_list *arg1 = (struct mcell_species_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_mcell_species_list",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_mcell_species_list" "', argument " "1"" of type '" "struct mcell_species_list *""'"); + } + arg1 = (struct mcell_species_list *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *mcell_species_list_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_mcell_species_list, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_mcell_create_species(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct mcell_species_spec *arg2 = (struct mcell_species_spec *) 0 ; + mcell_symbol **arg3 = (mcell_symbol **) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + mcell_symbol *temp3 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_create_species",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_create_species" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_mcell_species_spec, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_create_species" "', argument " "2"" of type '" "struct mcell_species_spec *""'"); + } + arg2 = (struct mcell_species_spec *)(argp2); + { + arg3 = &temp3; + } + result = (MCELL_STATUS)mcell_create_species(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + { + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(*arg3), SWIGTYPE_p_sym_entry, SWIG_POINTER_OWN); + } + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_add_to_species_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + mcell_symbol *arg1 = (mcell_symbol *) 0 ; + bool arg2 ; + int arg3 ; + struct mcell_species *arg4 = (struct mcell_species *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + bool val2 ; + int ecode2 = 0 ; + int val3 ; + int ecode3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + struct mcell_species *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:mcell_add_to_species_list",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_add_to_species_list" "', argument " "1"" of type '" "mcell_symbol *""'"); + } + arg1 = (mcell_symbol *)(argp1); + ecode2 = SWIG_AsVal_bool(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_add_to_species_list" "', argument " "2"" of type '" "bool""'"); + } + arg2 = (bool)(val2); + ecode3 = SWIG_AsVal_int(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "mcell_add_to_species_list" "', argument " "3"" of type '" "int""'"); + } + arg3 = (int)(val3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "mcell_add_to_species_list" "', argument " "4"" of type '" "struct mcell_species *""'"); + } + arg4 = (struct mcell_species *)(argp4); + result = (struct mcell_species *)mcell_add_to_species_list(arg1,arg2,arg3,arg4); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_mcell_species, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_delete_species_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mcell_species *arg1 = (struct mcell_species *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_delete_species_list",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_delete_species_list" "', argument " "1"" of type '" "struct mcell_species *""'"); + } + arg1 = (struct mcell_species *)(argp1); + mcell_delete_species_list(arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_mol_species(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + char *arg2 = (char *) 0 ; + struct sym_entry **arg3 = (struct sym_entry **) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:new_mol_species",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "new_mol_species" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "new_mol_species" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "new_mol_species" "', argument " "3"" of type '" "struct sym_entry **""'"); + } + arg3 = (struct sym_entry **)(argp3); + result = (int)new_mol_species(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_create_viz_output(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + char *arg2 = (char *) 0 ; + struct mcell_species *arg3 = (struct mcell_species *) 0 ; + long long arg4 ; + long long arg5 ; + long long arg6 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + long long val4 ; + int ecode4 = 0 ; + long long val5 ; + int ecode5 = 0 ; + long long val6 ; + int ecode6 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + PyObject * obj5 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOOOO:mcell_create_viz_output",&obj0,&obj1,&obj2,&obj3,&obj4,&obj5)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_create_viz_output" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_create_viz_output" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_create_viz_output" "', argument " "3"" of type '" "struct mcell_species *""'"); + } + arg3 = (struct mcell_species *)(argp3); + ecode4 = SWIG_AsVal_long_SS_long(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "mcell_create_viz_output" "', argument " "4"" of type '" "long long""'"); + } + arg4 = (long long)(val4); + ecode5 = SWIG_AsVal_long_SS_long(obj4, &val5); + if (!SWIG_IsOK(ecode5)) { + SWIG_exception_fail(SWIG_ArgError(ecode5), "in method '" "mcell_create_viz_output" "', argument " "5"" of type '" "long long""'"); + } + arg5 = (long long)(val5); + ecode6 = SWIG_AsVal_long_SS_long(obj5, &val6); + if (!SWIG_IsOK(ecode6)) { + SWIG_exception_fail(SWIG_ArgError(ecode6), "in method '" "mcell_create_viz_output" "', argument " "6"" of type '" "long long""'"); + } + arg6 = (long long)(val6); + result = (MCELL_STATUS)mcell_create_viz_output(arg1,arg2,arg3,arg4,arg5,arg6); + resultobj = SWIG_From_int((int)(result)); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_new_viz_output_block(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct viz_output_block *arg1 = (struct viz_output_block *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_new_viz_output_block",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_viz_output_block, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_new_viz_output_block" "', argument " "1"" of type '" "struct viz_output_block *""'"); + } + arg1 = (struct viz_output_block *)(argp1); + mcell_new_viz_output_block(arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_create_viz_frame(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + int arg1 ; + int arg2 ; + struct num_expr_list *arg3 = (struct num_expr_list *) 0 ; + int val1 ; + int ecode1 = 0 ; + int val2 ; + int ecode2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + struct frame_data_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_create_viz_frame",&obj0,&obj1,&obj2)) SWIG_fail; + ecode1 = SWIG_AsVal_int(obj0, &val1); + if (!SWIG_IsOK(ecode1)) { + SWIG_exception_fail(SWIG_ArgError(ecode1), "in method '" "mcell_create_viz_frame" "', argument " "1"" of type '" "int""'"); + } + arg1 = (int)(val1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_create_viz_frame" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_num_expr_list, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_create_viz_frame" "', argument " "3"" of type '" "struct num_expr_list *""'"); + } + arg3 = (struct num_expr_list *)(argp3); + result = (struct frame_data_list *)mcell_create_viz_frame(arg1,arg2,arg3); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_frame_data_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_set_molecule_viz_state(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct viz_output_block *arg1 = (struct viz_output_block *) 0 ; + struct species *arg2 = (struct species *) 0 ; + int arg3 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + int val3 ; + int ecode3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_set_molecule_viz_state",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_viz_output_block, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_set_molecule_viz_state" "', argument " "1"" of type '" "struct viz_output_block *""'"); + } + arg1 = (struct viz_output_block *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_species, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_set_molecule_viz_state" "', argument " "2"" of type '" "struct species *""'"); + } + arg2 = (struct species *)(argp2); + ecode3 = SWIG_AsVal_int(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "mcell_set_molecule_viz_state" "', argument " "3"" of type '" "int""'"); + } + arg3 = (int)(val3); + result = (int)mcell_set_molecule_viz_state(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_add_surf_class_properties(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + int arg2 ; + mcell_symbol *arg3 = (mcell_symbol *) 0 ; + mcell_symbol *arg4 = (mcell_symbol *) 0 ; + short arg5 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + short val5 ; + int ecode5 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOOO:mcell_add_surf_class_properties",&obj0,&obj1,&obj2,&obj3,&obj4)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_add_surf_class_properties" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_add_surf_class_properties" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_add_surf_class_properties" "', argument " "3"" of type '" "mcell_symbol *""'"); + } + arg3 = (mcell_symbol *)(argp3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "mcell_add_surf_class_properties" "', argument " "4"" of type '" "mcell_symbol *""'"); + } + arg4 = (mcell_symbol *)(argp4); + ecode5 = SWIG_AsVal_short(obj4, &val5); + if (!SWIG_IsOK(ecode5)) { + SWIG_exception_fail(SWIG_ArgError(ecode5), "in method '" "mcell_add_surf_class_properties" "', argument " "5"" of type '" "short""'"); + } + arg5 = (short)(val5); + result = (MCELL_STATUS)mcell_add_surf_class_properties(arg1,arg2,arg3,arg4,arg5); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_create_surf_class(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + char *arg2 = (char *) 0 ; + mcell_symbol **arg3 = (mcell_symbol **) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + mcell_symbol *temp3 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_create_surf_class",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_create_surf_class" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_create_surf_class" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + { + arg3 = &temp3; + } + result = (MCELL_STATUS)mcell_create_surf_class(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + { + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(*arg3), SWIGTYPE_p_sym_entry, SWIG_POINTER_OWN); + } + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_add_mol_release_to_surf_class(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + struct sym_entry *arg2 = (struct sym_entry *) 0 ; + struct mcell_species *arg3 = (struct mcell_species *) 0 ; + double arg4 ; + int arg5 ; + struct sm_dat *arg6 = (struct sm_dat *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + double val4 ; + int ecode4 = 0 ; + int val5 ; + int ecode5 = 0 ; + void *argp6 = 0 ; + int res6 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + PyObject * obj5 = 0 ; + struct sm_dat *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOOOOO:mcell_add_mol_release_to_surf_class",&obj0,&obj1,&obj2,&obj3,&obj4,&obj5)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_add_mol_release_to_surf_class" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_add_mol_release_to_surf_class" "', argument " "2"" of type '" "struct sym_entry *""'"); + } + arg2 = (struct sym_entry *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_mcell_species, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mcell_add_mol_release_to_surf_class" "', argument " "3"" of type '" "struct mcell_species *""'"); + } + arg3 = (struct mcell_species *)(argp3); + ecode4 = SWIG_AsVal_double(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "mcell_add_mol_release_to_surf_class" "', argument " "4"" of type '" "double""'"); + } + arg4 = (double)(val4); + ecode5 = SWIG_AsVal_int(obj4, &val5); + if (!SWIG_IsOK(ecode5)) { + SWIG_exception_fail(SWIG_ArgError(ecode5), "in method '" "mcell_add_mol_release_to_surf_class" "', argument " "5"" of type '" "int""'"); + } + arg5 = (int)(val5); + res6 = SWIG_ConvertPtr(obj5, &argp6,SWIGTYPE_p_sm_dat, 0 | 0 ); + if (!SWIG_IsOK(res6)) { + SWIG_exception_fail(SWIG_ArgError(res6), "in method '" "mcell_add_mol_release_to_surf_class" "', argument " "6"" of type '" "struct sm_dat *""'"); + } + arg6 = (struct sm_dat *)(argp6); + result = (struct sm_dat *)mcell_add_mol_release_to_surf_class(arg1,arg2,arg3,arg4,arg5,arg6); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sm_dat, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_assign_surf_class_to_region(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + struct region *arg2 = (struct region *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_assign_surf_class_to_region",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_assign_surf_class_to_region" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_region, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_assign_surf_class_to_region" "', argument " "2"" of type '" "struct region *""'"); + } + arg2 = (struct region *)(argp2); + result = (MCELL_STATUS)mcell_assign_surf_class_to_region(arg1,arg2); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_run_simulation(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_run_simulation",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_run_simulation" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (MCELL_STATUS)mcell_run_simulation(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_run_n_iterations(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + long long arg2 ; + int *arg3 = (int *) 0 ; + int arg4 ; + void *argp1 = 0 ; + int res1 = 0 ; + long long val2 ; + int ecode2 = 0 ; + int temp3 ; + int res3 = 0 ; + int val4 ; + int ecode4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:mcell_run_n_iterations",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_run_n_iterations" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + ecode2 = SWIG_AsVal_long_SS_long(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_run_n_iterations" "', argument " "2"" of type '" "long long""'"); + } + arg2 = (long long)(val2); + if (!(SWIG_IsOK((res3 = SWIG_ConvertPtr(obj2,SWIG_as_voidptrptr(&arg3),SWIGTYPE_p_int,0))))) { + int val; + int ecode = SWIG_AsVal_int(obj2, &val); + if (!SWIG_IsOK(ecode)) { + SWIG_exception_fail(SWIG_ArgError(ecode), "in method '" "mcell_run_n_iterations" "', argument " "3"" of type '" "int""'"); + } + temp3 = (int)(val); + arg3 = &temp3; + res3 = SWIG_AddTmpMask(ecode); + } + ecode4 = SWIG_AsVal_int(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "mcell_run_n_iterations" "', argument " "4"" of type '" "int""'"); + } + arg4 = (int)(val4); + result = (MCELL_STATUS)mcell_run_n_iterations(arg1,arg2,arg3,arg4); + resultobj = SWIG_From_int((int)(result)); + if (SWIG_IsNewObj(res3)) free((char*)arg3); + return resultobj; +fail: + if (SWIG_IsNewObj(res3)) free((char*)arg3); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_run_iteration(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + long long arg2 ; + int *arg3 = (int *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + long long val2 ; + int ecode2 = 0 ; + int temp3 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:mcell_run_iteration",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_run_iteration" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + ecode2 = SWIG_AsVal_long_SS_long(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "mcell_run_iteration" "', argument " "2"" of type '" "long long""'"); + } + arg2 = (long long)(val2); + if (!(SWIG_IsOK((res3 = SWIG_ConvertPtr(obj2,SWIG_as_voidptrptr(&arg3),SWIGTYPE_p_int,0))))) { + int val; + int ecode = SWIG_AsVal_int(obj2, &val); + if (!SWIG_IsOK(ecode)) { + SWIG_exception_fail(SWIG_ArgError(ecode), "in method '" "mcell_run_iteration" "', argument " "3"" of type '" "int""'"); + } + temp3 = (int)(val); + arg3 = &temp3; + res3 = SWIG_AddTmpMask(ecode); + } + result = (MCELL_STATUS)mcell_run_iteration(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + if (SWIG_IsNewObj(res3)) free((char*)arg3); + return resultobj; +fail: + if (SWIG_IsNewObj(res3)) free((char*)arg3); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_flush_data(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_flush_data",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_flush_data" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (MCELL_STATUS)mcell_flush_data(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_print_final_warnings(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_print_final_warnings",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_print_final_warnings" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (MCELL_STATUS)mcell_print_final_warnings(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mcell_print_final_statistics(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + MCELL_STATE *arg1 = (MCELL_STATE *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + MCELL_STATUS result; + + if (!PyArg_ParseTuple(args,(char *)"O:mcell_print_final_statistics",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_print_final_statistics" "', argument " "1"" of type '" "MCELL_STATE *""'"); + } + arg1 = (MCELL_STATE *)(argp1); + result = (MCELL_STATUS)mcell_print_final_statistics(arg1); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_next_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + struct object *arg2 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_next_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_next_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_next_set" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + if (arg1) (arg1)->next = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_next_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct object *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_next_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_next_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (struct object *) ((arg1)->next); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_object, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_parent_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + struct object *arg2 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_parent_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_parent_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_parent_set" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + if (arg1) (arg1)->parent = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_parent_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct object *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_parent_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_parent_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (struct object *) ((arg1)->parent); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_object, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_first_child_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + struct object *arg2 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_first_child_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_first_child_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_first_child_set" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + if (arg1) (arg1)->first_child = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_first_child_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct object *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_first_child_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_first_child_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (struct object *) ((arg1)->first_child); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_object, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_last_child_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + struct object *arg2 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_last_child_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_last_child_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_object, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_last_child_set" "', argument " "2"" of type '" "struct object *""'"); + } + arg2 = (struct object *)(argp2); + if (arg1) (arg1)->last_child = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_last_child_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct object *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_last_child_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_last_child_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (struct object *) ((arg1)->last_child); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_object, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_sym_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + struct sym_entry *arg2 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_sym_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_sym_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_sym_entry, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_sym_set" "', argument " "2"" of type '" "struct sym_entry *""'"); + } + arg2 = (struct sym_entry *)(argp2); + if (arg1) (arg1)->sym = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_sym_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_sym_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_sym_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (struct sym_entry *) ((arg1)->sym); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_last_name_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + char *arg2 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_last_name_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_last_name_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_last_name_set" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + if (arg1->last_name) free((char*)arg1->last_name); + if (arg2) { + size_t size = strlen((const char *)(arg2)) + 1; + arg1->last_name = (char *)(char *)memcpy((char *)malloc((size)*sizeof(char)), (const char *)(arg2), sizeof(char)*(size)); + } else { + arg1->last_name = 0; + } + resultobj = SWIG_Py_Void(); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_last_name_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + char *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_last_name_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_last_name_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (char *) ((arg1)->last_name); + resultobj = SWIG_FromCharPtr((const char *)result); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_object_type_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + enum object_type_t arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_object_type_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_object_type_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "object_object_type_set" "', argument " "2"" of type '" "enum object_type_t""'"); + } + arg2 = (enum object_type_t)(val2); + if (arg1) (arg1)->object_type = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_object_type_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + enum object_type_t result; + + if (!PyArg_ParseTuple(args,(char *)"O:object_object_type_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_object_type_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (enum object_type_t) ((arg1)->object_type); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_contents_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *arg2 = (void *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_contents_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_contents_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + res2 = SWIG_ConvertPtr(obj1,SWIG_as_voidptrptr(&arg2), 0, SWIG_POINTER_DISOWN); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_contents_set" "', argument " "2"" of type '" "void *""'"); + } + if (arg1) (arg1)->contents = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_contents_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + void *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_contents_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_contents_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (void *) ((arg1)->contents); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_void, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_num_regions_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + u_int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_num_regions_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_num_regions_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + { + res2 = SWIG_ConvertPtr(obj1, &argp2, SWIGTYPE_p_u_int, 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_num_regions_set" "', argument " "2"" of type '" "u_int""'"); + } + if (!argp2) { + SWIG_exception_fail(SWIG_ValueError, "invalid null reference " "in method '" "object_num_regions_set" "', argument " "2"" of type '" "u_int""'"); + } else { + arg2 = *((u_int *)(argp2)); + } + } + if (arg1) (arg1)->num_regions = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_num_regions_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + u_int result; + + if (!PyArg_ParseTuple(args,(char *)"O:object_num_regions_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_num_regions_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = ((arg1)->num_regions); + resultobj = SWIG_NewPointerObj((u_int *)memcpy((u_int *)malloc(sizeof(u_int)),&result,sizeof(u_int)), SWIGTYPE_p_u_int, SWIG_POINTER_OWN | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_regions_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + struct region_list *arg2 = (struct region_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_regions_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_regions_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_region_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_regions_set" "', argument " "2"" of type '" "struct region_list *""'"); + } + arg2 = (struct region_list *)(argp2); + if (arg1) (arg1)->regions = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_regions_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct region_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_regions_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_regions_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (struct region_list *) ((arg1)->regions); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_region_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_n_walls_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_n_walls_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_n_walls_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "object_n_walls_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->n_walls = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_n_walls_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:object_n_walls_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_n_walls_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (int) ((arg1)->n_walls); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_n_walls_actual_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_n_walls_actual_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_n_walls_actual_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "object_n_walls_actual_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->n_walls_actual = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_n_walls_actual_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:object_n_walls_actual_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_n_walls_actual_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (int) ((arg1)->n_walls_actual); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_walls_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + struct wall *arg2 = (struct wall *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_walls_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_walls_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_wall, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_walls_set" "', argument " "2"" of type '" "struct wall *""'"); + } + arg2 = (struct wall *)(argp2); + if (arg1) (arg1)->walls = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_walls_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct wall *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_walls_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_walls_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (struct wall *) ((arg1)->walls); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_wall, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_wall_p_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + struct wall **arg2 = (struct wall **) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_wall_p_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_wall_p_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_p_wall, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_wall_p_set" "', argument " "2"" of type '" "struct wall **""'"); + } + arg2 = (struct wall **)(argp2); + if (arg1) (arg1)->wall_p = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_wall_p_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct wall **result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_wall_p_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_wall_p_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (struct wall **) ((arg1)->wall_p); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_p_wall, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_n_verts_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_n_verts_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_n_verts_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "object_n_verts_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->n_verts = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_n_verts_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:object_n_verts_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_n_verts_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (int) ((arg1)->n_verts); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_vertices_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + struct vector3 **arg2 = (struct vector3 **) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_vertices_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_vertices_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_vertices_set" "', argument " "2"" of type '" "struct vector3 **""'"); + } + arg2 = (struct vector3 **)(argp2); + if (arg1) (arg1)->vertices = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_vertices_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct vector3 **result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_vertices_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_vertices_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (struct vector3 **) ((arg1)->vertices); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_p_vector3, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_total_area_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_total_area_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_total_area_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "object_total_area_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->total_area = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_total_area_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:object_total_area_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_total_area_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (double) ((arg1)->total_area); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_n_tiles_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + u_int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_n_tiles_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_n_tiles_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + { + res2 = SWIG_ConvertPtr(obj1, &argp2, SWIGTYPE_p_u_int, 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_n_tiles_set" "', argument " "2"" of type '" "u_int""'"); + } + if (!argp2) { + SWIG_exception_fail(SWIG_ValueError, "invalid null reference " "in method '" "object_n_tiles_set" "', argument " "2"" of type '" "u_int""'"); + } else { + arg2 = *((u_int *)(argp2)); + } + } + if (arg1) (arg1)->n_tiles = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_n_tiles_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + u_int result; + + if (!PyArg_ParseTuple(args,(char *)"O:object_n_tiles_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_n_tiles_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = ((arg1)->n_tiles); + resultobj = SWIG_NewPointerObj((u_int *)memcpy((u_int *)malloc(sizeof(u_int)),&result,sizeof(u_int)), SWIGTYPE_p_u_int, SWIG_POINTER_OWN | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_n_occupied_tiles_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + u_int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_n_occupied_tiles_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_n_occupied_tiles_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + { + res2 = SWIG_ConvertPtr(obj1, &argp2, SWIGTYPE_p_u_int, 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_n_occupied_tiles_set" "', argument " "2"" of type '" "u_int""'"); + } + if (!argp2) { + SWIG_exception_fail(SWIG_ValueError, "invalid null reference " "in method '" "object_n_occupied_tiles_set" "', argument " "2"" of type '" "u_int""'"); + } else { + arg2 = *((u_int *)(argp2)); + } + } + if (arg1) (arg1)->n_occupied_tiles = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_n_occupied_tiles_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + u_int result; + + if (!PyArg_ParseTuple(args,(char *)"O:object_n_occupied_tiles_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_n_occupied_tiles_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = ((arg1)->n_occupied_tiles); + resultobj = SWIG_NewPointerObj((u_int *)memcpy((u_int *)malloc(sizeof(u_int)),&result,sizeof(u_int)), SWIGTYPE_p_u_int, SWIG_POINTER_OWN | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_t_matrix_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + double (*arg2)[4] ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_t_matrix_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_t_matrix_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_a_4__double, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "object_t_matrix_set" "', argument " "2"" of type '" "double [4][4]""'"); + } + arg2 = (double (*)[4])(argp2); + { + if (arg2) { + size_t ii = 0; + for (; ii < (size_t)4; ++ii) { + if (arg2[ii]) { + size_t jj = 0; + for (; jj < (size_t)4; ++jj) arg1->t_matrix[ii][jj] = arg2[ii][jj]; + } else { + SWIG_exception_fail(SWIG_ValueError, "invalid null reference " "in variable '""t_matrix""' of type '""double [4][4]""'"); + } + } + } else { + SWIG_exception_fail(SWIG_ValueError, "invalid null reference " "in variable '""t_matrix""' of type '""double [4][4]""'"); + } + } + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_t_matrix_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double (*result)[4] = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:object_t_matrix_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_t_matrix_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (double (*)[4])(double (*)[4]) ((arg1)->t_matrix); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_a_4__double, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_periodic_x_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + bool arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + bool val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_periodic_x_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_periodic_x_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + ecode2 = SWIG_AsVal_bool(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "object_periodic_x_set" "', argument " "2"" of type '" "bool""'"); + } + arg2 = (bool)(val2); + if (arg1) (arg1)->periodic_x = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_periodic_x_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + bool result; + + if (!PyArg_ParseTuple(args,(char *)"O:object_periodic_x_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_periodic_x_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (bool) ((arg1)->periodic_x); + resultobj = SWIG_From_bool((bool)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_periodic_y_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + bool arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + bool val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_periodic_y_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_periodic_y_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + ecode2 = SWIG_AsVal_bool(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "object_periodic_y_set" "', argument " "2"" of type '" "bool""'"); + } + arg2 = (bool)(val2); + if (arg1) (arg1)->periodic_y = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_periodic_y_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + bool result; + + if (!PyArg_ParseTuple(args,(char *)"O:object_periodic_y_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_periodic_y_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (bool) ((arg1)->periodic_y); + resultobj = SWIG_From_bool((bool)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_periodic_z_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + bool arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + bool val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:object_periodic_z_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_periodic_z_set" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + ecode2 = SWIG_AsVal_bool(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "object_periodic_z_set" "', argument " "2"" of type '" "bool""'"); + } + arg2 = (bool)(val2); + if (arg1) (arg1)->periodic_z = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_object_periodic_z_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + bool result; + + if (!PyArg_ParseTuple(args,(char *)"O:object_periodic_z_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "object_periodic_z_get" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + result = (bool) ((arg1)->periodic_z); + resultobj = SWIG_From_bool((bool)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_object(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_object")) SWIG_fail; + result = (struct object *)calloc(1, sizeof(struct object)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_object, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_object(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct object *arg1 = (struct object *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_object",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_object, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_object" "', argument " "1"" of type '" "struct object *""'"); + } + arg1 = (struct object *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *object_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_object, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_release_pattern_sym_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_pattern *arg1 = (struct release_pattern *) 0 ; + struct sym_entry *arg2 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:release_pattern_sym_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_pattern_sym_set" "', argument " "1"" of type '" "struct release_pattern *""'"); + } + arg1 = (struct release_pattern *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_sym_entry, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "release_pattern_sym_set" "', argument " "2"" of type '" "struct sym_entry *""'"); + } + arg2 = (struct sym_entry *)(argp2); + if (arg1) (arg1)->sym = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_pattern_sym_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_pattern *arg1 = (struct release_pattern *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:release_pattern_sym_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_pattern_sym_get" "', argument " "1"" of type '" "struct release_pattern *""'"); + } + arg1 = (struct release_pattern *)(argp1); + result = (struct sym_entry *) ((arg1)->sym); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_pattern_delay_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_pattern *arg1 = (struct release_pattern *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:release_pattern_delay_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_pattern_delay_set" "', argument " "1"" of type '" "struct release_pattern *""'"); + } + arg1 = (struct release_pattern *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "release_pattern_delay_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->delay = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_pattern_delay_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_pattern *arg1 = (struct release_pattern *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:release_pattern_delay_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_pattern_delay_get" "', argument " "1"" of type '" "struct release_pattern *""'"); + } + arg1 = (struct release_pattern *)(argp1); + result = (double) ((arg1)->delay); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_pattern_release_interval_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_pattern *arg1 = (struct release_pattern *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:release_pattern_release_interval_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_pattern_release_interval_set" "', argument " "1"" of type '" "struct release_pattern *""'"); + } + arg1 = (struct release_pattern *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "release_pattern_release_interval_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->release_interval = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_pattern_release_interval_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_pattern *arg1 = (struct release_pattern *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:release_pattern_release_interval_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_pattern_release_interval_get" "', argument " "1"" of type '" "struct release_pattern *""'"); + } + arg1 = (struct release_pattern *)(argp1); + result = (double) ((arg1)->release_interval); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_pattern_train_interval_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_pattern *arg1 = (struct release_pattern *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:release_pattern_train_interval_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_pattern_train_interval_set" "', argument " "1"" of type '" "struct release_pattern *""'"); + } + arg1 = (struct release_pattern *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "release_pattern_train_interval_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->train_interval = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_pattern_train_interval_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_pattern *arg1 = (struct release_pattern *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:release_pattern_train_interval_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_pattern_train_interval_get" "', argument " "1"" of type '" "struct release_pattern *""'"); + } + arg1 = (struct release_pattern *)(argp1); + result = (double) ((arg1)->train_interval); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_pattern_train_duration_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_pattern *arg1 = (struct release_pattern *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:release_pattern_train_duration_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_pattern_train_duration_set" "', argument " "1"" of type '" "struct release_pattern *""'"); + } + arg1 = (struct release_pattern *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "release_pattern_train_duration_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->train_duration = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_pattern_train_duration_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_pattern *arg1 = (struct release_pattern *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:release_pattern_train_duration_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_pattern_train_duration_get" "', argument " "1"" of type '" "struct release_pattern *""'"); + } + arg1 = (struct release_pattern *)(argp1); + result = (double) ((arg1)->train_duration); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_pattern_number_of_trains_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_pattern *arg1 = (struct release_pattern *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:release_pattern_number_of_trains_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_pattern_number_of_trains_set" "', argument " "1"" of type '" "struct release_pattern *""'"); + } + arg1 = (struct release_pattern *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "release_pattern_number_of_trains_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->number_of_trains = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_pattern_number_of_trains_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_pattern *arg1 = (struct release_pattern *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:release_pattern_number_of_trains_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_pattern, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_pattern_number_of_trains_get" "', argument " "1"" of type '" "struct release_pattern *""'"); + } + arg1 = (struct release_pattern *)(argp1); + result = (int) ((arg1)->number_of_trains); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_release_pattern(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_pattern *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_release_pattern")) SWIG_fail; + result = (struct release_pattern *)calloc(1, sizeof(struct release_pattern)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_release_pattern, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_release_pattern(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_pattern *arg1 = (struct release_pattern *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_release_pattern",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_pattern, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_release_pattern" "', argument " "1"" of type '" "struct release_pattern *""'"); + } + arg1 = (struct release_pattern *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *release_pattern_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_release_pattern, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_release_evaluator_op_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_evaluator *arg1 = (struct release_evaluator *) 0 ; + byte arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + unsigned char val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:release_evaluator_op_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_evaluator, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_evaluator_op_set" "', argument " "1"" of type '" "struct release_evaluator *""'"); + } + arg1 = (struct release_evaluator *)(argp1); + ecode2 = SWIG_AsVal_unsigned_SS_char(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "release_evaluator_op_set" "', argument " "2"" of type '" "byte""'"); + } + arg2 = (byte)(val2); + if (arg1) (arg1)->op = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_evaluator_op_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_evaluator *arg1 = (struct release_evaluator *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + byte result; + + if (!PyArg_ParseTuple(args,(char *)"O:release_evaluator_op_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_evaluator, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_evaluator_op_get" "', argument " "1"" of type '" "struct release_evaluator *""'"); + } + arg1 = (struct release_evaluator *)(argp1); + result = (byte) ((arg1)->op); + resultobj = SWIG_From_unsigned_SS_char((unsigned char)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_evaluator_left_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_evaluator *arg1 = (struct release_evaluator *) 0 ; + void *arg2 = (void *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:release_evaluator_left_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_evaluator, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_evaluator_left_set" "', argument " "1"" of type '" "struct release_evaluator *""'"); + } + arg1 = (struct release_evaluator *)(argp1); + res2 = SWIG_ConvertPtr(obj1,SWIG_as_voidptrptr(&arg2), 0, SWIG_POINTER_DISOWN); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "release_evaluator_left_set" "', argument " "2"" of type '" "void *""'"); + } + if (arg1) (arg1)->left = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_evaluator_left_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_evaluator *arg1 = (struct release_evaluator *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + void *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:release_evaluator_left_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_evaluator, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_evaluator_left_get" "', argument " "1"" of type '" "struct release_evaluator *""'"); + } + arg1 = (struct release_evaluator *)(argp1); + result = (void *) ((arg1)->left); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_void, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_evaluator_right_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_evaluator *arg1 = (struct release_evaluator *) 0 ; + void *arg2 = (void *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:release_evaluator_right_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_evaluator, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_evaluator_right_set" "', argument " "1"" of type '" "struct release_evaluator *""'"); + } + arg1 = (struct release_evaluator *)(argp1); + res2 = SWIG_ConvertPtr(obj1,SWIG_as_voidptrptr(&arg2), 0, SWIG_POINTER_DISOWN); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "release_evaluator_right_set" "', argument " "2"" of type '" "void *""'"); + } + if (arg1) (arg1)->right = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_release_evaluator_right_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_evaluator *arg1 = (struct release_evaluator *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + void *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:release_evaluator_right_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_evaluator, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "release_evaluator_right_get" "', argument " "1"" of type '" "struct release_evaluator *""'"); + } + arg1 = (struct release_evaluator *)(argp1); + result = (void *) ((arg1)->right); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_void, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_release_evaluator(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_evaluator *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_release_evaluator")) SWIG_fail; + result = (struct release_evaluator *)calloc(1, sizeof(struct release_evaluator)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_release_evaluator, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_release_evaluator(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct release_evaluator *arg1 = (struct release_evaluator *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_release_evaluator",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_release_evaluator, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_release_evaluator" "', argument " "1"" of type '" "struct release_evaluator *""'"); + } + arg1 = (struct release_evaluator *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *release_evaluator_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_release_evaluator, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_output_set_next_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + struct output_set *arg2 = (struct output_set *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_set_next_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_next_set" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_output_set, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "output_set_next_set" "', argument " "2"" of type '" "struct output_set *""'"); + } + arg2 = (struct output_set *)(argp2); + if (arg1) (arg1)->next = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_next_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct output_set *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:output_set_next_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_next_get" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + result = (struct output_set *) ((arg1)->next); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_output_set, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_block_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + struct output_block *arg2 = (struct output_block *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_set_block_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_block_set" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_output_block, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "output_set_block_set" "', argument " "2"" of type '" "struct output_block *""'"); + } + arg2 = (struct output_block *)(argp2); + if (arg1) (arg1)->block = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_block_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct output_block *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:output_set_block_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_block_get" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + result = (struct output_block *) ((arg1)->block); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_output_block, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_outfile_name_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + char *arg2 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_set_outfile_name_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_outfile_name_set" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "output_set_outfile_name_set" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + if (arg1->outfile_name) free((char*)arg1->outfile_name); + if (arg2) { + size_t size = strlen((const char *)(arg2)) + 1; + arg1->outfile_name = (char *)(char *)memcpy((char *)malloc((size)*sizeof(char)), (const char *)(arg2), sizeof(char)*(size)); + } else { + arg1->outfile_name = 0; + } + resultobj = SWIG_Py_Void(); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_outfile_name_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + char *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:output_set_outfile_name_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_outfile_name_get" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + result = (char *) ((arg1)->outfile_name); + resultobj = SWIG_FromCharPtr((const char *)result); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_file_flags_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + enum overwrite_policy_t arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_set_file_flags_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_file_flags_set" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "output_set_file_flags_set" "', argument " "2"" of type '" "enum overwrite_policy_t""'"); + } + arg2 = (enum overwrite_policy_t)(val2); + if (arg1) (arg1)->file_flags = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_file_flags_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + enum overwrite_policy_t result; + + if (!PyArg_ParseTuple(args,(char *)"O:output_set_file_flags_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_file_flags_get" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + result = (enum overwrite_policy_t) ((arg1)->file_flags); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_chunk_count_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + u_int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_set_chunk_count_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_chunk_count_set" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + { + res2 = SWIG_ConvertPtr(obj1, &argp2, SWIGTYPE_p_u_int, 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "output_set_chunk_count_set" "', argument " "2"" of type '" "u_int""'"); + } + if (!argp2) { + SWIG_exception_fail(SWIG_ValueError, "invalid null reference " "in method '" "output_set_chunk_count_set" "', argument " "2"" of type '" "u_int""'"); + } else { + arg2 = *((u_int *)(argp2)); + } + } + if (arg1) (arg1)->chunk_count = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_chunk_count_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + u_int result; + + if (!PyArg_ParseTuple(args,(char *)"O:output_set_chunk_count_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_chunk_count_get" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + result = ((arg1)->chunk_count); + resultobj = SWIG_NewPointerObj((u_int *)memcpy((u_int *)malloc(sizeof(u_int)),&result,sizeof(u_int)), SWIGTYPE_p_u_int, SWIG_POINTER_OWN | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_header_comment_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + char *arg2 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_set_header_comment_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_header_comment_set" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "output_set_header_comment_set" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + if (arg1->header_comment) free((char*)arg1->header_comment); + if (arg2) { + size_t size = strlen((const char *)(arg2)) + 1; + arg1->header_comment = (char *)(char *)memcpy((char *)malloc((size)*sizeof(char)), (const char *)(arg2), sizeof(char)*(size)); + } else { + arg1->header_comment = 0; + } + resultobj = SWIG_Py_Void(); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_header_comment_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + char *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:output_set_header_comment_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_header_comment_get" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + result = (char *) ((arg1)->header_comment); + resultobj = SWIG_FromCharPtr((const char *)result); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_exact_time_flag_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_set_exact_time_flag_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_exact_time_flag_set" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "output_set_exact_time_flag_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->exact_time_flag = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_exact_time_flag_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:output_set_exact_time_flag_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_exact_time_flag_get" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + result = (int) ((arg1)->exact_time_flag); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_column_head_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + struct output_column *arg2 = (struct output_column *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:output_set_column_head_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_column_head_set" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_output_column, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "output_set_column_head_set" "', argument " "2"" of type '" "struct output_column *""'"); + } + arg2 = (struct output_column *)(argp2); + if (arg1) (arg1)->column_head = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_output_set_column_head_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct output_column *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:output_set_column_head_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "output_set_column_head_get" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + result = (struct output_column *) ((arg1)->column_head); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_output_column, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_output_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_output_set")) SWIG_fail; + result = (struct output_set *)calloc(1, sizeof(struct output_set)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_output_set, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_output_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct output_set *arg1 = (struct output_set *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_output_set",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_output_set, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_output_set" "', argument " "1"" of type '" "struct output_set *""'"); + } + arg1 = (struct output_set *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *output_set_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_output_set, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_sym_table_head_entries_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_head *arg1 = (struct sym_table_head *) 0 ; + struct sym_entry **arg2 = (struct sym_entry **) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:sym_table_head_entries_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_table_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_table_head_entries_set" "', argument " "1"" of type '" "struct sym_table_head *""'"); + } + arg1 = (struct sym_table_head *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "sym_table_head_entries_set" "', argument " "2"" of type '" "struct sym_entry **""'"); + } + arg2 = (struct sym_entry **)(argp2); + if (arg1) (arg1)->entries = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_table_head_entries_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_head *arg1 = (struct sym_table_head *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct sym_entry **result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:sym_table_head_entries_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_table_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_table_head_entries_get" "', argument " "1"" of type '" "struct sym_table_head *""'"); + } + arg1 = (struct sym_table_head *)(argp1); + result = (struct sym_entry **) ((arg1)->entries); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_p_sym_entry, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_table_head_n_entries_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_head *arg1 = (struct sym_table_head *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:sym_table_head_n_entries_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_table_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_table_head_n_entries_set" "', argument " "1"" of type '" "struct sym_table_head *""'"); + } + arg1 = (struct sym_table_head *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "sym_table_head_n_entries_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->n_entries = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_table_head_n_entries_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_head *arg1 = (struct sym_table_head *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:sym_table_head_n_entries_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_table_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_table_head_n_entries_get" "', argument " "1"" of type '" "struct sym_table_head *""'"); + } + arg1 = (struct sym_table_head *)(argp1); + result = (int) ((arg1)->n_entries); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_table_head_n_bins_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_head *arg1 = (struct sym_table_head *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:sym_table_head_n_bins_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_table_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_table_head_n_bins_set" "', argument " "1"" of type '" "struct sym_table_head *""'"); + } + arg1 = (struct sym_table_head *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "sym_table_head_n_bins_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->n_bins = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_table_head_n_bins_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_head *arg1 = (struct sym_table_head *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:sym_table_head_n_bins_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_table_head, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_table_head_n_bins_get" "', argument " "1"" of type '" "struct sym_table_head *""'"); + } + arg1 = (struct sym_table_head *)(argp1); + result = (int) ((arg1)->n_bins); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_sym_table_head(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_head *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_sym_table_head")) SWIG_fail; + result = (struct sym_table_head *)calloc(1, sizeof(struct sym_table_head)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_table_head, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_sym_table_head(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_head *arg1 = (struct sym_table_head *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_sym_table_head",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_table_head, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_sym_table_head" "', argument " "1"" of type '" "struct sym_table_head *""'"); + } + arg1 = (struct sym_table_head *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *sym_table_head_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_sym_table_head, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_sym_entry_next_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + struct sym_entry *arg2 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:sym_entry_next_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_entry_next_set" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_sym_entry, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "sym_entry_next_set" "', argument " "2"" of type '" "struct sym_entry *""'"); + } + arg2 = (struct sym_entry *)(argp2); + if (arg1) (arg1)->next = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_entry_next_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:sym_entry_next_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_entry_next_get" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + result = (struct sym_entry *) ((arg1)->next); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_entry_sym_type_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + int arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + int val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:sym_entry_sym_type_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_entry_sym_type_set" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + ecode2 = SWIG_AsVal_int(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "sym_entry_sym_type_set" "', argument " "2"" of type '" "int""'"); + } + arg2 = (int)(val2); + if (arg1) (arg1)->sym_type = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_entry_sym_type_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"O:sym_entry_sym_type_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_entry_sym_type_get" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + result = (int) ((arg1)->sym_type); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_entry_name_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + char *arg2 = (char *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + char *buf2 = 0 ; + int alloc2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:sym_entry_name_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_entry_name_set" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + res2 = SWIG_AsCharPtrAndSize(obj1, &buf2, NULL, &alloc2); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "sym_entry_name_set" "', argument " "2"" of type '" "char *""'"); + } + arg2 = (char *)(buf2); + if (arg1->name) free((char*)arg1->name); + if (arg2) { + size_t size = strlen((const char *)(arg2)) + 1; + arg1->name = (char *)(char *)memcpy((char *)malloc((size)*sizeof(char)), (const char *)(arg2), sizeof(char)*(size)); + } else { + arg1->name = 0; + } + resultobj = SWIG_Py_Void(); + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return resultobj; +fail: + if (alloc2 == SWIG_NEWOBJ) free((char*)buf2); + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_entry_name_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + char *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:sym_entry_name_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_entry_name_get" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + result = (char *) ((arg1)->name); + resultobj = SWIG_FromCharPtr((const char *)result); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_entry_value_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + void *arg2 = (void *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + int res2 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:sym_entry_value_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_entry_value_set" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + res2 = SWIG_ConvertPtr(obj1,SWIG_as_voidptrptr(&arg2), 0, SWIG_POINTER_DISOWN); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "sym_entry_value_set" "', argument " "2"" of type '" "void *""'"); + } + if (arg1) (arg1)->value = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_entry_value_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + void *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:sym_entry_value_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_entry_value_get" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + result = (void *) ((arg1)->value); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_void, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_sym_entry(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_sym_entry")) SWIG_fail; + result = (struct sym_entry *)calloc(1, sizeof(struct sym_entry)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_sym_entry(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_entry *arg1 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_sym_entry",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_entry, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_sym_entry" "', argument " "1"" of type '" "struct sym_entry *""'"); + } + arg1 = (struct sym_entry *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *sym_entry_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_sym_entry, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_sym_table_list_next_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_list *arg1 = (struct sym_table_list *) 0 ; + struct sym_table_list *arg2 = (struct sym_table_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:sym_table_list_next_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_table_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_table_list_next_set" "', argument " "1"" of type '" "struct sym_table_list *""'"); + } + arg1 = (struct sym_table_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_sym_table_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "sym_table_list_next_set" "', argument " "2"" of type '" "struct sym_table_list *""'"); + } + arg2 = (struct sym_table_list *)(argp2); + if (arg1) (arg1)->next = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_table_list_next_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_list *arg1 = (struct sym_table_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct sym_table_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:sym_table_list_next_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_table_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_table_list_next_get" "', argument " "1"" of type '" "struct sym_table_list *""'"); + } + arg1 = (struct sym_table_list *)(argp1); + result = (struct sym_table_list *) ((arg1)->next); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_table_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_table_list_node_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_list *arg1 = (struct sym_table_list *) 0 ; + struct sym_entry *arg2 = (struct sym_entry *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:sym_table_list_node_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_table_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_table_list_node_set" "', argument " "1"" of type '" "struct sym_table_list *""'"); + } + arg1 = (struct sym_table_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_sym_entry, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "sym_table_list_node_set" "', argument " "2"" of type '" "struct sym_entry *""'"); + } + arg2 = (struct sym_entry *)(argp2); + if (arg1) (arg1)->node = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_sym_table_list_node_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_list *arg1 = (struct sym_table_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct sym_entry *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:sym_table_list_node_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_table_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "sym_table_list_node_get" "', argument " "1"" of type '" "struct sym_table_list *""'"); + } + arg1 = (struct sym_table_list *)(argp1); + result = (struct sym_entry *) ((arg1)->node); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_entry, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_sym_table_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_sym_table_list")) SWIG_fail; + result = (struct sym_table_list *)calloc(1, sizeof(struct sym_table_list)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_sym_table_list, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_sym_table_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct sym_table_list *arg1 = (struct sym_table_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_sym_table_list",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_sym_table_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_sym_table_list" "', argument " "1"" of type '" "struct sym_table_list *""'"); + } + arg1 = (struct sym_table_list *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *sym_table_list_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_sym_table_list, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_num_expr_list_next_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list *arg1 = (struct num_expr_list *) 0 ; + struct num_expr_list *arg2 = (struct num_expr_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:num_expr_list_next_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "num_expr_list_next_set" "', argument " "1"" of type '" "struct num_expr_list *""'"); + } + arg1 = (struct num_expr_list *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_num_expr_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "num_expr_list_next_set" "', argument " "2"" of type '" "struct num_expr_list *""'"); + } + arg2 = (struct num_expr_list *)(argp2); + if (arg1) (arg1)->next = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_num_expr_list_next_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list *arg1 = (struct num_expr_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct num_expr_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:num_expr_list_next_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "num_expr_list_next_get" "', argument " "1"" of type '" "struct num_expr_list *""'"); + } + arg1 = (struct num_expr_list *)(argp1); + result = (struct num_expr_list *) ((arg1)->next); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_num_expr_list, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_num_expr_list_value_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list *arg1 = (struct num_expr_list *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:num_expr_list_value_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "num_expr_list_value_set" "', argument " "1"" of type '" "struct num_expr_list *""'"); + } + arg1 = (struct num_expr_list *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "num_expr_list_value_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->value = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_num_expr_list_value_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list *arg1 = (struct num_expr_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:num_expr_list_value_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "num_expr_list_value_get" "', argument " "1"" of type '" "struct num_expr_list *""'"); + } + arg1 = (struct num_expr_list *)(argp1); + result = (double) ((arg1)->value); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_num_expr_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_num_expr_list")) SWIG_fail; + result = (struct num_expr_list *)calloc(1, sizeof(struct num_expr_list)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_num_expr_list, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_num_expr_list(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct num_expr_list *arg1 = (struct num_expr_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_num_expr_list",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_num_expr_list, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_num_expr_list" "', argument " "1"" of type '" "struct num_expr_list *""'"); + } + arg1 = (struct num_expr_list *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *num_expr_list_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_num_expr_list, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_mesh_region_string_buffs_old_inst_mesh_names_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mesh_region_string_buffs *arg1 = (struct mesh_region_string_buffs *) 0 ; + struct string_buffer *arg2 = (struct string_buffer *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mesh_region_string_buffs_old_inst_mesh_names_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mesh_region_string_buffs, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mesh_region_string_buffs_old_inst_mesh_names_set" "', argument " "1"" of type '" "struct mesh_region_string_buffs *""'"); + } + arg1 = (struct mesh_region_string_buffs *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_string_buffer, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mesh_region_string_buffs_old_inst_mesh_names_set" "', argument " "2"" of type '" "struct string_buffer *""'"); + } + arg2 = (struct string_buffer *)(argp2); + if (arg1) (arg1)->old_inst_mesh_names = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mesh_region_string_buffs_old_inst_mesh_names_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mesh_region_string_buffs *arg1 = (struct mesh_region_string_buffs *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct string_buffer *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mesh_region_string_buffs_old_inst_mesh_names_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mesh_region_string_buffs, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mesh_region_string_buffs_old_inst_mesh_names_get" "', argument " "1"" of type '" "struct mesh_region_string_buffs *""'"); + } + arg1 = (struct mesh_region_string_buffs *)(argp1); + result = (struct string_buffer *) ((arg1)->old_inst_mesh_names); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_string_buffer, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mesh_region_string_buffs_old_region_names_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mesh_region_string_buffs *arg1 = (struct mesh_region_string_buffs *) 0 ; + struct string_buffer *arg2 = (struct string_buffer *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:mesh_region_string_buffs_old_region_names_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mesh_region_string_buffs, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mesh_region_string_buffs_old_region_names_set" "', argument " "1"" of type '" "struct mesh_region_string_buffs *""'"); + } + arg1 = (struct mesh_region_string_buffs *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_string_buffer, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mesh_region_string_buffs_old_region_names_set" "', argument " "2"" of type '" "struct string_buffer *""'"); + } + arg2 = (struct string_buffer *)(argp2); + if (arg1) (arg1)->old_region_names = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_mesh_region_string_buffs_old_region_names_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mesh_region_string_buffs *arg1 = (struct mesh_region_string_buffs *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + struct string_buffer *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:mesh_region_string_buffs_old_region_names_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mesh_region_string_buffs, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mesh_region_string_buffs_old_region_names_get" "', argument " "1"" of type '" "struct mesh_region_string_buffs *""'"); + } + arg1 = (struct mesh_region_string_buffs *)(argp1); + result = (struct string_buffer *) ((arg1)->old_region_names); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_string_buffer, 0 | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_mesh_region_string_buffs(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mesh_region_string_buffs *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_mesh_region_string_buffs")) SWIG_fail; + result = (struct mesh_region_string_buffs *)calloc(1, sizeof(struct mesh_region_string_buffs)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_mesh_region_string_buffs, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_mesh_region_string_buffs(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct mesh_region_string_buffs *arg1 = (struct mesh_region_string_buffs *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_mesh_region_string_buffs",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_mesh_region_string_buffs, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_mesh_region_string_buffs" "', argument " "1"" of type '" "struct mesh_region_string_buffs *""'"); + } + arg1 = (struct mesh_region_string_buffs *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *mesh_region_string_buffs_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_mesh_region_string_buffs, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_mcell_change_geometry(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct volume *arg1 = (struct volume *) 0 ; + struct poly_object_list *arg2 = (struct poly_object_list *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OO:mcell_change_geometry",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_volume, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mcell_change_geometry" "', argument " "1"" of type '" "struct volume *""'"); + } + arg1 = (struct volume *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_poly_object_list, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mcell_change_geometry" "', argument " "2"" of type '" "struct poly_object_list *""'"); + } + arg2 = (struct poly_object_list *)(argp2); + result = (int)mcell_change_geometry(arg1,arg2); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_vector2_u_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector2 *arg1 = (struct vector2 *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:vector2_u_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "vector2_u_set" "', argument " "1"" of type '" "struct vector2 *""'"); + } + arg1 = (struct vector2 *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "vector2_u_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->u = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_vector2_u_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector2 *arg1 = (struct vector2 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:vector2_u_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "vector2_u_get" "', argument " "1"" of type '" "struct vector2 *""'"); + } + arg1 = (struct vector2 *)(argp1); + result = (double) ((arg1)->u); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_vector2_v_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector2 *arg1 = (struct vector2 *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:vector2_v_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "vector2_v_set" "', argument " "1"" of type '" "struct vector2 *""'"); + } + arg1 = (struct vector2 *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "vector2_v_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->v = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_vector2_v_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector2 *arg1 = (struct vector2 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:vector2_v_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "vector2_v_get" "', argument " "1"" of type '" "struct vector2 *""'"); + } + arg1 = (struct vector2 *)(argp1); + result = (double) ((arg1)->v); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_vector2(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector2 *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_vector2")) SWIG_fail; + result = (struct vector2 *)calloc(1, sizeof(struct vector2)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_vector2, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_vector2(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector2 *arg1 = (struct vector2 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_vector2",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector2, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_vector2" "', argument " "1"" of type '" "struct vector2 *""'"); + } + arg1 = (struct vector2 *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *vector2_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_vector2, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_vector3_x_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:vector3_x_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "vector3_x_set" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "vector3_x_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->x = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_vector3_x_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:vector3_x_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "vector3_x_get" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + result = (double) ((arg1)->x); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_vector3_y_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:vector3_y_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "vector3_y_set" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "vector3_y_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->y = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_vector3_y_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:vector3_y_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "vector3_y_get" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + result = (double) ((arg1)->y); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_vector3_z_set(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + double arg2 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OO:vector3_z_set",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "vector3_z_set" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "vector3_z_set" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + if (arg1) (arg1)->z = arg2; + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_vector3_z_get(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:vector3_z_get",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "vector3_z_get" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + result = (double) ((arg1)->z); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_new_vector3(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *result = 0 ; + + if (!PyArg_ParseTuple(args,(char *)":new_vector3")) SWIG_fail; + result = (struct vector3 *)calloc(1, sizeof(struct vector3)); + resultobj = SWIG_NewPointerObj(SWIG_as_voidptr(result), SWIGTYPE_p_vector3, SWIG_POINTER_NEW | 0 ); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_delete_vector3(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:delete_vector3",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, SWIG_POINTER_DISOWN | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "delete_vector3" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + free((char *) arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *vector3_swigregister(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *obj; + if (!PyArg_ParseTuple(args,(char*)"O:swigregister", &obj)) return NULL; + SWIG_TypeNewClientData(SWIGTYPE_p_vector3, SWIG_NewClientData(obj)); + return SWIG_Py_Void(); +} + +SWIGINTERN PyObject *_wrap_mult_matrix(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + double (*arg1)[4] = (double (*)[4]) 0 ; + double (*arg2)[4] = (double (*)[4]) 0 ; + double (*arg3)[4] = (double (*)[4]) 0 ; + unsigned short arg4 ; + unsigned short arg5 ; + unsigned short arg6 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + unsigned short val4 ; + int ecode4 = 0 ; + unsigned short val5 ; + int ecode5 = 0 ; + unsigned short val6 ; + int ecode6 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + PyObject * obj5 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOOOOO:mult_matrix",&obj0,&obj1,&obj2,&obj3,&obj4,&obj5)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_a_4__double, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "mult_matrix" "', argument " "1"" of type '" "double (*)[4]""'"); + } + arg1 = (double (*)[4])(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_a_4__double, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "mult_matrix" "', argument " "2"" of type '" "double (*)[4]""'"); + } + arg2 = (double (*)[4])(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_a_4__double, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "mult_matrix" "', argument " "3"" of type '" "double (*)[4]""'"); + } + arg3 = (double (*)[4])(argp3); + ecode4 = SWIG_AsVal_unsigned_SS_short(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "mult_matrix" "', argument " "4"" of type '" "unsigned short""'"); + } + arg4 = (unsigned short)(val4); + ecode5 = SWIG_AsVal_unsigned_SS_short(obj4, &val5); + if (!SWIG_IsOK(ecode5)) { + SWIG_exception_fail(SWIG_ArgError(ecode5), "in method '" "mult_matrix" "', argument " "5"" of type '" "unsigned short""'"); + } + arg5 = (unsigned short)(val5); + ecode6 = SWIG_AsVal_unsigned_SS_short(obj5, &val6); + if (!SWIG_IsOK(ecode6)) { + SWIG_exception_fail(SWIG_ArgError(ecode6), "in method '" "mult_matrix" "', argument " "6"" of type '" "unsigned short""'"); + } + arg6 = (unsigned short)(val6); + mult_matrix((double (*)[4])arg1,(double (*)[4])arg2,(double (*)[4])arg3,arg4,arg5,arg6); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_normalize(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:normalize",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "normalize" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + normalize(arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_init_matrix(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + double (*arg1)[4] = (double (*)[4]) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"O:init_matrix",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_a_4__double, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "init_matrix" "', argument " "1"" of type '" "double (*)[4]""'"); + } + arg1 = (double (*)[4])(argp1); + init_matrix((double (*)[4])arg1); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_scale_matrix(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + double (*arg1)[4] = (double (*)[4]) 0 ; + double (*arg2)[4] = (double (*)[4]) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOO:scale_matrix",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_a_4__double, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "scale_matrix" "', argument " "1"" of type '" "double (*)[4]""'"); + } + arg1 = (double (*)[4])(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_a_4__double, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "scale_matrix" "', argument " "2"" of type '" "double (*)[4]""'"); + } + arg2 = (double (*)[4])(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "scale_matrix" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + scale_matrix((double (*)[4])arg1,(double (*)[4])arg2,arg3); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_translate_matrix(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + double (*arg1)[4] = (double (*)[4]) 0 ; + double (*arg2)[4] = (double (*)[4]) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOO:translate_matrix",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_a_4__double, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "translate_matrix" "', argument " "1"" of type '" "double (*)[4]""'"); + } + arg1 = (double (*)[4])(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_a_4__double, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "translate_matrix" "', argument " "2"" of type '" "double (*)[4]""'"); + } + arg2 = (double (*)[4])(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "translate_matrix" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + translate_matrix((double (*)[4])arg1,(double (*)[4])arg2,arg3); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_rotate_matrix(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + double (*arg1)[4] = (double (*)[4]) 0 ; + double (*arg2)[4] = (double (*)[4]) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + double arg4 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + double val4 ; + int ecode4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:rotate_matrix",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_a_4__double, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "rotate_matrix" "', argument " "1"" of type '" "double (*)[4]""'"); + } + arg1 = (double (*)[4])(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_a_4__double, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "rotate_matrix" "', argument " "2"" of type '" "double (*)[4]""'"); + } + arg2 = (double (*)[4])(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "rotate_matrix" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + ecode4 = SWIG_AsVal_double(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "rotate_matrix" "', argument " "4"" of type '" "double""'"); + } + arg4 = (double)(val4); + rotate_matrix((double (*)[4])arg1,(double (*)[4])arg2,arg3,arg4); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_tform_matrix(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + struct vector3 *arg2 = (struct vector3 *) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + double arg4 ; + double (*arg5)[4] = (double (*)[4]) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + double val4 ; + int ecode4 = 0 ; + void *argp5 = 0 ; + int res5 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + PyObject * obj4 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOOOO:tform_matrix",&obj0,&obj1,&obj2,&obj3,&obj4)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "tform_matrix" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "tform_matrix" "', argument " "2"" of type '" "struct vector3 *""'"); + } + arg2 = (struct vector3 *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "tform_matrix" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + ecode4 = SWIG_AsVal_double(obj3, &val4); + if (!SWIG_IsOK(ecode4)) { + SWIG_exception_fail(SWIG_ArgError(ecode4), "in method '" "tform_matrix" "', argument " "4"" of type '" "double""'"); + } + arg4 = (double)(val4); + res5 = SWIG_ConvertPtr(obj4, &argp5,SWIGTYPE_p_a_4__double, 0 | 0 ); + if (!SWIG_IsOK(res5)) { + SWIG_exception_fail(SWIG_ArgError(res5), "in method '" "tform_matrix" "', argument " "5"" of type '" "double (*)[4]""'"); + } + arg5 = (double (*)[4])(argp5); + tform_matrix(arg1,arg2,arg3,arg4,(double (*)[4])arg5); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_vectorize(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + struct vector3 *arg2 = (struct vector3 *) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOO:vectorize",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "vectorize" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "vectorize" "', argument " "2"" of type '" "struct vector3 *""'"); + } + arg2 = (struct vector3 *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "vectorize" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + vectorize(arg1,arg2,arg3); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_vect_length(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + PyObject * obj0 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"O:vect_length",&obj0)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "vect_length" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + result = (double)vect_length(arg1); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_dot_prod(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + struct vector3 *arg2 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"OO:dot_prod",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "dot_prod" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "dot_prod" "', argument " "2"" of type '" "struct vector3 *""'"); + } + arg2 = (struct vector3 *)(argp2); + result = (double)dot_prod(arg1,arg2); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_cross_prod(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + struct vector3 *arg2 = (struct vector3 *) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOO:cross_prod",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "cross_prod" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "cross_prod" "', argument " "2"" of type '" "struct vector3 *""'"); + } + arg2 = (struct vector3 *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "cross_prod" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + cross_prod(arg1,arg2,arg3); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_vect_sum(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + struct vector3 *arg2 = (struct vector3 *) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOO:vect_sum",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "vect_sum" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "vect_sum" "', argument " "2"" of type '" "struct vector3 *""'"); + } + arg2 = (struct vector3 *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "vect_sum" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + vect_sum(arg1,arg2,arg3); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_scalar_prod(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + double arg2 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + double val2 ; + int ecode2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOO:scalar_prod",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "scalar_prod" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + ecode2 = SWIG_AsVal_double(obj1, &val2); + if (!SWIG_IsOK(ecode2)) { + SWIG_exception_fail(SWIG_ArgError(ecode2), "in method '" "scalar_prod" "', argument " "2"" of type '" "double""'"); + } + arg2 = (double)(val2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "scalar_prod" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + scalar_prod(arg1,arg2,arg3); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_distinguishable_vec3(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + struct vector3 *arg2 = (struct vector3 *) 0 ; + double arg3 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + double val3 ; + int ecode3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:distinguishable_vec3",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "distinguishable_vec3" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "distinguishable_vec3" "', argument " "2"" of type '" "struct vector3 *""'"); + } + arg2 = (struct vector3 *)(argp2); + ecode3 = SWIG_AsVal_double(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "distinguishable_vec3" "', argument " "3"" of type '" "double""'"); + } + arg3 = (double)(val3); + result = (int)distinguishable_vec3(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_distinguishable_vec2(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector2 *arg1 = (struct vector2 *) 0 ; + struct vector2 *arg2 = (struct vector2 *) 0 ; + double arg3 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + double val3 ; + int ecode3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:distinguishable_vec2",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "distinguishable_vec2" "', argument " "1"" of type '" "struct vector2 *""'"); + } + arg1 = (struct vector2 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "distinguishable_vec2" "', argument " "2"" of type '" "struct vector2 *""'"); + } + arg2 = (struct vector2 *)(argp2); + ecode3 = SWIG_AsVal_double(obj2, &val3); + if (!SWIG_IsOK(ecode3)) { + SWIG_exception_fail(SWIG_ArgError(ecode3), "in method '" "distinguishable_vec2" "', argument " "3"" of type '" "double""'"); + } + arg3 = (double)(val3); + result = (int)distinguishable_vec2(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_distance_vec3(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + struct vector3 *arg2 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"OO:distance_vec3",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "distance_vec3" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "distance_vec3" "', argument " "2"" of type '" "struct vector3 *""'"); + } + arg2 = (struct vector3 *)(argp2); + result = (double)distance_vec3(arg1,arg2); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_parallel_segments(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + struct vector3 *arg2 = (struct vector3 *) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + struct vector3 *arg4 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:parallel_segments",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "parallel_segments" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "parallel_segments" "', argument " "2"" of type '" "struct vector3 *""'"); + } + arg2 = (struct vector3 *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "parallel_segments" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "parallel_segments" "', argument " "4"" of type '" "struct vector3 *""'"); + } + arg4 = (struct vector3 *)(argp4); + result = (int)parallel_segments(arg1,arg2,arg3,arg4); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_point_in_triangle(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + struct vector3 *arg2 = (struct vector3 *) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + struct vector3 *arg4 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:point_in_triangle",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "point_in_triangle" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "point_in_triangle" "', argument " "2"" of type '" "struct vector3 *""'"); + } + arg2 = (struct vector3 *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "point_in_triangle" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "point_in_triangle" "', argument " "4"" of type '" "struct vector3 *""'"); + } + arg4 = (struct vector3 *)(argp4); + result = (int)point_in_triangle(arg1,arg2,arg3,arg4); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_same_side(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + struct vector3 *arg2 = (struct vector3 *) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + struct vector3 *arg4 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:same_side",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "same_side" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "same_side" "', argument " "2"" of type '" "struct vector3 *""'"); + } + arg2 = (struct vector3 *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "same_side" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "same_side" "', argument " "4"" of type '" "struct vector3 *""'"); + } + arg4 = (struct vector3 *)(argp4); + result = (int)same_side(arg1,arg2,arg3,arg4); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_intersect_point_segment(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + struct vector3 *arg2 = (struct vector3 *) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:intersect_point_segment",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "intersect_point_segment" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "intersect_point_segment" "', argument " "2"" of type '" "struct vector3 *""'"); + } + arg2 = (struct vector3 *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "intersect_point_segment" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + result = (int)intersect_point_segment(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_cross2D(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector2 *arg1 = (struct vector2 *) 0 ; + struct vector2 *arg2 = (struct vector2 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + double result; + + if (!PyArg_ParseTuple(args,(char *)"OO:cross2D",&obj0,&obj1)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "cross2D" "', argument " "1"" of type '" "struct vector2 *""'"); + } + arg1 = (struct vector2 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "cross2D" "', argument " "2"" of type '" "struct vector2 *""'"); + } + arg2 = (struct vector2 *)(argp2); + result = (double)cross2D(arg1,arg2); + resultobj = SWIG_From_double((double)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_vectorize2D(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector2 *arg1 = (struct vector2 *) 0 ; + struct vector2 *arg2 = (struct vector2 *) 0 ; + struct vector2 *arg3 = (struct vector2 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + + if (!PyArg_ParseTuple(args,(char *)"OOO:vectorize2D",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "vectorize2D" "', argument " "1"" of type '" "struct vector2 *""'"); + } + arg1 = (struct vector2 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "vectorize2D" "', argument " "2"" of type '" "struct vector2 *""'"); + } + arg2 = (struct vector2 *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "vectorize2D" "', argument " "3"" of type '" "struct vector2 *""'"); + } + arg3 = (struct vector2 *)(argp3); + vectorize2D(arg1,arg2,arg3); + resultobj = SWIG_Py_Void(); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_point_in_triangle_2D(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector2 *arg1 = (struct vector2 *) 0 ; + struct vector2 *arg2 = (struct vector2 *) 0 ; + struct vector2 *arg3 = (struct vector2 *) 0 ; + struct vector2 *arg4 = (struct vector2 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + void *argp4 = 0 ; + int res4 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + PyObject * obj3 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOOO:point_in_triangle_2D",&obj0,&obj1,&obj2,&obj3)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "point_in_triangle_2D" "', argument " "1"" of type '" "struct vector2 *""'"); + } + arg1 = (struct vector2 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "point_in_triangle_2D" "', argument " "2"" of type '" "struct vector2 *""'"); + } + arg2 = (struct vector2 *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "point_in_triangle_2D" "', argument " "3"" of type '" "struct vector2 *""'"); + } + arg3 = (struct vector2 *)(argp3); + res4 = SWIG_ConvertPtr(obj3, &argp4,SWIGTYPE_p_vector2, 0 | 0 ); + if (!SWIG_IsOK(res4)) { + SWIG_exception_fail(SWIG_ArgError(res4), "in method '" "point_in_triangle_2D" "', argument " "4"" of type '" "struct vector2 *""'"); + } + arg4 = (struct vector2 *)(argp4); + result = (int)point_in_triangle_2D(arg1,arg2,arg3,arg4); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +SWIGINTERN PyObject *_wrap_point_in_box(PyObject *SWIGUNUSEDPARM(self), PyObject *args) { + PyObject *resultobj = 0; + struct vector3 *arg1 = (struct vector3 *) 0 ; + struct vector3 *arg2 = (struct vector3 *) 0 ; + struct vector3 *arg3 = (struct vector3 *) 0 ; + void *argp1 = 0 ; + int res1 = 0 ; + void *argp2 = 0 ; + int res2 = 0 ; + void *argp3 = 0 ; + int res3 = 0 ; + PyObject * obj0 = 0 ; + PyObject * obj1 = 0 ; + PyObject * obj2 = 0 ; + int result; + + if (!PyArg_ParseTuple(args,(char *)"OOO:point_in_box",&obj0,&obj1,&obj2)) SWIG_fail; + res1 = SWIG_ConvertPtr(obj0, &argp1,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res1)) { + SWIG_exception_fail(SWIG_ArgError(res1), "in method '" "point_in_box" "', argument " "1"" of type '" "struct vector3 *""'"); + } + arg1 = (struct vector3 *)(argp1); + res2 = SWIG_ConvertPtr(obj1, &argp2,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res2)) { + SWIG_exception_fail(SWIG_ArgError(res2), "in method '" "point_in_box" "', argument " "2"" of type '" "struct vector3 *""'"); + } + arg2 = (struct vector3 *)(argp2); + res3 = SWIG_ConvertPtr(obj2, &argp3,SWIGTYPE_p_vector3, 0 | 0 ); + if (!SWIG_IsOK(res3)) { + SWIG_exception_fail(SWIG_ArgError(res3), "in method '" "point_in_box" "', argument " "3"" of type '" "struct vector3 *""'"); + } + arg3 = (struct vector3 *)(argp3); + result = (int)point_in_box(arg1,arg2,arg3); + resultobj = SWIG_From_int((int)(result)); + return resultobj; +fail: + return NULL; +} + + +static PyMethodDef SwigMethods[] = { + { (char *)"SWIG_PyInstanceMethod_New", (PyCFunction)SWIG_PyInstanceMethod_New, METH_O, NULL}, + { (char *)"num_expr_list_head_value_head_set", _wrap_num_expr_list_head_value_head_set, METH_VARARGS, NULL}, + { (char *)"num_expr_list_head_value_head_get", _wrap_num_expr_list_head_value_head_get, METH_VARARGS, NULL}, + { (char *)"num_expr_list_head_value_tail_set", _wrap_num_expr_list_head_value_tail_set, METH_VARARGS, NULL}, + { (char *)"num_expr_list_head_value_tail_get", _wrap_num_expr_list_head_value_tail_get, METH_VARARGS, NULL}, + { (char *)"num_expr_list_head_value_count_set", _wrap_num_expr_list_head_value_count_set, METH_VARARGS, NULL}, + { (char *)"num_expr_list_head_value_count_get", _wrap_num_expr_list_head_value_count_get, METH_VARARGS, NULL}, + { (char *)"num_expr_list_head_shared_set", _wrap_num_expr_list_head_shared_set, METH_VARARGS, NULL}, + { (char *)"num_expr_list_head_shared_get", _wrap_num_expr_list_head_shared_get, METH_VARARGS, NULL}, + { (char *)"new_num_expr_list_head", _wrap_new_num_expr_list_head, METH_VARARGS, (char *)"new_num_expr_list_head() -> num_expr_list_head"}, + { (char *)"delete_num_expr_list_head", _wrap_delete_num_expr_list_head, METH_VARARGS, (char *)"delete_num_expr_list_head(self)"}, + { (char *)"num_expr_list_head_swigregister", num_expr_list_head_swigregister, METH_VARARGS, NULL}, + { (char *)"mcell_set_seed", _wrap_mcell_set_seed, METH_VARARGS, NULL}, + { (char *)"mcell_create", _wrap_mcell_create, METH_VARARGS, NULL}, + { (char *)"mcell_init_state", _wrap_mcell_init_state, METH_VARARGS, NULL}, + { (char *)"mcell_init_simulation", _wrap_mcell_init_simulation, METH_VARARGS, NULL}, + { (char *)"mcell_init_read_checkpoint", _wrap_mcell_init_read_checkpoint, METH_VARARGS, NULL}, + { (char *)"mcell_init_output", _wrap_mcell_init_output, METH_VARARGS, NULL}, + { (char *)"mcell_set_partition", _wrap_mcell_set_partition, METH_VARARGS, NULL}, + { (char *)"mcell_set_time_step", _wrap_mcell_set_time_step, METH_VARARGS, NULL}, + { (char *)"mcell_set_iterations", _wrap_mcell_set_iterations, METH_VARARGS, NULL}, + { (char *)"mcell_silence_notifications", _wrap_mcell_silence_notifications, METH_VARARGS, NULL}, + { (char *)"mcell_enable_notifications", _wrap_mcell_enable_notifications, METH_VARARGS, NULL}, + { (char *)"mcell_silence_warnings", _wrap_mcell_silence_warnings, METH_VARARGS, NULL}, + { (char *)"mcell_enable_warnings", _wrap_mcell_enable_warnings, METH_VARARGS, NULL}, + { (char *)"mcell_print_version", _wrap_mcell_print_version, METH_VARARGS, NULL}, + { (char *)"mcell_print_usage", _wrap_mcell_print_usage, METH_VARARGS, NULL}, + { (char *)"mcell_print_stats", _wrap_mcell_print_stats, METH_VARARGS, NULL}, + { (char *)"mcell_argparse", _wrap_mcell_argparse, METH_VARARGS, NULL}, + { (char *)"mcell_copysort_numeric_list", _wrap_mcell_copysort_numeric_list, METH_VARARGS, NULL}, + { (char *)"mcell_sort_numeric_list", _wrap_mcell_sort_numeric_list, METH_VARARGS, NULL}, + { (char *)"mcell_free_numeric_list", _wrap_mcell_free_numeric_list, METH_VARARGS, NULL}, + { (char *)"mcell_generate_range", _wrap_mcell_generate_range, METH_VARARGS, NULL}, + { (char *)"mcell_generate_range_singleton", _wrap_mcell_generate_range_singleton, METH_VARARGS, NULL}, + { (char *)"mcell_print", _wrap_mcell_print, METH_VARARGS, NULL}, + { (char *)"object_creation_object_name_list_set", _wrap_object_creation_object_name_list_set, METH_VARARGS, NULL}, + { (char *)"object_creation_object_name_list_get", _wrap_object_creation_object_name_list_get, METH_VARARGS, NULL}, + { (char *)"object_creation_object_name_list_end_set", _wrap_object_creation_object_name_list_end_set, METH_VARARGS, NULL}, + { (char *)"object_creation_object_name_list_end_get", _wrap_object_creation_object_name_list_end_get, METH_VARARGS, NULL}, + { (char *)"object_creation_current_object_set", _wrap_object_creation_current_object_set, METH_VARARGS, NULL}, + { (char *)"object_creation_current_object_get", _wrap_object_creation_current_object_get, METH_VARARGS, NULL}, + { (char *)"new_object_creation", _wrap_new_object_creation, METH_VARARGS, (char *)"new_object_creation() -> object_creation"}, + { (char *)"delete_object_creation", _wrap_delete_object_creation, METH_VARARGS, (char *)"delete_object_creation(self)"}, + { (char *)"object_creation_swigregister", object_creation_swigregister, METH_VARARGS, NULL}, + { (char *)"poly_object_obj_name_set", _wrap_poly_object_obj_name_set, METH_VARARGS, NULL}, + { (char *)"poly_object_obj_name_get", _wrap_poly_object_obj_name_get, METH_VARARGS, NULL}, + { (char *)"poly_object_vertices_set", _wrap_poly_object_vertices_set, METH_VARARGS, NULL}, + { (char *)"poly_object_vertices_get", _wrap_poly_object_vertices_get, METH_VARARGS, NULL}, + { (char *)"poly_object_num_vert_set", _wrap_poly_object_num_vert_set, METH_VARARGS, NULL}, + { (char *)"poly_object_num_vert_get", _wrap_poly_object_num_vert_get, METH_VARARGS, NULL}, + { (char *)"poly_object_connections_set", _wrap_poly_object_connections_set, METH_VARARGS, NULL}, + { (char *)"poly_object_connections_get", _wrap_poly_object_connections_get, METH_VARARGS, NULL}, + { (char *)"poly_object_num_conn_set", _wrap_poly_object_num_conn_set, METH_VARARGS, NULL}, + { (char *)"poly_object_num_conn_get", _wrap_poly_object_num_conn_get, METH_VARARGS, NULL}, + { (char *)"new_poly_object", _wrap_new_poly_object, METH_VARARGS, (char *)"new_poly_object() -> poly_object"}, + { (char *)"delete_poly_object", _wrap_delete_poly_object, METH_VARARGS, (char *)"delete_poly_object(self)"}, + { (char *)"poly_object_swigregister", poly_object_swigregister, METH_VARARGS, NULL}, + { (char *)"poly_object_list_obj_name_set", _wrap_poly_object_list_obj_name_set, METH_VARARGS, NULL}, + { (char *)"poly_object_list_obj_name_get", _wrap_poly_object_list_obj_name_get, METH_VARARGS, NULL}, + { (char *)"poly_object_list_vertices_set", _wrap_poly_object_list_vertices_set, METH_VARARGS, NULL}, + { (char *)"poly_object_list_vertices_get", _wrap_poly_object_list_vertices_get, METH_VARARGS, NULL}, + { (char *)"poly_object_list_num_vert_set", _wrap_poly_object_list_num_vert_set, METH_VARARGS, NULL}, + { (char *)"poly_object_list_num_vert_get", _wrap_poly_object_list_num_vert_get, METH_VARARGS, NULL}, + { (char *)"poly_object_list_connections_set", _wrap_poly_object_list_connections_set, METH_VARARGS, NULL}, + { (char *)"poly_object_list_connections_get", _wrap_poly_object_list_connections_get, METH_VARARGS, NULL}, + { (char *)"poly_object_list_num_conn_set", _wrap_poly_object_list_num_conn_set, METH_VARARGS, NULL}, + { (char *)"poly_object_list_num_conn_get", _wrap_poly_object_list_num_conn_get, METH_VARARGS, NULL}, + { (char *)"poly_object_list_surf_reg_faces_set", _wrap_poly_object_list_surf_reg_faces_set, METH_VARARGS, NULL}, + { (char *)"poly_object_list_surf_reg_faces_get", _wrap_poly_object_list_surf_reg_faces_get, METH_VARARGS, NULL}, + { (char *)"poly_object_list_reg_name_set", _wrap_poly_object_list_reg_name_set, METH_VARARGS, NULL}, + { (char *)"poly_object_list_reg_name_get", _wrap_poly_object_list_reg_name_get, METH_VARARGS, NULL}, + { (char *)"poly_object_list_next_set", _wrap_poly_object_list_next_set, METH_VARARGS, NULL}, + { (char *)"poly_object_list_next_get", _wrap_poly_object_list_next_get, METH_VARARGS, NULL}, + { (char *)"new_poly_object_list", _wrap_new_poly_object_list, METH_VARARGS, (char *)"new_poly_object_list() -> poly_object_list"}, + { (char *)"delete_poly_object_list", _wrap_delete_poly_object_list, METH_VARARGS, (char *)"delete_poly_object_list(self)"}, + { (char *)"poly_object_list_swigregister", poly_object_list_swigregister, METH_VARARGS, NULL}, + { (char *)"mcell_create_instance_object", _wrap_mcell_create_instance_object, METH_VARARGS, NULL}, + { (char *)"mcell_create_poly_object", _wrap_mcell_create_poly_object, METH_VARARGS, NULL}, + { (char *)"new_polygon_list", _wrap_new_polygon_list, METH_VARARGS, NULL}, + { (char *)"make_new_object", _wrap_make_new_object, METH_VARARGS, NULL}, + { (char *)"push_object_name", _wrap_push_object_name, METH_VARARGS, NULL}, + { (char *)"pop_object_name", _wrap_pop_object_name, METH_VARARGS, NULL}, + { (char *)"mcell_add_to_vertex_list", _wrap_mcell_add_to_vertex_list, METH_VARARGS, NULL}, + { (char *)"free_vertex_list", _wrap_free_vertex_list, METH_VARARGS, NULL}, + { (char *)"mcell_add_to_connection_list", _wrap_mcell_add_to_connection_list, METH_VARARGS, NULL}, + { (char *)"free_connection_list", _wrap_free_connection_list, METH_VARARGS, NULL}, + { (char *)"mcell_set_region_elements", _wrap_mcell_set_region_elements, METH_VARARGS, NULL}, + { (char *)"mcell_add_to_region_list", _wrap_mcell_add_to_region_list, METH_VARARGS, NULL}, + { (char *)"add_child_objects", _wrap_add_child_objects, METH_VARARGS, NULL}, + { (char *)"mcell_create_region", _wrap_mcell_create_region, METH_VARARGS, NULL}, + { (char *)"make_new_region", _wrap_make_new_region, METH_VARARGS, NULL}, + { (char *)"remove_gaps_from_regions", _wrap_remove_gaps_from_regions, METH_VARARGS, NULL}, + { (char *)"check_degenerate_polygon_list", _wrap_check_degenerate_polygon_list, METH_VARARGS, NULL}, + { (char *)"common_ancestor", _wrap_common_ancestor, METH_VARARGS, NULL}, + { (char *)"allocate_polygon_object", _wrap_allocate_polygon_object, METH_VARARGS, NULL}, + { (char *)"new_element_list", _wrap_new_element_list, METH_VARARGS, NULL}, + { (char *)"normalize_elements", _wrap_normalize_elements, METH_VARARGS, NULL}, + { (char *)"count_cuboid_elements", _wrap_count_cuboid_elements, METH_VARARGS, NULL}, + { (char *)"cuboid_patch_to_bits", _wrap_cuboid_patch_to_bits, METH_VARARGS, NULL}, + { (char *)"check_patch", _wrap_check_patch, METH_VARARGS, NULL}, + { (char *)"mcell_get_obj_sym", _wrap_mcell_get_obj_sym, METH_VARARGS, NULL}, + { (char *)"mcell_get_reg_sym", _wrap_mcell_get_reg_sym, METH_VARARGS, NULL}, + { (char *)"mcell_get_all_mol_sym", _wrap_mcell_get_all_mol_sym, METH_VARARGS, NULL}, + { (char *)"mcell_get_all_volume_mol_sym", _wrap_mcell_get_all_volume_mol_sym, METH_VARARGS, NULL}, + { (char *)"mcell_get_all_surface_mol_sym", _wrap_mcell_get_all_surface_mol_sym, METH_VARARGS, NULL}, + { (char *)"mcell_add_to_poly_obj_list", _wrap_mcell_add_to_poly_obj_list, METH_VARARGS, NULL}, + { (char *)"output_column_list_column_head_set", _wrap_output_column_list_column_head_set, METH_VARARGS, NULL}, + { (char *)"output_column_list_column_head_get", _wrap_output_column_list_column_head_get, METH_VARARGS, NULL}, + { (char *)"output_column_list_column_tail_set", _wrap_output_column_list_column_tail_set, METH_VARARGS, NULL}, + { (char *)"output_column_list_column_tail_get", _wrap_output_column_list_column_tail_get, METH_VARARGS, NULL}, + { (char *)"new_output_column_list", _wrap_new_output_column_list, METH_VARARGS, (char *)"new_output_column_list() -> output_column_list"}, + { (char *)"delete_output_column_list", _wrap_delete_output_column_list, METH_VARARGS, (char *)"delete_output_column_list(self)"}, + { (char *)"output_column_list_swigregister", output_column_list_swigregister, METH_VARARGS, NULL}, + { (char *)"output_set_list_set_head_set", _wrap_output_set_list_set_head_set, METH_VARARGS, NULL}, + { (char *)"output_set_list_set_head_get", _wrap_output_set_list_set_head_get, METH_VARARGS, NULL}, + { (char *)"output_set_list_set_tail_set", _wrap_output_set_list_set_tail_set, METH_VARARGS, NULL}, + { (char *)"output_set_list_set_tail_get", _wrap_output_set_list_set_tail_get, METH_VARARGS, NULL}, + { (char *)"new_output_set_list", _wrap_new_output_set_list, METH_VARARGS, (char *)"new_output_set_list() -> output_set_list"}, + { (char *)"delete_output_set_list", _wrap_delete_output_set_list, METH_VARARGS, (char *)"delete_output_set_list(self)"}, + { (char *)"output_set_list_swigregister", output_set_list_swigregister, METH_VARARGS, NULL}, + { (char *)"output_times_inlist_type_set", _wrap_output_times_inlist_type_set, METH_VARARGS, NULL}, + { (char *)"output_times_inlist_type_get", _wrap_output_times_inlist_type_get, METH_VARARGS, NULL}, + { (char *)"output_times_inlist_step_set", _wrap_output_times_inlist_step_set, METH_VARARGS, NULL}, + { (char *)"output_times_inlist_step_get", _wrap_output_times_inlist_step_get, METH_VARARGS, NULL}, + { (char *)"output_times_inlist_values_set", _wrap_output_times_inlist_values_set, METH_VARARGS, NULL}, + { (char *)"output_times_inlist_values_get", _wrap_output_times_inlist_values_get, METH_VARARGS, NULL}, + { (char *)"new_output_times_inlist", _wrap_new_output_times_inlist, METH_VARARGS, (char *)"new_output_times_inlist() -> output_times_inlist"}, + { (char *)"delete_output_times_inlist", _wrap_delete_output_times_inlist, METH_VARARGS, (char *)"delete_output_times_inlist(self)"}, + { (char *)"output_times_inlist_swigregister", output_times_inlist_swigregister, METH_VARARGS, NULL}, + { (char *)"mcell_get_count", _wrap_mcell_get_count, METH_VARARGS, NULL}, + { (char *)"mcell_new_output_request", _wrap_mcell_new_output_request, METH_VARARGS, NULL}, + { (char *)"mcell_create_new_output_set", _wrap_mcell_create_new_output_set, METH_VARARGS, NULL}, + { (char *)"mcell_prepare_single_count_expr", _wrap_mcell_prepare_single_count_expr, METH_VARARGS, NULL}, + { (char *)"mcell_add_reaction_output_block", _wrap_mcell_add_reaction_output_block, METH_VARARGS, NULL}, + { (char *)"mcell_create_count", _wrap_mcell_create_count, METH_VARARGS, NULL}, + { (char *)"mcell_get_counter_value", _wrap_mcell_get_counter_value, METH_VARARGS, NULL}, + { (char *)"reaction_def_sym_set", _wrap_reaction_def_sym_set, METH_VARARGS, NULL}, + { (char *)"reaction_def_sym_get", _wrap_reaction_def_sym_get, METH_VARARGS, NULL}, + { (char *)"new_reaction_def", _wrap_new_reaction_def, METH_VARARGS, (char *)"new_reaction_def() -> reaction_def"}, + { (char *)"delete_reaction_def", _wrap_delete_reaction_def, METH_VARARGS, (char *)"delete_reaction_def(self)"}, + { (char *)"reaction_def_swigregister", reaction_def_swigregister, METH_VARARGS, NULL}, + { (char *)"release_single_molecule_list_rsm_head_set", _wrap_release_single_molecule_list_rsm_head_set, METH_VARARGS, NULL}, + { (char *)"release_single_molecule_list_rsm_head_get", _wrap_release_single_molecule_list_rsm_head_get, METH_VARARGS, NULL}, + { (char *)"release_single_molecule_list_rsm_tail_set", _wrap_release_single_molecule_list_rsm_tail_set, METH_VARARGS, NULL}, + { (char *)"release_single_molecule_list_rsm_tail_get", _wrap_release_single_molecule_list_rsm_tail_get, METH_VARARGS, NULL}, + { (char *)"release_single_molecule_list_rsm_count_set", _wrap_release_single_molecule_list_rsm_count_set, METH_VARARGS, NULL}, + { (char *)"release_single_molecule_list_rsm_count_get", _wrap_release_single_molecule_list_rsm_count_get, METH_VARARGS, NULL}, + { (char *)"new_release_single_molecule_list", _wrap_new_release_single_molecule_list, METH_VARARGS, (char *)"new_release_single_molecule_list() -> release_single_molecule_list"}, + { (char *)"delete_release_single_molecule_list", _wrap_delete_release_single_molecule_list, METH_VARARGS, (char *)"delete_release_single_molecule_list(self)"}, + { (char *)"release_single_molecule_list_swigregister", release_single_molecule_list_swigregister, METH_VARARGS, NULL}, + { (char *)"reaction_arrow_flags_set", _wrap_reaction_arrow_flags_set, METH_VARARGS, NULL}, + { (char *)"reaction_arrow_flags_get", _wrap_reaction_arrow_flags_get, METH_VARARGS, NULL}, + { (char *)"reaction_arrow_catalyst_set", _wrap_reaction_arrow_catalyst_set, METH_VARARGS, NULL}, + { (char *)"reaction_arrow_catalyst_get", _wrap_reaction_arrow_catalyst_get, METH_VARARGS, NULL}, + { (char *)"new_reaction_arrow", _wrap_new_reaction_arrow, METH_VARARGS, (char *)"new_reaction_arrow() -> reaction_arrow"}, + { (char *)"delete_reaction_arrow", _wrap_delete_reaction_arrow, METH_VARARGS, (char *)"delete_reaction_arrow(self)"}, + { (char *)"reaction_arrow_swigregister", reaction_arrow_swigregister, METH_VARARGS, NULL}, + { (char *)"reaction_rate_rate_type_set", _wrap_reaction_rate_rate_type_set, METH_VARARGS, NULL}, + { (char *)"reaction_rate_rate_type_get", _wrap_reaction_rate_rate_type_get, METH_VARARGS, NULL}, + { (char *)"reaction_rate_v_get", _wrap_reaction_rate_v_get, METH_VARARGS, (char *)"reaction_rate_v_get(self) -> reaction_rate_v"}, + { (char *)"new_reaction_rate", _wrap_new_reaction_rate, METH_VARARGS, (char *)"new_reaction_rate() -> reaction_rate"}, + { (char *)"delete_reaction_rate", _wrap_delete_reaction_rate, METH_VARARGS, (char *)"delete_reaction_rate(self)"}, + { (char *)"reaction_rate_swigregister", reaction_rate_swigregister, METH_VARARGS, NULL}, + { (char *)"reaction_rate_v_rate_constant_set", _wrap_reaction_rate_v_rate_constant_set, METH_VARARGS, NULL}, + { (char *)"reaction_rate_v_rate_constant_get", _wrap_reaction_rate_v_rate_constant_get, METH_VARARGS, NULL}, + { (char *)"reaction_rate_v_rate_file_set", _wrap_reaction_rate_v_rate_file_set, METH_VARARGS, NULL}, + { (char *)"reaction_rate_v_rate_file_get", _wrap_reaction_rate_v_rate_file_get, METH_VARARGS, NULL}, + { (char *)"new_reaction_rate_v", _wrap_new_reaction_rate_v, METH_VARARGS, (char *)"new_reaction_rate_v() -> reaction_rate_v"}, + { (char *)"delete_reaction_rate_v", _wrap_delete_reaction_rate_v, METH_VARARGS, (char *)"delete_reaction_rate_v(self)"}, + { (char *)"reaction_rate_v_swigregister", reaction_rate_v_swigregister, METH_VARARGS, NULL}, + { (char *)"reaction_rates_forward_rate_set", _wrap_reaction_rates_forward_rate_set, METH_VARARGS, NULL}, + { (char *)"reaction_rates_forward_rate_get", _wrap_reaction_rates_forward_rate_get, METH_VARARGS, NULL}, + { (char *)"reaction_rates_backward_rate_set", _wrap_reaction_rates_backward_rate_set, METH_VARARGS, NULL}, + { (char *)"reaction_rates_backward_rate_get", _wrap_reaction_rates_backward_rate_get, METH_VARARGS, NULL}, + { (char *)"new_reaction_rates", _wrap_new_reaction_rates, METH_VARARGS, (char *)"new_reaction_rates() -> reaction_rates"}, + { (char *)"delete_reaction_rates", _wrap_delete_reaction_rates, METH_VARARGS, (char *)"delete_reaction_rates(self)"}, + { (char *)"reaction_rates_swigregister", reaction_rates_swigregister, METH_VARARGS, NULL}, + { (char *)"mcell_modify_multiple_rate_constants", _wrap_mcell_modify_multiple_rate_constants, METH_VARARGS, NULL}, + { (char *)"mcell_modify_rate_constant", _wrap_mcell_modify_rate_constant, METH_VARARGS, NULL}, + { (char *)"mcell_add_reaction_simplified", _wrap_mcell_add_reaction_simplified, METH_VARARGS, NULL}, + { (char *)"mcell_add_reaction", _wrap_mcell_add_reaction, METH_VARARGS, NULL}, + { (char *)"mcell_add_surface_reaction", _wrap_mcell_add_surface_reaction, METH_VARARGS, NULL}, + { (char *)"mcell_add_concentration_clamp", _wrap_mcell_add_concentration_clamp, METH_VARARGS, NULL}, + { (char *)"init_reactions", _wrap_init_reactions, METH_VARARGS, NULL}, + { (char *)"mcell_change_reaction_rate", _wrap_mcell_change_reaction_rate, METH_VARARGS, NULL}, + { (char *)"mcell_create_reaction_rates", _wrap_mcell_create_reaction_rates, METH_VARARGS, NULL}, + { (char *)"mcell_new_rxn_pathname", _wrap_mcell_new_rxn_pathname, METH_VARARGS, NULL}, + { (char *)"mcell_create_list_release_site", _wrap_mcell_create_list_release_site, METH_VARARGS, NULL}, + { (char *)"mcell_create_geometrical_release_site", _wrap_mcell_create_geometrical_release_site, METH_VARARGS, NULL}, + { (char *)"mcell_start_release_site", _wrap_mcell_start_release_site, METH_VARARGS, NULL}, + { (char *)"mcell_finish_release_site", _wrap_mcell_finish_release_site, METH_VARARGS, NULL}, + { (char *)"set_release_site_concentration", _wrap_set_release_site_concentration, METH_VARARGS, NULL}, + { (char *)"mcell_create_region_release", _wrap_mcell_create_region_release, METH_VARARGS, NULL}, + { (char *)"mcell_create_region_release_boolean", _wrap_mcell_create_region_release_boolean, METH_VARARGS, NULL}, + { (char *)"mcell_create_release_pattern", _wrap_mcell_create_release_pattern, METH_VARARGS, NULL}, + { (char *)"mcell_set_release_site_geometry_region", _wrap_mcell_set_release_site_geometry_region, METH_VARARGS, NULL}, + { (char *)"check_release_regions", _wrap_check_release_regions, METH_VARARGS, NULL}, + { (char *)"is_release_site_valid", _wrap_is_release_site_valid, METH_VARARGS, NULL}, + { (char *)"new_release_region_expr_term", _wrap_new_release_region_expr_term, METH_VARARGS, NULL}, + { (char *)"set_release_site_constant_number", _wrap_set_release_site_constant_number, METH_VARARGS, NULL}, + { (char *)"set_release_site_gaussian_number", _wrap_set_release_site_gaussian_number, METH_VARARGS, NULL}, + { (char *)"new_release_region_expr_binary", _wrap_new_release_region_expr_binary, METH_VARARGS, NULL}, + { (char *)"set_release_site_location", _wrap_set_release_site_location, METH_VARARGS, NULL}, + { (char *)"existing_region", _wrap_existing_region, METH_VARARGS, NULL}, + { (char *)"mcell_symbol_next_set", _wrap_mcell_symbol_next_set, METH_VARARGS, NULL}, + { (char *)"mcell_symbol_next_get", _wrap_mcell_symbol_next_get, METH_VARARGS, NULL}, + { (char *)"mcell_symbol_sym_type_set", _wrap_mcell_symbol_sym_type_set, METH_VARARGS, NULL}, + { (char *)"mcell_symbol_sym_type_get", _wrap_mcell_symbol_sym_type_get, METH_VARARGS, NULL}, + { (char *)"mcell_symbol_name_set", _wrap_mcell_symbol_name_set, METH_VARARGS, NULL}, + { (char *)"mcell_symbol_name_get", _wrap_mcell_symbol_name_get, METH_VARARGS, NULL}, + { (char *)"mcell_symbol_value_set", _wrap_mcell_symbol_value_set, METH_VARARGS, NULL}, + { (char *)"mcell_symbol_value_get", _wrap_mcell_symbol_value_get, METH_VARARGS, NULL}, + { (char *)"new_mcell_symbol", _wrap_new_mcell_symbol, METH_VARARGS, (char *)"new_mcell_symbol() -> mcell_symbol"}, + { (char *)"delete_mcell_symbol", _wrap_delete_mcell_symbol, METH_VARARGS, (char *)"delete_mcell_symbol(self)"}, + { (char *)"mcell_symbol_swigregister", mcell_symbol_swigregister, METH_VARARGS, NULL}, + { (char *)"mcell_species_spec_name_set", _wrap_mcell_species_spec_name_set, METH_VARARGS, NULL}, + { (char *)"mcell_species_spec_name_get", _wrap_mcell_species_spec_name_get, METH_VARARGS, NULL}, + { (char *)"mcell_species_spec_D_set", _wrap_mcell_species_spec_D_set, METH_VARARGS, NULL}, + { (char *)"mcell_species_spec_D_get", _wrap_mcell_species_spec_D_get, METH_VARARGS, NULL}, + { (char *)"mcell_species_spec_is_2d_set", _wrap_mcell_species_spec_is_2d_set, METH_VARARGS, NULL}, + { (char *)"mcell_species_spec_is_2d_get", _wrap_mcell_species_spec_is_2d_get, METH_VARARGS, NULL}, + { (char *)"mcell_species_spec_custom_time_step_set", _wrap_mcell_species_spec_custom_time_step_set, METH_VARARGS, NULL}, + { (char *)"mcell_species_spec_custom_time_step_get", _wrap_mcell_species_spec_custom_time_step_get, METH_VARARGS, NULL}, + { (char *)"mcell_species_spec_target_only_set", _wrap_mcell_species_spec_target_only_set, METH_VARARGS, NULL}, + { (char *)"mcell_species_spec_target_only_get", _wrap_mcell_species_spec_target_only_get, METH_VARARGS, NULL}, + { (char *)"mcell_species_spec_max_step_length_set", _wrap_mcell_species_spec_max_step_length_set, METH_VARARGS, NULL}, + { (char *)"mcell_species_spec_max_step_length_get", _wrap_mcell_species_spec_max_step_length_get, METH_VARARGS, NULL}, + { (char *)"mcell_species_spec_space_step_set", _wrap_mcell_species_spec_space_step_set, METH_VARARGS, NULL}, + { (char *)"mcell_species_spec_space_step_get", _wrap_mcell_species_spec_space_step_get, METH_VARARGS, NULL}, + { (char *)"new_mcell_species_spec", _wrap_new_mcell_species_spec, METH_VARARGS, (char *)"new_mcell_species_spec() -> mcell_species_spec"}, + { (char *)"delete_mcell_species_spec", _wrap_delete_mcell_species_spec, METH_VARARGS, (char *)"delete_mcell_species_spec(self)"}, + { (char *)"mcell_species_spec_swigregister", mcell_species_spec_swigregister, METH_VARARGS, NULL}, + { (char *)"mcell_species_next_set", _wrap_mcell_species_next_set, METH_VARARGS, NULL}, + { (char *)"mcell_species_next_get", _wrap_mcell_species_next_get, METH_VARARGS, NULL}, + { (char *)"mcell_species_mol_type_set", _wrap_mcell_species_mol_type_set, METH_VARARGS, NULL}, + { (char *)"mcell_species_mol_type_get", _wrap_mcell_species_mol_type_get, METH_VARARGS, NULL}, + { (char *)"mcell_species_orient_set_set", _wrap_mcell_species_orient_set_set, METH_VARARGS, NULL}, + { (char *)"mcell_species_orient_set_get", _wrap_mcell_species_orient_set_get, METH_VARARGS, NULL}, + { (char *)"mcell_species_orient_set", _wrap_mcell_species_orient_set, METH_VARARGS, NULL}, + { (char *)"mcell_species_orient_get", _wrap_mcell_species_orient_get, METH_VARARGS, NULL}, + { (char *)"new_mcell_species", _wrap_new_mcell_species, METH_VARARGS, (char *)"new_mcell_species() -> mcell_species"}, + { (char *)"delete_mcell_species", _wrap_delete_mcell_species, METH_VARARGS, (char *)"delete_mcell_species(self)"}, + { (char *)"mcell_species_swigregister", mcell_species_swigregister, METH_VARARGS, NULL}, + { (char *)"mcell_species_list_mol_type_head_set", _wrap_mcell_species_list_mol_type_head_set, METH_VARARGS, NULL}, + { (char *)"mcell_species_list_mol_type_head_get", _wrap_mcell_species_list_mol_type_head_get, METH_VARARGS, NULL}, + { (char *)"mcell_species_list_mol_type_tail_set", _wrap_mcell_species_list_mol_type_tail_set, METH_VARARGS, NULL}, + { (char *)"mcell_species_list_mol_type_tail_get", _wrap_mcell_species_list_mol_type_tail_get, METH_VARARGS, NULL}, + { (char *)"new_mcell_species_list", _wrap_new_mcell_species_list, METH_VARARGS, (char *)"new_mcell_species_list() -> mcell_species_list"}, + { (char *)"delete_mcell_species_list", _wrap_delete_mcell_species_list, METH_VARARGS, (char *)"delete_mcell_species_list(self)"}, + { (char *)"mcell_species_list_swigregister", mcell_species_list_swigregister, METH_VARARGS, NULL}, + { (char *)"mcell_create_species", _wrap_mcell_create_species, METH_VARARGS, NULL}, + { (char *)"mcell_add_to_species_list", _wrap_mcell_add_to_species_list, METH_VARARGS, NULL}, + { (char *)"mcell_delete_species_list", _wrap_mcell_delete_species_list, METH_VARARGS, NULL}, + { (char *)"new_mol_species", _wrap_new_mol_species, METH_VARARGS, NULL}, + { (char *)"mcell_create_viz_output", _wrap_mcell_create_viz_output, METH_VARARGS, NULL}, + { (char *)"mcell_new_viz_output_block", _wrap_mcell_new_viz_output_block, METH_VARARGS, NULL}, + { (char *)"mcell_create_viz_frame", _wrap_mcell_create_viz_frame, METH_VARARGS, NULL}, + { (char *)"mcell_set_molecule_viz_state", _wrap_mcell_set_molecule_viz_state, METH_VARARGS, NULL}, + { (char *)"mcell_add_surf_class_properties", _wrap_mcell_add_surf_class_properties, METH_VARARGS, NULL}, + { (char *)"mcell_create_surf_class", _wrap_mcell_create_surf_class, METH_VARARGS, NULL}, + { (char *)"mcell_add_mol_release_to_surf_class", _wrap_mcell_add_mol_release_to_surf_class, METH_VARARGS, NULL}, + { (char *)"mcell_assign_surf_class_to_region", _wrap_mcell_assign_surf_class_to_region, METH_VARARGS, NULL}, + { (char *)"mcell_run_simulation", _wrap_mcell_run_simulation, METH_VARARGS, NULL}, + { (char *)"mcell_run_n_iterations", _wrap_mcell_run_n_iterations, METH_VARARGS, NULL}, + { (char *)"mcell_run_iteration", _wrap_mcell_run_iteration, METH_VARARGS, NULL}, + { (char *)"mcell_flush_data", _wrap_mcell_flush_data, METH_VARARGS, NULL}, + { (char *)"mcell_print_final_warnings", _wrap_mcell_print_final_warnings, METH_VARARGS, NULL}, + { (char *)"mcell_print_final_statistics", _wrap_mcell_print_final_statistics, METH_VARARGS, NULL}, + { (char *)"object_next_set", _wrap_object_next_set, METH_VARARGS, NULL}, + { (char *)"object_next_get", _wrap_object_next_get, METH_VARARGS, NULL}, + { (char *)"object_parent_set", _wrap_object_parent_set, METH_VARARGS, NULL}, + { (char *)"object_parent_get", _wrap_object_parent_get, METH_VARARGS, NULL}, + { (char *)"object_first_child_set", _wrap_object_first_child_set, METH_VARARGS, NULL}, + { (char *)"object_first_child_get", _wrap_object_first_child_get, METH_VARARGS, NULL}, + { (char *)"object_last_child_set", _wrap_object_last_child_set, METH_VARARGS, NULL}, + { (char *)"object_last_child_get", _wrap_object_last_child_get, METH_VARARGS, NULL}, + { (char *)"object_sym_set", _wrap_object_sym_set, METH_VARARGS, NULL}, + { (char *)"object_sym_get", _wrap_object_sym_get, METH_VARARGS, NULL}, + { (char *)"object_last_name_set", _wrap_object_last_name_set, METH_VARARGS, NULL}, + { (char *)"object_last_name_get", _wrap_object_last_name_get, METH_VARARGS, NULL}, + { (char *)"object_object_type_set", _wrap_object_object_type_set, METH_VARARGS, NULL}, + { (char *)"object_object_type_get", _wrap_object_object_type_get, METH_VARARGS, NULL}, + { (char *)"object_contents_set", _wrap_object_contents_set, METH_VARARGS, NULL}, + { (char *)"object_contents_get", _wrap_object_contents_get, METH_VARARGS, NULL}, + { (char *)"object_num_regions_set", _wrap_object_num_regions_set, METH_VARARGS, NULL}, + { (char *)"object_num_regions_get", _wrap_object_num_regions_get, METH_VARARGS, NULL}, + { (char *)"object_regions_set", _wrap_object_regions_set, METH_VARARGS, NULL}, + { (char *)"object_regions_get", _wrap_object_regions_get, METH_VARARGS, NULL}, + { (char *)"object_n_walls_set", _wrap_object_n_walls_set, METH_VARARGS, NULL}, + { (char *)"object_n_walls_get", _wrap_object_n_walls_get, METH_VARARGS, NULL}, + { (char *)"object_n_walls_actual_set", _wrap_object_n_walls_actual_set, METH_VARARGS, NULL}, + { (char *)"object_n_walls_actual_get", _wrap_object_n_walls_actual_get, METH_VARARGS, NULL}, + { (char *)"object_walls_set", _wrap_object_walls_set, METH_VARARGS, NULL}, + { (char *)"object_walls_get", _wrap_object_walls_get, METH_VARARGS, NULL}, + { (char *)"object_wall_p_set", _wrap_object_wall_p_set, METH_VARARGS, NULL}, + { (char *)"object_wall_p_get", _wrap_object_wall_p_get, METH_VARARGS, NULL}, + { (char *)"object_n_verts_set", _wrap_object_n_verts_set, METH_VARARGS, NULL}, + { (char *)"object_n_verts_get", _wrap_object_n_verts_get, METH_VARARGS, NULL}, + { (char *)"object_vertices_set", _wrap_object_vertices_set, METH_VARARGS, NULL}, + { (char *)"object_vertices_get", _wrap_object_vertices_get, METH_VARARGS, NULL}, + { (char *)"object_total_area_set", _wrap_object_total_area_set, METH_VARARGS, NULL}, + { (char *)"object_total_area_get", _wrap_object_total_area_get, METH_VARARGS, NULL}, + { (char *)"object_n_tiles_set", _wrap_object_n_tiles_set, METH_VARARGS, NULL}, + { (char *)"object_n_tiles_get", _wrap_object_n_tiles_get, METH_VARARGS, NULL}, + { (char *)"object_n_occupied_tiles_set", _wrap_object_n_occupied_tiles_set, METH_VARARGS, NULL}, + { (char *)"object_n_occupied_tiles_get", _wrap_object_n_occupied_tiles_get, METH_VARARGS, NULL}, + { (char *)"object_t_matrix_set", _wrap_object_t_matrix_set, METH_VARARGS, NULL}, + { (char *)"object_t_matrix_get", _wrap_object_t_matrix_get, METH_VARARGS, NULL}, + { (char *)"object_periodic_x_set", _wrap_object_periodic_x_set, METH_VARARGS, NULL}, + { (char *)"object_periodic_x_get", _wrap_object_periodic_x_get, METH_VARARGS, NULL}, + { (char *)"object_periodic_y_set", _wrap_object_periodic_y_set, METH_VARARGS, NULL}, + { (char *)"object_periodic_y_get", _wrap_object_periodic_y_get, METH_VARARGS, NULL}, + { (char *)"object_periodic_z_set", _wrap_object_periodic_z_set, METH_VARARGS, NULL}, + { (char *)"object_periodic_z_get", _wrap_object_periodic_z_get, METH_VARARGS, NULL}, + { (char *)"new_object", _wrap_new_object, METH_VARARGS, (char *)"new_object() -> object"}, + { (char *)"delete_object", _wrap_delete_object, METH_VARARGS, (char *)"delete_object(self)"}, + { (char *)"object_swigregister", object_swigregister, METH_VARARGS, NULL}, + { (char *)"release_pattern_sym_set", _wrap_release_pattern_sym_set, METH_VARARGS, NULL}, + { (char *)"release_pattern_sym_get", _wrap_release_pattern_sym_get, METH_VARARGS, NULL}, + { (char *)"release_pattern_delay_set", _wrap_release_pattern_delay_set, METH_VARARGS, NULL}, + { (char *)"release_pattern_delay_get", _wrap_release_pattern_delay_get, METH_VARARGS, NULL}, + { (char *)"release_pattern_release_interval_set", _wrap_release_pattern_release_interval_set, METH_VARARGS, NULL}, + { (char *)"release_pattern_release_interval_get", _wrap_release_pattern_release_interval_get, METH_VARARGS, NULL}, + { (char *)"release_pattern_train_interval_set", _wrap_release_pattern_train_interval_set, METH_VARARGS, NULL}, + { (char *)"release_pattern_train_interval_get", _wrap_release_pattern_train_interval_get, METH_VARARGS, NULL}, + { (char *)"release_pattern_train_duration_set", _wrap_release_pattern_train_duration_set, METH_VARARGS, NULL}, + { (char *)"release_pattern_train_duration_get", _wrap_release_pattern_train_duration_get, METH_VARARGS, NULL}, + { (char *)"release_pattern_number_of_trains_set", _wrap_release_pattern_number_of_trains_set, METH_VARARGS, NULL}, + { (char *)"release_pattern_number_of_trains_get", _wrap_release_pattern_number_of_trains_get, METH_VARARGS, NULL}, + { (char *)"new_release_pattern", _wrap_new_release_pattern, METH_VARARGS, (char *)"new_release_pattern() -> release_pattern"}, + { (char *)"delete_release_pattern", _wrap_delete_release_pattern, METH_VARARGS, (char *)"delete_release_pattern(self)"}, + { (char *)"release_pattern_swigregister", release_pattern_swigregister, METH_VARARGS, NULL}, + { (char *)"release_evaluator_op_set", _wrap_release_evaluator_op_set, METH_VARARGS, NULL}, + { (char *)"release_evaluator_op_get", _wrap_release_evaluator_op_get, METH_VARARGS, NULL}, + { (char *)"release_evaluator_left_set", _wrap_release_evaluator_left_set, METH_VARARGS, NULL}, + { (char *)"release_evaluator_left_get", _wrap_release_evaluator_left_get, METH_VARARGS, NULL}, + { (char *)"release_evaluator_right_set", _wrap_release_evaluator_right_set, METH_VARARGS, NULL}, + { (char *)"release_evaluator_right_get", _wrap_release_evaluator_right_get, METH_VARARGS, NULL}, + { (char *)"new_release_evaluator", _wrap_new_release_evaluator, METH_VARARGS, (char *)"new_release_evaluator() -> release_evaluator"}, + { (char *)"delete_release_evaluator", _wrap_delete_release_evaluator, METH_VARARGS, (char *)"delete_release_evaluator(self)"}, + { (char *)"release_evaluator_swigregister", release_evaluator_swigregister, METH_VARARGS, NULL}, + { (char *)"output_set_next_set", _wrap_output_set_next_set, METH_VARARGS, NULL}, + { (char *)"output_set_next_get", _wrap_output_set_next_get, METH_VARARGS, NULL}, + { (char *)"output_set_block_set", _wrap_output_set_block_set, METH_VARARGS, NULL}, + { (char *)"output_set_block_get", _wrap_output_set_block_get, METH_VARARGS, NULL}, + { (char *)"output_set_outfile_name_set", _wrap_output_set_outfile_name_set, METH_VARARGS, NULL}, + { (char *)"output_set_outfile_name_get", _wrap_output_set_outfile_name_get, METH_VARARGS, NULL}, + { (char *)"output_set_file_flags_set", _wrap_output_set_file_flags_set, METH_VARARGS, NULL}, + { (char *)"output_set_file_flags_get", _wrap_output_set_file_flags_get, METH_VARARGS, NULL}, + { (char *)"output_set_chunk_count_set", _wrap_output_set_chunk_count_set, METH_VARARGS, NULL}, + { (char *)"output_set_chunk_count_get", _wrap_output_set_chunk_count_get, METH_VARARGS, NULL}, + { (char *)"output_set_header_comment_set", _wrap_output_set_header_comment_set, METH_VARARGS, NULL}, + { (char *)"output_set_header_comment_get", _wrap_output_set_header_comment_get, METH_VARARGS, NULL}, + { (char *)"output_set_exact_time_flag_set", _wrap_output_set_exact_time_flag_set, METH_VARARGS, NULL}, + { (char *)"output_set_exact_time_flag_get", _wrap_output_set_exact_time_flag_get, METH_VARARGS, NULL}, + { (char *)"output_set_column_head_set", _wrap_output_set_column_head_set, METH_VARARGS, NULL}, + { (char *)"output_set_column_head_get", _wrap_output_set_column_head_get, METH_VARARGS, NULL}, + { (char *)"new_output_set", _wrap_new_output_set, METH_VARARGS, (char *)"new_output_set() -> output_set"}, + { (char *)"delete_output_set", _wrap_delete_output_set, METH_VARARGS, (char *)"delete_output_set(self)"}, + { (char *)"output_set_swigregister", output_set_swigregister, METH_VARARGS, NULL}, + { (char *)"sym_table_head_entries_set", _wrap_sym_table_head_entries_set, METH_VARARGS, NULL}, + { (char *)"sym_table_head_entries_get", _wrap_sym_table_head_entries_get, METH_VARARGS, NULL}, + { (char *)"sym_table_head_n_entries_set", _wrap_sym_table_head_n_entries_set, METH_VARARGS, NULL}, + { (char *)"sym_table_head_n_entries_get", _wrap_sym_table_head_n_entries_get, METH_VARARGS, NULL}, + { (char *)"sym_table_head_n_bins_set", _wrap_sym_table_head_n_bins_set, METH_VARARGS, NULL}, + { (char *)"sym_table_head_n_bins_get", _wrap_sym_table_head_n_bins_get, METH_VARARGS, NULL}, + { (char *)"new_sym_table_head", _wrap_new_sym_table_head, METH_VARARGS, (char *)"new_sym_table_head() -> sym_table_head"}, + { (char *)"delete_sym_table_head", _wrap_delete_sym_table_head, METH_VARARGS, (char *)"delete_sym_table_head(self)"}, + { (char *)"sym_table_head_swigregister", sym_table_head_swigregister, METH_VARARGS, NULL}, + { (char *)"sym_entry_next_set", _wrap_sym_entry_next_set, METH_VARARGS, NULL}, + { (char *)"sym_entry_next_get", _wrap_sym_entry_next_get, METH_VARARGS, NULL}, + { (char *)"sym_entry_sym_type_set", _wrap_sym_entry_sym_type_set, METH_VARARGS, NULL}, + { (char *)"sym_entry_sym_type_get", _wrap_sym_entry_sym_type_get, METH_VARARGS, NULL}, + { (char *)"sym_entry_name_set", _wrap_sym_entry_name_set, METH_VARARGS, NULL}, + { (char *)"sym_entry_name_get", _wrap_sym_entry_name_get, METH_VARARGS, NULL}, + { (char *)"sym_entry_value_set", _wrap_sym_entry_value_set, METH_VARARGS, NULL}, + { (char *)"sym_entry_value_get", _wrap_sym_entry_value_get, METH_VARARGS, NULL}, + { (char *)"new_sym_entry", _wrap_new_sym_entry, METH_VARARGS, (char *)"new_sym_entry() -> mcell_symbol"}, + { (char *)"delete_sym_entry", _wrap_delete_sym_entry, METH_VARARGS, (char *)"delete_sym_entry(self)"}, + { (char *)"sym_entry_swigregister", sym_entry_swigregister, METH_VARARGS, NULL}, + { (char *)"sym_table_list_next_set", _wrap_sym_table_list_next_set, METH_VARARGS, NULL}, + { (char *)"sym_table_list_next_get", _wrap_sym_table_list_next_get, METH_VARARGS, NULL}, + { (char *)"sym_table_list_node_set", _wrap_sym_table_list_node_set, METH_VARARGS, NULL}, + { (char *)"sym_table_list_node_get", _wrap_sym_table_list_node_get, METH_VARARGS, NULL}, + { (char *)"new_sym_table_list", _wrap_new_sym_table_list, METH_VARARGS, (char *)"new_sym_table_list() -> sym_table_list"}, + { (char *)"delete_sym_table_list", _wrap_delete_sym_table_list, METH_VARARGS, (char *)"delete_sym_table_list(self)"}, + { (char *)"sym_table_list_swigregister", sym_table_list_swigregister, METH_VARARGS, NULL}, + { (char *)"num_expr_list_next_set", _wrap_num_expr_list_next_set, METH_VARARGS, NULL}, + { (char *)"num_expr_list_next_get", _wrap_num_expr_list_next_get, METH_VARARGS, NULL}, + { (char *)"num_expr_list_value_set", _wrap_num_expr_list_value_set, METH_VARARGS, NULL}, + { (char *)"num_expr_list_value_get", _wrap_num_expr_list_value_get, METH_VARARGS, NULL}, + { (char *)"new_num_expr_list", _wrap_new_num_expr_list, METH_VARARGS, (char *)"new_num_expr_list() -> num_expr_list"}, + { (char *)"delete_num_expr_list", _wrap_delete_num_expr_list, METH_VARARGS, (char *)"delete_num_expr_list(self)"}, + { (char *)"num_expr_list_swigregister", num_expr_list_swigregister, METH_VARARGS, NULL}, + { (char *)"mesh_region_string_buffs_old_inst_mesh_names_set", _wrap_mesh_region_string_buffs_old_inst_mesh_names_set, METH_VARARGS, NULL}, + { (char *)"mesh_region_string_buffs_old_inst_mesh_names_get", _wrap_mesh_region_string_buffs_old_inst_mesh_names_get, METH_VARARGS, NULL}, + { (char *)"mesh_region_string_buffs_old_region_names_set", _wrap_mesh_region_string_buffs_old_region_names_set, METH_VARARGS, NULL}, + { (char *)"mesh_region_string_buffs_old_region_names_get", _wrap_mesh_region_string_buffs_old_region_names_get, METH_VARARGS, NULL}, + { (char *)"new_mesh_region_string_buffs", _wrap_new_mesh_region_string_buffs, METH_VARARGS, (char *)"new_mesh_region_string_buffs() -> mesh_region_string_buffs"}, + { (char *)"delete_mesh_region_string_buffs", _wrap_delete_mesh_region_string_buffs, METH_VARARGS, (char *)"delete_mesh_region_string_buffs(self)"}, + { (char *)"mesh_region_string_buffs_swigregister", mesh_region_string_buffs_swigregister, METH_VARARGS, NULL}, + { (char *)"mcell_change_geometry", _wrap_mcell_change_geometry, METH_VARARGS, NULL}, + { (char *)"vector2_u_set", _wrap_vector2_u_set, METH_VARARGS, NULL}, + { (char *)"vector2_u_get", _wrap_vector2_u_get, METH_VARARGS, NULL}, + { (char *)"vector2_v_set", _wrap_vector2_v_set, METH_VARARGS, NULL}, + { (char *)"vector2_v_get", _wrap_vector2_v_get, METH_VARARGS, NULL}, + { (char *)"new_vector2", _wrap_new_vector2, METH_VARARGS, (char *)"new_vector2() -> vector2"}, + { (char *)"delete_vector2", _wrap_delete_vector2, METH_VARARGS, (char *)"delete_vector2(self)"}, + { (char *)"vector2_swigregister", vector2_swigregister, METH_VARARGS, NULL}, + { (char *)"vector3_x_set", _wrap_vector3_x_set, METH_VARARGS, NULL}, + { (char *)"vector3_x_get", _wrap_vector3_x_get, METH_VARARGS, NULL}, + { (char *)"vector3_y_set", _wrap_vector3_y_set, METH_VARARGS, NULL}, + { (char *)"vector3_y_get", _wrap_vector3_y_get, METH_VARARGS, NULL}, + { (char *)"vector3_z_set", _wrap_vector3_z_set, METH_VARARGS, NULL}, + { (char *)"vector3_z_get", _wrap_vector3_z_get, METH_VARARGS, NULL}, + { (char *)"new_vector3", _wrap_new_vector3, METH_VARARGS, (char *)"new_vector3() -> vector3"}, + { (char *)"delete_vector3", _wrap_delete_vector3, METH_VARARGS, (char *)"delete_vector3(self)"}, + { (char *)"vector3_swigregister", vector3_swigregister, METH_VARARGS, NULL}, + { (char *)"mult_matrix", _wrap_mult_matrix, METH_VARARGS, NULL}, + { (char *)"normalize", _wrap_normalize, METH_VARARGS, NULL}, + { (char *)"init_matrix", _wrap_init_matrix, METH_VARARGS, NULL}, + { (char *)"scale_matrix", _wrap_scale_matrix, METH_VARARGS, NULL}, + { (char *)"translate_matrix", _wrap_translate_matrix, METH_VARARGS, NULL}, + { (char *)"rotate_matrix", _wrap_rotate_matrix, METH_VARARGS, NULL}, + { (char *)"tform_matrix", _wrap_tform_matrix, METH_VARARGS, NULL}, + { (char *)"vectorize", _wrap_vectorize, METH_VARARGS, NULL}, + { (char *)"vect_length", _wrap_vect_length, METH_VARARGS, NULL}, + { (char *)"dot_prod", _wrap_dot_prod, METH_VARARGS, NULL}, + { (char *)"cross_prod", _wrap_cross_prod, METH_VARARGS, NULL}, + { (char *)"vect_sum", _wrap_vect_sum, METH_VARARGS, NULL}, + { (char *)"scalar_prod", _wrap_scalar_prod, METH_VARARGS, NULL}, + { (char *)"distinguishable_vec3", _wrap_distinguishable_vec3, METH_VARARGS, NULL}, + { (char *)"distinguishable_vec2", _wrap_distinguishable_vec2, METH_VARARGS, NULL}, + { (char *)"distance_vec3", _wrap_distance_vec3, METH_VARARGS, NULL}, + { (char *)"parallel_segments", _wrap_parallel_segments, METH_VARARGS, NULL}, + { (char *)"point_in_triangle", _wrap_point_in_triangle, METH_VARARGS, NULL}, + { (char *)"same_side", _wrap_same_side, METH_VARARGS, NULL}, + { (char *)"intersect_point_segment", _wrap_intersect_point_segment, METH_VARARGS, NULL}, + { (char *)"cross2D", _wrap_cross2D, METH_VARARGS, NULL}, + { (char *)"vectorize2D", _wrap_vectorize2D, METH_VARARGS, NULL}, + { (char *)"point_in_triangle_2D", _wrap_point_in_triangle_2D, METH_VARARGS, NULL}, + { (char *)"point_in_box", _wrap_point_in_box, METH_VARARGS, NULL}, + { NULL, NULL, 0, NULL } +}; + + +/* -------- TYPE CONVERSION AND EQUIVALENCE RULES (BEGIN) -------- */ + +static swig_type_info _swigt__p_a_4__double = {"_p_a_4__double", "double (*)[4]", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_bit_array = {"_p_bit_array", "struct bit_array *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_char = {"_p_char", "char *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_count_type_t = {"_p_count_type_t", "enum count_type_t *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_double = {"_p_double", "double *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_dyngeom_parse_vars = {"_p_dyngeom_parse_vars", "struct dyngeom_parse_vars *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_element_connection_list = {"_p_element_connection_list", "struct element_connection_list *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_element_list = {"_p_element_list", "struct element_list *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_frame_data_list = {"_p_frame_data_list", "struct frame_data_list *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_int = {"_p_int", "int *|MCELL_STATUS *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_mcell_species = {"_p_mcell_species", "struct mcell_species *|mcell_species *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_mcell_species_list = {"_p_mcell_species_list", "struct mcell_species_list *|mcell_species_list *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_mcell_species_spec = {"_p_mcell_species_spec", "struct mcell_species_spec *|mcell_species_spec *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_mesh_region_string_buffs = {"_p_mesh_region_string_buffs", "struct mesh_region_string_buffs *|mesh_region_string_buffs *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_name_list = {"_p_name_list", "struct name_list *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_notifications = {"_p_notifications", "struct notifications *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_num_expr_list = {"_p_num_expr_list", "struct num_expr_list *|num_expr_list *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_num_expr_list_head = {"_p_num_expr_list_head", "struct num_expr_list_head *|num_expr_list_head *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_object = {"_p_object", "struct object *|object *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_object_creation = {"_p_object_creation", "struct object_creation *|object_creation *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_output_block = {"_p_output_block", "struct output_block *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_output_column = {"_p_output_column", "struct output_column *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_output_column_list = {"_p_output_column_list", "struct output_column_list *|output_column_list *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_output_expression = {"_p_output_expression", "struct output_expression *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_output_request = {"_p_output_request", "struct output_request *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_output_set = {"_p_output_set", "struct output_set *|output_set *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_output_set_list = {"_p_output_set_list", "struct output_set_list *|output_set_list *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_output_times_inlist = {"_p_output_times_inlist", "struct output_times_inlist *|output_times_inlist *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_p_char = {"_p_p_char", "char **", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_p_double = {"_p_p_double", "double **", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_p_object = {"_p_p_object", "struct object **", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_p_sym_entry = {"_p_p_sym_entry", "struct sym_entry **|mcell_symbol **", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_p_vector3 = {"_p_p_vector3", "struct vector3 **", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_p_wall = {"_p_p_wall", "struct wall **", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_periodic_image = {"_p_periodic_image", "struct periodic_image *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_poly_object = {"_p_poly_object", "struct poly_object *|poly_object *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_poly_object_list = {"_p_poly_object_list", "struct poly_object_list *|poly_object_list *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_polygon_object = {"_p_polygon_object", "struct polygon_object *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_reaction_arrow = {"_p_reaction_arrow", "struct reaction_arrow *|reaction_arrow *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_reaction_def = {"_p_reaction_def", "struct reaction_def *|reaction_def *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_reaction_rate = {"_p_reaction_rate", "struct reaction_rate *|reaction_rate *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_reaction_rate_v = {"_p_reaction_rate_v", "reaction_rate_v *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_reaction_rates = {"_p_reaction_rates", "struct reaction_rates *|reaction_rates *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_region = {"_p_region", "struct region *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_region_list = {"_p_region_list", "struct region_list *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_release_evaluator = {"_p_release_evaluator", "struct release_evaluator *|release_evaluator *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_release_pattern = {"_p_release_pattern", "struct release_pattern *|release_pattern *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_release_single_molecule = {"_p_release_single_molecule", "struct release_single_molecule *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_release_single_molecule_list = {"_p_release_single_molecule_list", "struct release_single_molecule_list *|release_single_molecule_list *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_release_site_obj = {"_p_release_site_obj", "struct release_site_obj *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_sm_dat = {"_p_sm_dat", "struct sm_dat *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_species = {"_p_species", "struct species *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_string_buffer = {"_p_string_buffer", "struct string_buffer *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_subdivided_box = {"_p_subdivided_box", "struct subdivided_box *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_sym_entry = {"_p_sym_entry", "struct sym_entry *|sym_entry *|mcell_symbol *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_sym_table_head = {"_p_sym_table_head", "struct sym_table_head *|sym_table_head *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_sym_table_list = {"_p_sym_table_list", "struct sym_table_list *|sym_table_list *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_u_int = {"_p_u_int", "u_int *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_unsigned_char = {"_p_unsigned_char", "unsigned char *|byte *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_vector2 = {"_p_vector2", "struct vector2 *|vector2 *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_vector3 = {"_p_vector3", "struct vector3 *|vector3 *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_vertex_list = {"_p_vertex_list", "struct vertex_list *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_viz_output_block = {"_p_viz_output_block", "struct viz_output_block *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_void = {"_p_void", "void *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_volume = {"_p_volume", "struct volume *|MCELL_STATE *", 0, 0, (void*)0, 0}; +static swig_type_info _swigt__p_wall = {"_p_wall", "struct wall *", 0, 0, (void*)0, 0}; + +static swig_type_info *swig_type_initial[] = { + &_swigt__p_a_4__double, + &_swigt__p_bit_array, + &_swigt__p_char, + &_swigt__p_count_type_t, + &_swigt__p_double, + &_swigt__p_dyngeom_parse_vars, + &_swigt__p_element_connection_list, + &_swigt__p_element_list, + &_swigt__p_frame_data_list, + &_swigt__p_int, + &_swigt__p_mcell_species, + &_swigt__p_mcell_species_list, + &_swigt__p_mcell_species_spec, + &_swigt__p_mesh_region_string_buffs, + &_swigt__p_name_list, + &_swigt__p_notifications, + &_swigt__p_num_expr_list, + &_swigt__p_num_expr_list_head, + &_swigt__p_object, + &_swigt__p_object_creation, + &_swigt__p_output_block, + &_swigt__p_output_column, + &_swigt__p_output_column_list, + &_swigt__p_output_expression, + &_swigt__p_output_request, + &_swigt__p_output_set, + &_swigt__p_output_set_list, + &_swigt__p_output_times_inlist, + &_swigt__p_p_char, + &_swigt__p_p_double, + &_swigt__p_p_object, + &_swigt__p_p_sym_entry, + &_swigt__p_p_vector3, + &_swigt__p_p_wall, + &_swigt__p_periodic_image, + &_swigt__p_poly_object, + &_swigt__p_poly_object_list, + &_swigt__p_polygon_object, + &_swigt__p_reaction_arrow, + &_swigt__p_reaction_def, + &_swigt__p_reaction_rate, + &_swigt__p_reaction_rate_v, + &_swigt__p_reaction_rates, + &_swigt__p_region, + &_swigt__p_region_list, + &_swigt__p_release_evaluator, + &_swigt__p_release_pattern, + &_swigt__p_release_single_molecule, + &_swigt__p_release_single_molecule_list, + &_swigt__p_release_site_obj, + &_swigt__p_sm_dat, + &_swigt__p_species, + &_swigt__p_string_buffer, + &_swigt__p_subdivided_box, + &_swigt__p_sym_entry, + &_swigt__p_sym_table_head, + &_swigt__p_sym_table_list, + &_swigt__p_u_int, + &_swigt__p_unsigned_char, + &_swigt__p_vector2, + &_swigt__p_vector3, + &_swigt__p_vertex_list, + &_swigt__p_viz_output_block, + &_swigt__p_void, + &_swigt__p_volume, + &_swigt__p_wall, +}; + +static swig_cast_info _swigc__p_a_4__double[] = { {&_swigt__p_a_4__double, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_bit_array[] = { {&_swigt__p_bit_array, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_char[] = { {&_swigt__p_char, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_count_type_t[] = { {&_swigt__p_count_type_t, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_double[] = { {&_swigt__p_double, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_dyngeom_parse_vars[] = { {&_swigt__p_dyngeom_parse_vars, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_element_connection_list[] = { {&_swigt__p_element_connection_list, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_element_list[] = { {&_swigt__p_element_list, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_frame_data_list[] = { {&_swigt__p_frame_data_list, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_int[] = { {&_swigt__p_int, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_mcell_species[] = { {&_swigt__p_mcell_species, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_mcell_species_list[] = { {&_swigt__p_mcell_species_list, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_mcell_species_spec[] = { {&_swigt__p_mcell_species_spec, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_mesh_region_string_buffs[] = { {&_swigt__p_mesh_region_string_buffs, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_name_list[] = { {&_swigt__p_name_list, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_notifications[] = { {&_swigt__p_notifications, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_num_expr_list[] = { {&_swigt__p_num_expr_list, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_num_expr_list_head[] = { {&_swigt__p_num_expr_list_head, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_object[] = { {&_swigt__p_object, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_object_creation[] = { {&_swigt__p_object_creation, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_output_block[] = { {&_swigt__p_output_block, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_output_column[] = { {&_swigt__p_output_column, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_output_column_list[] = { {&_swigt__p_output_column_list, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_output_expression[] = { {&_swigt__p_output_expression, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_output_request[] = { {&_swigt__p_output_request, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_output_set[] = { {&_swigt__p_output_set, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_output_set_list[] = { {&_swigt__p_output_set_list, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_output_times_inlist[] = { {&_swigt__p_output_times_inlist, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_p_char[] = { {&_swigt__p_p_char, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_p_double[] = { {&_swigt__p_p_double, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_p_object[] = { {&_swigt__p_p_object, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_p_sym_entry[] = { {&_swigt__p_p_sym_entry, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_p_vector3[] = { {&_swigt__p_p_vector3, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_p_wall[] = { {&_swigt__p_p_wall, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_periodic_image[] = { {&_swigt__p_periodic_image, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_poly_object[] = { {&_swigt__p_poly_object, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_poly_object_list[] = { {&_swigt__p_poly_object_list, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_polygon_object[] = { {&_swigt__p_polygon_object, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_reaction_arrow[] = { {&_swigt__p_reaction_arrow, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_reaction_def[] = { {&_swigt__p_reaction_def, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_reaction_rate[] = { {&_swigt__p_reaction_rate, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_reaction_rate_v[] = { {&_swigt__p_reaction_rate_v, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_reaction_rates[] = { {&_swigt__p_reaction_rates, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_region[] = { {&_swigt__p_region, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_region_list[] = { {&_swigt__p_region_list, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_release_evaluator[] = { {&_swigt__p_release_evaluator, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_release_pattern[] = { {&_swigt__p_release_pattern, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_release_single_molecule[] = { {&_swigt__p_release_single_molecule, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_release_single_molecule_list[] = { {&_swigt__p_release_single_molecule_list, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_release_site_obj[] = { {&_swigt__p_release_site_obj, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_sm_dat[] = { {&_swigt__p_sm_dat, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_species[] = { {&_swigt__p_species, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_string_buffer[] = { {&_swigt__p_string_buffer, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_subdivided_box[] = { {&_swigt__p_subdivided_box, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_sym_entry[] = { {&_swigt__p_sym_entry, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_sym_table_head[] = { {&_swigt__p_sym_table_head, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_sym_table_list[] = { {&_swigt__p_sym_table_list, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_u_int[] = { {&_swigt__p_u_int, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_unsigned_char[] = { {&_swigt__p_unsigned_char, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_vector2[] = { {&_swigt__p_vector2, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_vector3[] = { {&_swigt__p_vector3, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_vertex_list[] = { {&_swigt__p_vertex_list, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_viz_output_block[] = { {&_swigt__p_viz_output_block, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_void[] = { {&_swigt__p_void, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_volume[] = { {&_swigt__p_volume, 0, 0, 0},{0, 0, 0, 0}}; +static swig_cast_info _swigc__p_wall[] = { {&_swigt__p_wall, 0, 0, 0},{0, 0, 0, 0}}; + +static swig_cast_info *swig_cast_initial[] = { + _swigc__p_a_4__double, + _swigc__p_bit_array, + _swigc__p_char, + _swigc__p_count_type_t, + _swigc__p_double, + _swigc__p_dyngeom_parse_vars, + _swigc__p_element_connection_list, + _swigc__p_element_list, + _swigc__p_frame_data_list, + _swigc__p_int, + _swigc__p_mcell_species, + _swigc__p_mcell_species_list, + _swigc__p_mcell_species_spec, + _swigc__p_mesh_region_string_buffs, + _swigc__p_name_list, + _swigc__p_notifications, + _swigc__p_num_expr_list, + _swigc__p_num_expr_list_head, + _swigc__p_object, + _swigc__p_object_creation, + _swigc__p_output_block, + _swigc__p_output_column, + _swigc__p_output_column_list, + _swigc__p_output_expression, + _swigc__p_output_request, + _swigc__p_output_set, + _swigc__p_output_set_list, + _swigc__p_output_times_inlist, + _swigc__p_p_char, + _swigc__p_p_double, + _swigc__p_p_object, + _swigc__p_p_sym_entry, + _swigc__p_p_vector3, + _swigc__p_p_wall, + _swigc__p_periodic_image, + _swigc__p_poly_object, + _swigc__p_poly_object_list, + _swigc__p_polygon_object, + _swigc__p_reaction_arrow, + _swigc__p_reaction_def, + _swigc__p_reaction_rate, + _swigc__p_reaction_rate_v, + _swigc__p_reaction_rates, + _swigc__p_region, + _swigc__p_region_list, + _swigc__p_release_evaluator, + _swigc__p_release_pattern, + _swigc__p_release_single_molecule, + _swigc__p_release_single_molecule_list, + _swigc__p_release_site_obj, + _swigc__p_sm_dat, + _swigc__p_species, + _swigc__p_string_buffer, + _swigc__p_subdivided_box, + _swigc__p_sym_entry, + _swigc__p_sym_table_head, + _swigc__p_sym_table_list, + _swigc__p_u_int, + _swigc__p_unsigned_char, + _swigc__p_vector2, + _swigc__p_vector3, + _swigc__p_vertex_list, + _swigc__p_viz_output_block, + _swigc__p_void, + _swigc__p_volume, + _swigc__p_wall, +}; + + +/* -------- TYPE CONVERSION AND EQUIVALENCE RULES (END) -------- */ + +static swig_const_info swig_const_table[] = { +{0, 0, 0, 0.0, 0, 0}}; + +#ifdef __cplusplus +} +#endif +/* ----------------------------------------------------------------------------- + * Type initialization: + * This problem is tough by the requirement that no dynamic + * memory is used. Also, since swig_type_info structures store pointers to + * swig_cast_info structures and swig_cast_info structures store pointers back + * to swig_type_info structures, we need some lookup code at initialization. + * The idea is that swig generates all the structures that are needed. + * The runtime then collects these partially filled structures. + * The SWIG_InitializeModule function takes these initial arrays out of + * swig_module, and does all the lookup, filling in the swig_module.types + * array with the correct data and linking the correct swig_cast_info + * structures together. + * + * The generated swig_type_info structures are assigned statically to an initial + * array. We just loop through that array, and handle each type individually. + * First we lookup if this type has been already loaded, and if so, use the + * loaded structure instead of the generated one. Then we have to fill in the + * cast linked list. The cast data is initially stored in something like a + * two-dimensional array. Each row corresponds to a type (there are the same + * number of rows as there are in the swig_type_initial array). Each entry in + * a column is one of the swig_cast_info structures for that type. + * The cast_initial array is actually an array of arrays, because each row has + * a variable number of columns. So to actually build the cast linked list, + * we find the array of casts associated with the type, and loop through it + * adding the casts to the list. The one last trick we need to do is making + * sure the type pointer in the swig_cast_info struct is correct. + * + * First off, we lookup the cast->type name to see if it is already loaded. + * There are three cases to handle: + * 1) If the cast->type has already been loaded AND the type we are adding + * casting info to has not been loaded (it is in this module), THEN we + * replace the cast->type pointer with the type pointer that has already + * been loaded. + * 2) If BOTH types (the one we are adding casting info to, and the + * cast->type) are loaded, THEN the cast info has already been loaded by + * the previous module so we just ignore it. + * 3) Finally, if cast->type has not already been loaded, then we add that + * swig_cast_info to the linked list (because the cast->type) pointer will + * be correct. + * ----------------------------------------------------------------------------- */ + +#ifdef __cplusplus +extern "C" { +#if 0 +} /* c-mode */ +#endif +#endif + +#if 0 +#define SWIGRUNTIME_DEBUG +#endif + + +SWIGRUNTIME void +SWIG_InitializeModule(void *clientdata) { + size_t i; + swig_module_info *module_head, *iter; + int init; + + /* check to see if the circular list has been setup, if not, set it up */ + if (swig_module.next==0) { + /* Initialize the swig_module */ + swig_module.type_initial = swig_type_initial; + swig_module.cast_initial = swig_cast_initial; + swig_module.next = &swig_module; + init = 1; + } else { + init = 0; + } + + /* Try and load any already created modules */ + module_head = SWIG_GetModule(clientdata); + if (!module_head) { + /* This is the first module loaded for this interpreter */ + /* so set the swig module into the interpreter */ + SWIG_SetModule(clientdata, &swig_module); + } else { + /* the interpreter has loaded a SWIG module, but has it loaded this one? */ + iter=module_head; + do { + if (iter==&swig_module) { + /* Our module is already in the list, so there's nothing more to do. */ + return; + } + iter=iter->next; + } while (iter!= module_head); + + /* otherwise we must add our module into the list */ + swig_module.next = module_head->next; + module_head->next = &swig_module; + } + + /* When multiple interpreters are used, a module could have already been initialized in + a different interpreter, but not yet have a pointer in this interpreter. + In this case, we do not want to continue adding types... everything should be + set up already */ + if (init == 0) return; + + /* Now work on filling in swig_module.types */ +#ifdef SWIGRUNTIME_DEBUG + printf("SWIG_InitializeModule: size %d\n", swig_module.size); +#endif + for (i = 0; i < swig_module.size; ++i) { + swig_type_info *type = 0; + swig_type_info *ret; + swig_cast_info *cast; + +#ifdef SWIGRUNTIME_DEBUG + printf("SWIG_InitializeModule: type %d %s\n", i, swig_module.type_initial[i]->name); +#endif + + /* if there is another module already loaded */ + if (swig_module.next != &swig_module) { + type = SWIG_MangledTypeQueryModule(swig_module.next, &swig_module, swig_module.type_initial[i]->name); + } + if (type) { + /* Overwrite clientdata field */ +#ifdef SWIGRUNTIME_DEBUG + printf("SWIG_InitializeModule: found type %s\n", type->name); +#endif + if (swig_module.type_initial[i]->clientdata) { + type->clientdata = swig_module.type_initial[i]->clientdata; +#ifdef SWIGRUNTIME_DEBUG + printf("SWIG_InitializeModule: found and overwrite type %s \n", type->name); +#endif + } + } else { + type = swig_module.type_initial[i]; + } + + /* Insert casting types */ + cast = swig_module.cast_initial[i]; + while (cast->type) { + /* Don't need to add information already in the list */ + ret = 0; +#ifdef SWIGRUNTIME_DEBUG + printf("SWIG_InitializeModule: look cast %s\n", cast->type->name); +#endif + if (swig_module.next != &swig_module) { + ret = SWIG_MangledTypeQueryModule(swig_module.next, &swig_module, cast->type->name); +#ifdef SWIGRUNTIME_DEBUG + if (ret) printf("SWIG_InitializeModule: found cast %s\n", ret->name); +#endif + } + if (ret) { + if (type == swig_module.type_initial[i]) { +#ifdef SWIGRUNTIME_DEBUG + printf("SWIG_InitializeModule: skip old type %s\n", ret->name); +#endif + cast->type = ret; + ret = 0; + } else { + /* Check for casting already in the list */ + swig_cast_info *ocast = SWIG_TypeCheck(ret->name, type); +#ifdef SWIGRUNTIME_DEBUG + if (ocast) printf("SWIG_InitializeModule: skip old cast %s\n", ret->name); +#endif + if (!ocast) ret = 0; + } + } + + if (!ret) { +#ifdef SWIGRUNTIME_DEBUG + printf("SWIG_InitializeModule: adding cast %s\n", cast->type->name); +#endif + if (type->cast) { + type->cast->prev = cast; + cast->next = type->cast; + } + type->cast = cast; + } + cast++; + } + /* Set entry in modules->types array equal to the type */ + swig_module.types[i] = type; + } + swig_module.types[i] = 0; + +#ifdef SWIGRUNTIME_DEBUG + printf("**** SWIG_InitializeModule: Cast List ******\n"); + for (i = 0; i < swig_module.size; ++i) { + int j = 0; + swig_cast_info *cast = swig_module.cast_initial[i]; + printf("SWIG_InitializeModule: type %d %s\n", i, swig_module.type_initial[i]->name); + while (cast->type) { + printf("SWIG_InitializeModule: cast type %s\n", cast->type->name); + cast++; + ++j; + } + printf("---- Total casts: %d\n",j); + } + printf("**** SWIG_InitializeModule: Cast List ******\n"); +#endif +} + +/* This function will propagate the clientdata field of type to +* any new swig_type_info structures that have been added into the list +* of equivalent types. It is like calling +* SWIG_TypeClientData(type, clientdata) a second time. +*/ +SWIGRUNTIME void +SWIG_PropagateClientData(void) { + size_t i; + swig_cast_info *equiv; + static int init_run = 0; + + if (init_run) return; + init_run = 1; + + for (i = 0; i < swig_module.size; i++) { + if (swig_module.types[i]->clientdata) { + equiv = swig_module.types[i]->cast; + while (equiv) { + if (!equiv->converter) { + if (equiv->type && !equiv->type->clientdata) + SWIG_TypeClientData(equiv->type, swig_module.types[i]->clientdata); + } + equiv = equiv->next; + } + } + } +} + +#ifdef __cplusplus +#if 0 +{ + /* c-mode */ +#endif +} +#endif + + + +#ifdef __cplusplus +extern "C" { +#endif + + /* Python-specific SWIG API */ +#define SWIG_newvarlink() SWIG_Python_newvarlink() +#define SWIG_addvarlink(p, name, get_attr, set_attr) SWIG_Python_addvarlink(p, name, get_attr, set_attr) +#define SWIG_InstallConstants(d, constants) SWIG_Python_InstallConstants(d, constants) + + /* ----------------------------------------------------------------------------- + * global variable support code. + * ----------------------------------------------------------------------------- */ + + typedef struct swig_globalvar { + char *name; /* Name of global variable */ + PyObject *(*get_attr)(void); /* Return the current value */ + int (*set_attr)(PyObject *); /* Set the value */ + struct swig_globalvar *next; + } swig_globalvar; + + typedef struct swig_varlinkobject { + PyObject_HEAD + swig_globalvar *vars; + } swig_varlinkobject; + + SWIGINTERN PyObject * + swig_varlink_repr(swig_varlinkobject *SWIGUNUSEDPARM(v)) { +#if PY_VERSION_HEX >= 0x03000000 + return PyUnicode_InternFromString(""); +#else + return PyString_FromString(""); +#endif + } + + SWIGINTERN PyObject * + swig_varlink_str(swig_varlinkobject *v) { +#if PY_VERSION_HEX >= 0x03000000 + PyObject *str = PyUnicode_InternFromString("("); + PyObject *tail; + PyObject *joined; + swig_globalvar *var; + for (var = v->vars; var; var=var->next) { + tail = PyUnicode_FromString(var->name); + joined = PyUnicode_Concat(str, tail); + Py_DecRef(str); + Py_DecRef(tail); + str = joined; + if (var->next) { + tail = PyUnicode_InternFromString(", "); + joined = PyUnicode_Concat(str, tail); + Py_DecRef(str); + Py_DecRef(tail); + str = joined; + } + } + tail = PyUnicode_InternFromString(")"); + joined = PyUnicode_Concat(str, tail); + Py_DecRef(str); + Py_DecRef(tail); + str = joined; +#else + PyObject *str = PyString_FromString("("); + swig_globalvar *var; + for (var = v->vars; var; var=var->next) { + PyString_ConcatAndDel(&str,PyString_FromString(var->name)); + if (var->next) PyString_ConcatAndDel(&str,PyString_FromString(", ")); + } + PyString_ConcatAndDel(&str,PyString_FromString(")")); +#endif + return str; + } + + SWIGINTERN int + swig_varlink_print(swig_varlinkobject *v, FILE *fp, int SWIGUNUSEDPARM(flags)) { + char *tmp; + PyObject *str = swig_varlink_str(v); + fprintf(fp,"Swig global variables "); + fprintf(fp,"%s\n", tmp = SWIG_Python_str_AsChar(str)); + SWIG_Python_str_DelForPy3(tmp); + Py_DECREF(str); + return 0; + } + + SWIGINTERN void + swig_varlink_dealloc(swig_varlinkobject *v) { + swig_globalvar *var = v->vars; + while (var) { + swig_globalvar *n = var->next; + free(var->name); + free(var); + var = n; + } + } + + SWIGINTERN PyObject * + swig_varlink_getattr(swig_varlinkobject *v, char *n) { + PyObject *res = NULL; + swig_globalvar *var = v->vars; + while (var) { + if (strcmp(var->name,n) == 0) { + res = (*var->get_attr)(); + break; + } + var = var->next; + } + if (res == NULL && !PyErr_Occurred()) { + PyErr_Format(PyExc_AttributeError, "Unknown C global variable '%s'", n); + } + return res; + } + + SWIGINTERN int + swig_varlink_setattr(swig_varlinkobject *v, char *n, PyObject *p) { + int res = 1; + swig_globalvar *var = v->vars; + while (var) { + if (strcmp(var->name,n) == 0) { + res = (*var->set_attr)(p); + break; + } + var = var->next; + } + if (res == 1 && !PyErr_Occurred()) { + PyErr_Format(PyExc_AttributeError, "Unknown C global variable '%s'", n); + } + return res; + } + + SWIGINTERN PyTypeObject* + swig_varlink_type(void) { + static char varlink__doc__[] = "Swig var link object"; + static PyTypeObject varlink_type; + static int type_init = 0; + if (!type_init) { + const PyTypeObject tmp = { + /* PyObject header changed in Python 3 */ +#if PY_VERSION_HEX >= 0x03000000 + PyVarObject_HEAD_INIT(NULL, 0) +#else + PyObject_HEAD_INIT(NULL) + 0, /* ob_size */ +#endif + (char *)"swigvarlink", /* tp_name */ + sizeof(swig_varlinkobject), /* tp_basicsize */ + 0, /* tp_itemsize */ + (destructor) swig_varlink_dealloc, /* tp_dealloc */ + (printfunc) swig_varlink_print, /* tp_print */ + (getattrfunc) swig_varlink_getattr, /* tp_getattr */ + (setattrfunc) swig_varlink_setattr, /* tp_setattr */ + 0, /* tp_compare */ + (reprfunc) swig_varlink_repr, /* tp_repr */ + 0, /* tp_as_number */ + 0, /* tp_as_sequence */ + 0, /* tp_as_mapping */ + 0, /* tp_hash */ + 0, /* tp_call */ + (reprfunc) swig_varlink_str, /* tp_str */ + 0, /* tp_getattro */ + 0, /* tp_setattro */ + 0, /* tp_as_buffer */ + 0, /* tp_flags */ + varlink__doc__, /* tp_doc */ + 0, /* tp_traverse */ + 0, /* tp_clear */ + 0, /* tp_richcompare */ + 0, /* tp_weaklistoffset */ +#if PY_VERSION_HEX >= 0x02020000 + 0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0, /* tp_iter -> tp_weaklist */ +#endif +#if PY_VERSION_HEX >= 0x02030000 + 0, /* tp_del */ +#endif +#if PY_VERSION_HEX >= 0x02060000 + 0, /* tp_version_tag */ +#endif +#if PY_VERSION_HEX >= 0x03040000 + 0, /* tp_finalize */ +#endif +#ifdef COUNT_ALLOCS + 0, /* tp_allocs */ + 0, /* tp_frees */ + 0, /* tp_maxalloc */ +#if PY_VERSION_HEX >= 0x02050000 + 0, /* tp_prev */ +#endif + 0 /* tp_next */ +#endif + }; + varlink_type = tmp; + type_init = 1; +#if PY_VERSION_HEX < 0x02020000 + varlink_type.ob_type = &PyType_Type; +#else + if (PyType_Ready(&varlink_type) < 0) + return NULL; +#endif + } + return &varlink_type; + } + + /* Create a variable linking object for use later */ + SWIGINTERN PyObject * + SWIG_Python_newvarlink(void) { + swig_varlinkobject *result = PyObject_NEW(swig_varlinkobject, swig_varlink_type()); + if (result) { + result->vars = 0; + } + return ((PyObject*) result); + } + + SWIGINTERN void + SWIG_Python_addvarlink(PyObject *p, char *name, PyObject *(*get_attr)(void), int (*set_attr)(PyObject *p)) { + swig_varlinkobject *v = (swig_varlinkobject *) p; + swig_globalvar *gv = (swig_globalvar *) malloc(sizeof(swig_globalvar)); + if (gv) { + size_t size = strlen(name)+1; + gv->name = (char *)malloc(size); + if (gv->name) { + strncpy(gv->name,name,size); + gv->get_attr = get_attr; + gv->set_attr = set_attr; + gv->next = v->vars; + } + } + v->vars = gv; + } + + SWIGINTERN PyObject * + SWIG_globals(void) { + static PyObject *_SWIG_globals = 0; + if (!_SWIG_globals) _SWIG_globals = SWIG_newvarlink(); + return _SWIG_globals; + } + + /* ----------------------------------------------------------------------------- + * constants/methods manipulation + * ----------------------------------------------------------------------------- */ + + /* Install Constants */ + SWIGINTERN void + SWIG_Python_InstallConstants(PyObject *d, swig_const_info constants[]) { + PyObject *obj = 0; + size_t i; + for (i = 0; constants[i].type; ++i) { + switch(constants[i].type) { + case SWIG_PY_POINTER: + obj = SWIG_InternalNewPointerObj(constants[i].pvalue, *(constants[i]).ptype,0); + break; + case SWIG_PY_BINARY: + obj = SWIG_NewPackedObj(constants[i].pvalue, constants[i].lvalue, *(constants[i].ptype)); + break; + default: + obj = 0; + break; + } + if (obj) { + PyDict_SetItemString(d, constants[i].name, obj); + Py_DECREF(obj); + } + } + } + + /* -----------------------------------------------------------------------------*/ + /* Fix SwigMethods to carry the callback ptrs when needed */ + /* -----------------------------------------------------------------------------*/ + + SWIGINTERN void + SWIG_Python_FixMethods(PyMethodDef *methods, + swig_const_info *const_table, + swig_type_info **types, + swig_type_info **types_initial) { + size_t i; + for (i = 0; methods[i].ml_name; ++i) { + const char *c = methods[i].ml_doc; + if (!c) continue; + c = strstr(c, "swig_ptr: "); + if (c) { + int j; + swig_const_info *ci = 0; + const char *name = c + 10; + for (j = 0; const_table[j].type; ++j) { + if (strncmp(const_table[j].name, name, + strlen(const_table[j].name)) == 0) { + ci = &(const_table[j]); + break; + } + } + if (ci) { + void *ptr = (ci->type == SWIG_PY_POINTER) ? ci->pvalue : 0; + if (ptr) { + size_t shift = (ci->ptype) - types; + swig_type_info *ty = types_initial[shift]; + size_t ldoc = (c - methods[i].ml_doc); + size_t lptr = strlen(ty->name)+2*sizeof(void*)+2; + char *ndoc = (char*)malloc(ldoc + lptr + 10); + if (ndoc) { + char *buff = ndoc; + strncpy(buff, methods[i].ml_doc, ldoc); + buff += ldoc; + strncpy(buff, "swig_ptr: ", 10); + buff += 10; + SWIG_PackVoidPtr(buff, ptr, ty->name, lptr); + methods[i].ml_doc = ndoc; + } + } + } + } + } + } + +#ifdef __cplusplus +} +#endif + +/* -----------------------------------------------------------------------------* + * Partial Init method + * -----------------------------------------------------------------------------*/ + +#ifdef __cplusplus +extern "C" +#endif + +SWIGEXPORT +#if PY_VERSION_HEX >= 0x03000000 +PyObject* +#else +void +#endif +SWIG_init(void) { + PyObject *m, *d, *md; +#if PY_VERSION_HEX >= 0x03000000 + static struct PyModuleDef SWIG_module = { +# if PY_VERSION_HEX >= 0x03020000 + PyModuleDef_HEAD_INIT, +# else + { + PyObject_HEAD_INIT(NULL) + NULL, /* m_init */ + 0, /* m_index */ + NULL, /* m_copy */ + }, +# endif + (char *) SWIG_name, + NULL, + -1, + SwigMethods, + NULL, + NULL, + NULL, + NULL + }; +#endif + +#if defined(SWIGPYTHON_BUILTIN) + static SwigPyClientData SwigPyObject_clientdata = { + 0, 0, 0, 0, 0, 0, 0 + }; + static PyGetSetDef this_getset_def = { + (char *)"this", &SwigPyBuiltin_ThisClosure, NULL, NULL, NULL + }; + static SwigPyGetSet thisown_getset_closure = { + (PyCFunction) SwigPyObject_own, + (PyCFunction) SwigPyObject_own + }; + static PyGetSetDef thisown_getset_def = { + (char *)"thisown", SwigPyBuiltin_GetterClosure, SwigPyBuiltin_SetterClosure, NULL, &thisown_getset_closure + }; + PyObject *metatype_args; + PyTypeObject *builtin_pytype; + int builtin_base_count; + swig_type_info *builtin_basetype; + PyObject *tuple; + PyGetSetDescrObject *static_getset; + PyTypeObject *metatype; + SwigPyClientData *cd; + PyObject *public_interface, *public_symbol; + PyObject *this_descr; + PyObject *thisown_descr; + PyObject *self = 0; + int i; + + (void)builtin_pytype; + (void)builtin_base_count; + (void)builtin_basetype; + (void)tuple; + (void)static_getset; + (void)self; + + /* metatype is used to implement static member variables. */ + metatype_args = Py_BuildValue("(s(O){})", "SwigPyObjectType", &PyType_Type); + assert(metatype_args); + metatype = (PyTypeObject *) PyType_Type.tp_call((PyObject *) &PyType_Type, metatype_args, NULL); + assert(metatype); + Py_DECREF(metatype_args); + metatype->tp_setattro = (setattrofunc) &SwigPyObjectType_setattro; + assert(PyType_Ready(metatype) >= 0); +#endif + + /* Fix SwigMethods to carry the callback ptrs when needed */ + SWIG_Python_FixMethods(SwigMethods, swig_const_table, swig_types, swig_type_initial); + +#if PY_VERSION_HEX >= 0x03000000 + m = PyModule_Create(&SWIG_module); +#else + m = Py_InitModule((char *) SWIG_name, SwigMethods); +#endif + + md = d = PyModule_GetDict(m); + (void)md; + + SWIG_InitializeModule(0); + +#ifdef SWIGPYTHON_BUILTIN + SwigPyObject_stype = SWIG_MangledTypeQuery("_p_SwigPyObject"); + assert(SwigPyObject_stype); + cd = (SwigPyClientData*) SwigPyObject_stype->clientdata; + if (!cd) { + SwigPyObject_stype->clientdata = &SwigPyObject_clientdata; + SwigPyObject_clientdata.pytype = SwigPyObject_TypeOnce(); + } else if (SwigPyObject_TypeOnce()->tp_basicsize != cd->pytype->tp_basicsize) { + PyErr_SetString(PyExc_RuntimeError, "Import error: attempted to load two incompatible swig-generated modules."); +# if PY_VERSION_HEX >= 0x03000000 + return NULL; +# else + return; +# endif + } + + /* All objects have a 'this' attribute */ + this_descr = PyDescr_NewGetSet(SwigPyObject_type(), &this_getset_def); + (void)this_descr; + + /* All objects have a 'thisown' attribute */ + thisown_descr = PyDescr_NewGetSet(SwigPyObject_type(), &thisown_getset_def); + (void)thisown_descr; + + public_interface = PyList_New(0); + public_symbol = 0; + (void)public_symbol; + + PyDict_SetItemString(md, "__all__", public_interface); + Py_DECREF(public_interface); + for (i = 0; SwigMethods[i].ml_name != NULL; ++i) + SwigPyBuiltin_AddPublicSymbol(public_interface, SwigMethods[i].ml_name); + for (i = 0; swig_const_table[i].name != 0; ++i) + SwigPyBuiltin_AddPublicSymbol(public_interface, swig_const_table[i].name); +#endif + + SWIG_InstallConstants(d,swig_const_table); + + SWIG_Python_SetConstant(d, "MCELL_SUCCESS",SWIG_From_int((int)(0))); + SWIG_Python_SetConstant(d, "MCELL_FAIL",SWIG_From_int((int)(1))); + SWIG_Python_SetConstant(d, "REGULAR_ARROW",SWIG_From_int((int)(0x00))); + SWIG_Python_SetConstant(d, "ARROW_BIDIRECTIONAL",SWIG_From_int((int)(0x01))); + SWIG_Python_SetConstant(d, "ARROW_CATALYTIC",SWIG_From_int((int)(0x02))); + SWIG_Python_SetConstant(d, "RATE_UNSET",SWIG_From_int((int)(RATE_UNSET))); + SWIG_Python_SetConstant(d, "RATE_CONSTANT",SWIG_From_int((int)(RATE_CONSTANT))); + SWIG_Python_SetConstant(d, "RATE_FILE",SWIG_From_int((int)(RATE_FILE))); + SWIG_Python_SetConstant(d, "RFLCT",SWIG_From_int((int)(RFLCT))); + SWIG_Python_SetConstant(d, "TRANSP",SWIG_From_int((int)(TRANSP))); + SWIG_Python_SetConstant(d, "SINK",SWIG_From_int((int)(SINK))); + SWIG_Python_SetConstant(d, "ORIENT_NOT_SET",SWIG_From_int((int)(-100))); + SWIG_Python_SetConstant(d, "SHAPE_UNDEFINED",SWIG_From_int((int)(SHAPE_UNDEFINED))); + SWIG_Python_SetConstant(d, "SHAPE_SPHERICAL",SWIG_From_int((int)(SHAPE_SPHERICAL))); + SWIG_Python_SetConstant(d, "SHAPE_CUBIC",SWIG_From_int((int)(SHAPE_CUBIC))); + SWIG_Python_SetConstant(d, "SHAPE_ELLIPTIC",SWIG_From_int((int)(SHAPE_ELLIPTIC))); + SWIG_Python_SetConstant(d, "SHAPE_RECTANGULAR",SWIG_From_int((int)(SHAPE_RECTANGULAR))); + SWIG_Python_SetConstant(d, "SHAPE_SPHERICAL_SHELL",SWIG_From_int((int)(SHAPE_SPHERICAL_SHELL))); + SWIG_Python_SetConstant(d, "SHAPE_REGION",SWIG_From_int((int)(SHAPE_REGION))); + SWIG_Python_SetConstant(d, "SHAPE_LIST",SWIG_From_int((int)(SHAPE_LIST))); + SWIG_Python_SetConstant(d, "NOTIFY_NONE",SWIG_From_int((int)(NOTIFY_NONE))); + SWIG_Python_SetConstant(d, "NOTIFY_BRIEF",SWIG_From_int((int)(NOTIFY_BRIEF))); + SWIG_Python_SetConstant(d, "NOTIFY_FULL",SWIG_From_int((int)(NOTIFY_FULL))); + SWIG_Python_SetConstant(d, "WARN_COPE",SWIG_From_int((int)(WARN_COPE))); + SWIG_Python_SetConstant(d, "WARN_WARN",SWIG_From_int((int)(WARN_WARN))); + SWIG_Python_SetConstant(d, "WARN_ERROR",SWIG_From_int((int)(WARN_ERROR))); + SWIG_Python_SetConstant(d, "FILE_UNDEFINED",SWIG_From_int((int)(FILE_UNDEFINED))); + SWIG_Python_SetConstant(d, "FILE_OVERWRITE",SWIG_From_int((int)(FILE_OVERWRITE))); + SWIG_Python_SetConstant(d, "FILE_SUBSTITUTE",SWIG_From_int((int)(FILE_SUBSTITUTE))); + SWIG_Python_SetConstant(d, "FILE_APPEND",SWIG_From_int((int)(FILE_APPEND))); + SWIG_Python_SetConstant(d, "FILE_APPEND_HEADER",SWIG_From_int((int)(FILE_APPEND_HEADER))); + SWIG_Python_SetConstant(d, "FILE_CREATE",SWIG_From_int((int)(FILE_CREATE))); + SWIG_Python_SetConstant(d, "REPORT_CONTENTS",SWIG_From_int((int)(1))); + SWIG_Python_SetConstant(d, "REPORT_WORLD",SWIG_From_int((int)(0x20))); + SWIG_Python_SetConstant(d, "REPORT_ENCLOSED",SWIG_From_int((int)(0x40))); + SWIG_Python_SetConstant(d, "REPORT_TRIGGER",SWIG_From_int((int)(0x80))); + SWIG_Python_SetConstant(d, "OUTPUT_BY_STEP",SWIG_From_int((int)(OUTPUT_BY_STEP))); + SWIG_Python_SetConstant(d, "OUTPUT_BY_TIME_LIST",SWIG_From_int((int)(OUTPUT_BY_TIME_LIST))); + SWIG_Python_SetConstant(d, "OUTPUT_BY_ITERATION_LIST",SWIG_From_int((int)(OUTPUT_BY_ITERATION_LIST))); +#if PY_VERSION_HEX >= 0x03000000 + return m; +#else + return; +#endif +} + diff --git a/src/react.h b/mcell/react.h similarity index 100% rename from src/react.h rename to mcell/react.h diff --git a/src/react_cond.c b/mcell/react_cond.c similarity index 100% rename from src/react_cond.c rename to mcell/react_cond.c diff --git a/src/react_nfsim.h b/mcell/react_nfsim.h similarity index 100% rename from src/react_nfsim.h rename to mcell/react_nfsim.h diff --git a/src/react_outc.c b/mcell/react_outc.c similarity index 100% rename from src/react_outc.c rename to mcell/react_outc.c diff --git a/src/react_outc_nfsim.c b/mcell/react_outc_nfsim.c similarity index 100% rename from src/react_outc_nfsim.c rename to mcell/react_outc_nfsim.c diff --git a/src/react_outc_trimol.c b/mcell/react_outc_trimol.c similarity index 100% rename from src/react_outc_trimol.c rename to mcell/react_outc_trimol.c diff --git a/src/react_output.c b/mcell/react_output.c similarity index 100% rename from src/react_output.c rename to mcell/react_output.c diff --git a/src/react_output.h b/mcell/react_output.h similarity index 100% rename from src/react_output.h rename to mcell/react_output.h diff --git a/src/react_trig.c b/mcell/react_trig.c similarity index 100% rename from src/react_trig.c rename to mcell/react_trig.c diff --git a/src/react_trig_nfsim.c b/mcell/react_trig_nfsim.c similarity index 100% rename from src/react_trig_nfsim.c rename to mcell/react_trig_nfsim.c diff --git a/src/react_util.c b/mcell/react_util.c similarity index 100% rename from src/react_util.c rename to mcell/react_util.c diff --git a/src/react_util.h b/mcell/react_util.h similarity index 100% rename from src/react_util.h rename to mcell/react_util.h diff --git a/src/react_util_nfsim.c b/mcell/react_util_nfsim.c similarity index 100% rename from src/react_util_nfsim.c rename to mcell/react_util_nfsim.c diff --git a/src/rng.c b/mcell/rng.c similarity index 100% rename from src/rng.c rename to mcell/rng.c diff --git a/src/rng.h b/mcell/rng.h similarity index 100% rename from src/rng.h rename to mcell/rng.h diff --git a/src/rules_py/grammar_definition.py b/mcell/rules_py/grammar_definition.py similarity index 100% rename from src/rules_py/grammar_definition.py rename to mcell/rules_py/grammar_definition.py diff --git a/src/rules_py/mcell3r.py b/mcell/rules_py/mcell3r.py similarity index 100% rename from src/rules_py/mcell3r.py rename to mcell/rules_py/mcell3r.py diff --git a/src/rules_py/mdlr2mdl.py b/mcell/rules_py/mdlr2mdl.py similarity index 100% rename from src/rules_py/mdlr2mdl.py rename to mcell/rules_py/mdlr2mdl.py diff --git a/src/rules_py/nfsim_python.py b/mcell/rules_py/nfsim_python.py similarity index 100% rename from src/rules_py/nfsim_python.py rename to mcell/rules_py/nfsim_python.py diff --git a/src/rules_py/postprocess_mcell3r.py b/mcell/rules_py/postprocess_mcell3r.py similarity index 100% rename from src/rules_py/postprocess_mcell3r.py rename to mcell/rules_py/postprocess_mcell3r.py diff --git a/src/rules_py/read_bngxml.py b/mcell/rules_py/read_bngxml.py similarity index 100% rename from src/rules_py/read_bngxml.py rename to mcell/rules_py/read_bngxml.py diff --git a/src/rules_py/read_mdl.py b/mcell/rules_py/read_mdl.py similarity index 100% rename from src/rules_py/read_mdl.py rename to mcell/rules_py/read_mdl.py diff --git a/src/rules_py/small_structures.py b/mcell/rules_py/small_structures.py similarity index 100% rename from src/rules_py/small_structures.py rename to mcell/rules_py/small_structures.py diff --git a/src/rules_py/split_bngxml.py b/mcell/rules_py/split_bngxml.py similarity index 100% rename from src/rules_py/split_bngxml.py rename to mcell/rules_py/split_bngxml.py diff --git a/src/rules_py/write_bngxmle.py b/mcell/rules_py/write_bngxmle.py similarity index 100% rename from src/rules_py/write_bngxmle.py rename to mcell/rules_py/write_bngxmle.py diff --git a/src/rules_py/write_mdl.py b/mcell/rules_py/write_mdl.py similarity index 100% rename from src/rules_py/write_mdl.py rename to mcell/rules_py/write_mdl.py diff --git a/src/sched_util.c b/mcell/sched_util.c similarity index 100% rename from src/sched_util.c rename to mcell/sched_util.c diff --git a/src/sched_util.h b/mcell/sched_util.h similarity index 100% rename from src/sched_util.h rename to mcell/sched_util.h diff --git a/src/strfunc.c b/mcell/strfunc.c similarity index 100% rename from src/strfunc.c rename to mcell/strfunc.c diff --git a/src/strfunc.h b/mcell/strfunc.h similarity index 100% rename from src/strfunc.h rename to mcell/strfunc.h diff --git a/src/sym_table.c b/mcell/sym_table.c similarity index 100% rename from src/sym_table.c rename to mcell/sym_table.c diff --git a/src/sym_table.h b/mcell/sym_table.h similarity index 100% rename from src/sym_table.h rename to mcell/sym_table.h diff --git a/src/test_api.c b/mcell/test_api.c similarity index 100% rename from src/test_api.c rename to mcell/test_api.c diff --git a/src/test_api.h b/mcell/test_api.h similarity index 100% rename from src/test_api.h rename to mcell/test_api.h diff --git a/src/triangle_overlap.c b/mcell/triangle_overlap.c similarity index 100% rename from src/triangle_overlap.c rename to mcell/triangle_overlap.c diff --git a/src/triangle_overlap.h b/mcell/triangle_overlap.h similarity index 100% rename from src/triangle_overlap.h rename to mcell/triangle_overlap.h diff --git a/src/util.c b/mcell/util.c similarity index 100% rename from src/util.c rename to mcell/util.c diff --git a/src/util.h b/mcell/util.h similarity index 100% rename from src/util.h rename to mcell/util.h diff --git a/src/vector.c b/mcell/vector.c similarity index 100% rename from src/vector.c rename to mcell/vector.c diff --git a/src/vector.h b/mcell/vector.h similarity index 100% rename from src/vector.h rename to mcell/vector.h diff --git a/src/vector.i b/mcell/vector.i similarity index 100% rename from src/vector.i rename to mcell/vector.i diff --git a/mcell/version.h b/mcell/version.h new file mode 100644 index 000000000..710ed9a99 --- /dev/null +++ b/mcell/version.h @@ -0,0 +1,41 @@ +/**************************************************************** + * This file is automatically generated. Do not edit it. + * version.h updated at Thu Jun 22 18:15:41 EDT 2017 on oberon by jczech + ****************************************************************/ + +/* Program version info */ +#define MCELL_VERSION "3.4" +#define MCELL_REVISION "bc89eb1" +#define MCELL_REVISION_DATE "Tue, 20 Jun 2017 15:48:07 -0400" +#define MCELL_REVISION_COMMITTED 1 +#define MCELL_REVISION_BRANCH "master" + +/* Build info */ +#define MCELL_BUILDDATE "Thu Jun 22 18:15:41 EDT 2017" +#define MCELL_BUILDUSER "jczech" +#define MCELL_BUILDHOST "oberon" +#define MCELL_SRCDIR "/home/jczech/mcell/source/mcell/src" +#define MCELL_BUILDDIR "/home/jczech/mcell/source/mcell/build" +#define MCELL_BUILDUNAME "Linux oberon 4.4.0-79-generic #100-Ubuntu SMP Wed May 17 19:58:14 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux" + +/* Tool identity and version info */ +#define MCELL_FLEX "flex" +#define MCELL_FLEX_PATH "/usr/bin/flex" +#define MCELL_FLEX_VERSION "flex 2.6.0" +#define MCELL_FLEX_FLAGS "-Crema" +#define MCELL_BISON "bison" +#define MCELL_BISON_PATH "/usr/bin/bison" +#define MCELL_BISON_VERSION "bison (GNU Bison) 3.0.4" +#define MCELL_BISON_FLAGS "" +#define MCELL_CC "gcc" +#define MCELL_CC_PATH "/usr/bin/gcc" +#define MCELL_CC_VERSION "gcc (Ubuntu 5.4.0-6ubuntu1~16.04.4) 5.4.0 20160609" +#define MCELL_LD "ld" +#define MCELL_LD_PATH "/usr/bin/ld" +#define MCELL_LD_VERSION "GNU ld (GNU Binutils for Ubuntu) 2.26.1" + +/* Build options */ +#define MCELL_LFLAGS "-Crema" +#define MCELL_YFLAGS "" +#define MCELL_CFLAGS "-g -O2" +#define MCELL_LDFLAGS "" diff --git a/src/version.sh b/mcell/version.sh similarity index 100% rename from src/version.sh rename to mcell/version.sh diff --git a/src/version.txt b/mcell/version.txt similarity index 100% rename from src/version.txt rename to mcell/version.txt diff --git a/src/version_info.c b/mcell/version_info.c similarity index 100% rename from src/version_info.c rename to mcell/version_info.c diff --git a/src/version_info.h b/mcell/version_info.h similarity index 100% rename from src/version_info.h rename to mcell/version_info.h diff --git a/src/viz_output.c b/mcell/viz_output.c similarity index 100% rename from src/viz_output.c rename to mcell/viz_output.c diff --git a/src/viz_output.h b/mcell/viz_output.h similarity index 100% rename from src/viz_output.h rename to mcell/viz_output.h diff --git a/src/vol_util.c b/mcell/vol_util.c similarity index 100% rename from src/vol_util.c rename to mcell/vol_util.c diff --git a/src/vol_util.h b/mcell/vol_util.h similarity index 100% rename from src/vol_util.h rename to mcell/vol_util.h diff --git a/src/volume_output.c b/mcell/volume_output.c similarity index 100% rename from src/volume_output.c rename to mcell/volume_output.c diff --git a/src/volume_output.h b/mcell/volume_output.h similarity index 100% rename from src/volume_output.h rename to mcell/volume_output.h diff --git a/src/wall_util.c b/mcell/wall_util.c similarity index 100% rename from src/wall_util.c rename to mcell/wall_util.c diff --git a/src/wall_util.h b/mcell/wall_util.h similarity index 100% rename from src/wall_util.h rename to mcell/wall_util.h diff --git a/src/ylwrapfix b/mcell/ylwrapfix similarity index 100% rename from src/ylwrapfix rename to mcell/ylwrapfix diff --git a/setup.py b/setup.py index f9d942a80..ae84acb74 100644 --- a/setup.py +++ b/setup.py @@ -21,9 +21,9 @@ from distutils.version import LooseVersion from setuptools.command.build_ext import build_ext -# def disallow_python2(): -# if sys.version_info[0] == 2: -# sys.exit("Sorry, Python 2 is not supported.") +def disallow_python2(): + if sys.version_info[0] == 2: + sys.exit("Sorry, Python 2 is not supported.") # Code for cmake extensions from (c45488d on Jun 10, 2016), with minor # modifications: @@ -98,6 +98,7 @@ def build_extension(self, ext): class CustomBuild(build): def run(self): # TODO: some of these lines can be trimmed down eventually + disallow_python2() if not os.path.exists("build"): os.makedirs("build") shutil.copy("./appveyor_windows/config.h", "./src") @@ -106,12 +107,12 @@ def run(self): shutil.copy("./src/data_model_import.py", ".") self.run_command('build_ext') - shutil.copy("./src/pymcell.py", ".") + # shutil.copy("./src/pymcell.py", ".") build.run(self) class CustomSDist(sdist): def run(self): - # disallow_python2() + disallow_python2() sdist.run(self) # mcell_module = CMakeExtension( @@ -182,13 +183,11 @@ def run(self): py_modules=['pymcell'], version='0.1', author="The MCell team", - python_requires='>=3', description="""Python bindings to libmcell""", author_email="mcell-devel@salk.edu", url="https://github.com/mcellteam/mcell", download_url="https://github.com/mcellteam/mcell/archive/pymcell_0.1.tar.gz", ext_modules=ext_modules, license='GPL v2', - packages=find_packages(), - cmdclass={'build_ext': CMakeBuild, 'build': CustomBuild, 'sdist': CustomSDist}, + cmdclass={'build_ext': CMakeBuild, 'sdist': CustomSDist}, ) From 2dccc3c276904322920f51135b17a3d6eff5ddf7 Mon Sep 17 00:00:00 2001 From: andreavs Date: Thu, 26 Apr 2018 00:52:16 -0700 Subject: [PATCH 04/28] moved more files --- {mcell => pymcell}/pymcell_examples/box.py | 0 {mcell => pymcell}/pymcell_examples/lipidraft.json | 0 {mcell => pymcell}/pymcell_examples/lipidraft.txt | Bin .../pymcell_examples/pymcell_test.ipynb | 0 {mcell => pymcell}/pymcell_examples/test.json | 0 {mcell => pymcell}/pymcell_examples/test_api.py | 0 {mcell => pymcell}/pymcell_examples/test_bool.py | 0 {mcell => pymcell}/pymcell_examples/test_dm_read.py | 0 .../pymcell_examples/test_mcell_neuron_python.py | 0 .../pymcell_examples/test_release_list.py | 0 .../pymcell_examples/test_release_pattern.py | 0 {mcell => pymcell}/pymcell_examples/torus.py | 0 12 files changed, 0 insertions(+), 0 deletions(-) rename {mcell => pymcell}/pymcell_examples/box.py (100%) rename {mcell => pymcell}/pymcell_examples/lipidraft.json (100%) rename {mcell => pymcell}/pymcell_examples/lipidraft.txt (100%) rename {mcell => pymcell}/pymcell_examples/pymcell_test.ipynb (100%) rename {mcell => pymcell}/pymcell_examples/test.json (100%) rename {mcell => pymcell}/pymcell_examples/test_api.py (100%) rename {mcell => pymcell}/pymcell_examples/test_bool.py (100%) rename {mcell => pymcell}/pymcell_examples/test_dm_read.py (100%) rename {mcell => pymcell}/pymcell_examples/test_mcell_neuron_python.py (100%) rename {mcell => pymcell}/pymcell_examples/test_release_list.py (100%) rename {mcell => pymcell}/pymcell_examples/test_release_pattern.py (100%) rename {mcell => pymcell}/pymcell_examples/torus.py (100%) diff --git a/mcell/pymcell_examples/box.py b/pymcell/pymcell_examples/box.py similarity index 100% rename from mcell/pymcell_examples/box.py rename to pymcell/pymcell_examples/box.py diff --git a/mcell/pymcell_examples/lipidraft.json b/pymcell/pymcell_examples/lipidraft.json similarity index 100% rename from mcell/pymcell_examples/lipidraft.json rename to pymcell/pymcell_examples/lipidraft.json diff --git a/mcell/pymcell_examples/lipidraft.txt b/pymcell/pymcell_examples/lipidraft.txt similarity index 100% rename from mcell/pymcell_examples/lipidraft.txt rename to pymcell/pymcell_examples/lipidraft.txt diff --git a/mcell/pymcell_examples/pymcell_test.ipynb b/pymcell/pymcell_examples/pymcell_test.ipynb similarity index 100% rename from mcell/pymcell_examples/pymcell_test.ipynb rename to pymcell/pymcell_examples/pymcell_test.ipynb diff --git a/mcell/pymcell_examples/test.json b/pymcell/pymcell_examples/test.json similarity index 100% rename from mcell/pymcell_examples/test.json rename to pymcell/pymcell_examples/test.json diff --git a/mcell/pymcell_examples/test_api.py b/pymcell/pymcell_examples/test_api.py similarity index 100% rename from mcell/pymcell_examples/test_api.py rename to pymcell/pymcell_examples/test_api.py diff --git a/mcell/pymcell_examples/test_bool.py b/pymcell/pymcell_examples/test_bool.py similarity index 100% rename from mcell/pymcell_examples/test_bool.py rename to pymcell/pymcell_examples/test_bool.py diff --git a/mcell/pymcell_examples/test_dm_read.py b/pymcell/pymcell_examples/test_dm_read.py similarity index 100% rename from mcell/pymcell_examples/test_dm_read.py rename to pymcell/pymcell_examples/test_dm_read.py diff --git a/mcell/pymcell_examples/test_mcell_neuron_python.py b/pymcell/pymcell_examples/test_mcell_neuron_python.py similarity index 100% rename from mcell/pymcell_examples/test_mcell_neuron_python.py rename to pymcell/pymcell_examples/test_mcell_neuron_python.py diff --git a/mcell/pymcell_examples/test_release_list.py b/pymcell/pymcell_examples/test_release_list.py similarity index 100% rename from mcell/pymcell_examples/test_release_list.py rename to pymcell/pymcell_examples/test_release_list.py diff --git a/mcell/pymcell_examples/test_release_pattern.py b/pymcell/pymcell_examples/test_release_pattern.py similarity index 100% rename from mcell/pymcell_examples/test_release_pattern.py rename to pymcell/pymcell_examples/test_release_pattern.py diff --git a/mcell/pymcell_examples/torus.py b/pymcell/pymcell_examples/torus.py similarity index 100% rename from mcell/pymcell_examples/torus.py rename to pymcell/pymcell_examples/torus.py From 8609063ca7daae5b813b3e37e8c79490e228e31a Mon Sep 17 00:00:00 2001 From: andreavs Date: Thu, 26 Apr 2018 01:03:35 -0700 Subject: [PATCH 05/28] moved more files --- {mcell => pymcell}/__init__.py | 0 {mcell => pymcell}/data_model_import.py | 0 {mcell => pymcell}/pymcell.py | 0 {mcell => pymcell}/pymcell_helpers.py | 0 {mcell => pymcell}/pymcell_unittests.py | 0 5 files changed, 0 insertions(+), 0 deletions(-) rename {mcell => pymcell}/__init__.py (100%) rename {mcell => pymcell}/data_model_import.py (100%) rename {mcell => pymcell}/pymcell.py (100%) rename {mcell => pymcell}/pymcell_helpers.py (100%) rename {mcell => pymcell}/pymcell_unittests.py (100%) diff --git a/mcell/__init__.py b/pymcell/__init__.py similarity index 100% rename from mcell/__init__.py rename to pymcell/__init__.py diff --git a/mcell/data_model_import.py b/pymcell/data_model_import.py similarity index 100% rename from mcell/data_model_import.py rename to pymcell/data_model_import.py diff --git a/mcell/pymcell.py b/pymcell/pymcell.py similarity index 100% rename from mcell/pymcell.py rename to pymcell/pymcell.py diff --git a/mcell/pymcell_helpers.py b/pymcell/pymcell_helpers.py similarity index 100% rename from mcell/pymcell_helpers.py rename to pymcell/pymcell_helpers.py diff --git a/mcell/pymcell_unittests.py b/pymcell/pymcell_unittests.py similarity index 100% rename from mcell/pymcell_unittests.py rename to pymcell/pymcell_unittests.py From b77f9f12314293dc8fe732390c35c15c8f4c00e4 Mon Sep 17 00:00:00 2001 From: andreavs Date: Thu, 26 Apr 2018 01:24:09 -0700 Subject: [PATCH 06/28] moved even more files --- {mcell => pymcell}/rules_py/grammar_definition.py | 0 {mcell => pymcell}/rules_py/mcell3r.py | 0 {mcell => pymcell}/rules_py/mdlr2mdl.py | 0 {mcell => pymcell}/rules_py/nfsim_python.py | 0 {mcell => pymcell}/rules_py/postprocess_mcell3r.py | 0 {mcell => pymcell}/rules_py/read_bngxml.py | 0 {mcell => pymcell}/rules_py/read_mdl.py | 0 {mcell => pymcell}/rules_py/small_structures.py | 0 {mcell => pymcell}/rules_py/split_bngxml.py | 0 {mcell => pymcell}/rules_py/write_bngxmle.py | 0 {mcell => pymcell}/rules_py/write_mdl.py | 0 11 files changed, 0 insertions(+), 0 deletions(-) rename {mcell => pymcell}/rules_py/grammar_definition.py (100%) rename {mcell => pymcell}/rules_py/mcell3r.py (100%) rename {mcell => pymcell}/rules_py/mdlr2mdl.py (100%) rename {mcell => pymcell}/rules_py/nfsim_python.py (100%) rename {mcell => pymcell}/rules_py/postprocess_mcell3r.py (100%) rename {mcell => pymcell}/rules_py/read_bngxml.py (100%) rename {mcell => pymcell}/rules_py/read_mdl.py (100%) rename {mcell => pymcell}/rules_py/small_structures.py (100%) rename {mcell => pymcell}/rules_py/split_bngxml.py (100%) rename {mcell => pymcell}/rules_py/write_bngxmle.py (100%) rename {mcell => pymcell}/rules_py/write_mdl.py (100%) diff --git a/mcell/rules_py/grammar_definition.py b/pymcell/rules_py/grammar_definition.py similarity index 100% rename from mcell/rules_py/grammar_definition.py rename to pymcell/rules_py/grammar_definition.py diff --git a/mcell/rules_py/mcell3r.py b/pymcell/rules_py/mcell3r.py similarity index 100% rename from mcell/rules_py/mcell3r.py rename to pymcell/rules_py/mcell3r.py diff --git a/mcell/rules_py/mdlr2mdl.py b/pymcell/rules_py/mdlr2mdl.py similarity index 100% rename from mcell/rules_py/mdlr2mdl.py rename to pymcell/rules_py/mdlr2mdl.py diff --git a/mcell/rules_py/nfsim_python.py b/pymcell/rules_py/nfsim_python.py similarity index 100% rename from mcell/rules_py/nfsim_python.py rename to pymcell/rules_py/nfsim_python.py diff --git a/mcell/rules_py/postprocess_mcell3r.py b/pymcell/rules_py/postprocess_mcell3r.py similarity index 100% rename from mcell/rules_py/postprocess_mcell3r.py rename to pymcell/rules_py/postprocess_mcell3r.py diff --git a/mcell/rules_py/read_bngxml.py b/pymcell/rules_py/read_bngxml.py similarity index 100% rename from mcell/rules_py/read_bngxml.py rename to pymcell/rules_py/read_bngxml.py diff --git a/mcell/rules_py/read_mdl.py b/pymcell/rules_py/read_mdl.py similarity index 100% rename from mcell/rules_py/read_mdl.py rename to pymcell/rules_py/read_mdl.py diff --git a/mcell/rules_py/small_structures.py b/pymcell/rules_py/small_structures.py similarity index 100% rename from mcell/rules_py/small_structures.py rename to pymcell/rules_py/small_structures.py diff --git a/mcell/rules_py/split_bngxml.py b/pymcell/rules_py/split_bngxml.py similarity index 100% rename from mcell/rules_py/split_bngxml.py rename to pymcell/rules_py/split_bngxml.py diff --git a/mcell/rules_py/write_bngxmle.py b/pymcell/rules_py/write_bngxmle.py similarity index 100% rename from mcell/rules_py/write_bngxmle.py rename to pymcell/rules_py/write_bngxmle.py diff --git a/mcell/rules_py/write_mdl.py b/pymcell/rules_py/write_mdl.py similarity index 100% rename from mcell/rules_py/write_mdl.py rename to pymcell/rules_py/write_mdl.py From 4c72d96a2dda0f0ac61198f28169d51df5b252d0 Mon Sep 17 00:00:00 2001 From: andreavs Date: Thu, 26 Apr 2018 11:29:19 -0700 Subject: [PATCH 07/28] here i go moving files again --- mcell/{ => src}/argparse.c | 0 mcell/{ => src}/argparse.h | 0 mcell/{ => src}/chkpt.c | 0 mcell/{ => src}/chkpt.h | 0 mcell/{ => src}/config-nix.h | 0 mcell/{ => src}/config-win.h | 0 mcell/{ => src}/config.h | 0 mcell/{ => src}/count_util.c | 0 mcell/{ => src}/count_util.h | 0 mcell/{ => src}/diffuse.c | 0 mcell/{ => src}/diffuse.h | 0 mcell/{ => src}/diffuse_trimol.c | 0 mcell/{ => src}/diffuse_util.c | 0 mcell/{ => src}/diffuse_util.h | 0 mcell/{ => src}/dyngeom.c | 0 mcell/{ => src}/dyngeom.h | 0 mcell/{ => src}/dyngeom_lex.c | 0 mcell/{ => src}/dyngeom_parse_extras.c | 0 mcell/{ => src}/dyngeom_parse_extras.h | 0 mcell/{ => src}/dyngeom_yacc.c | 0 mcell/{ => src}/dyngeom_yacc.h | 0 mcell/{ => src}/grid_util.c | 0 mcell/{ => src}/grid_util.h | 0 mcell/{ => src}/hashmap.c | 0 mcell/{ => src}/hashmap.h | 0 mcell/{ => src}/init.c | 0 mcell/{ => src}/init.h | 0 mcell/{ => src}/isaac64.c | 0 mcell/{ => src}/isaac64.h | 0 mcell/{ => src}/libmcell_test.c | 0 mcell/{ => src}/logging.c | 0 mcell/{ => src}/logging.h | 0 mcell/{ => src}/mcell.c | 0 mcell/{ => src}/mcell_dyngeom.c | 0 mcell/{ => src}/mcell_dyngeom.h | 0 mcell/{ => src}/mcell_init.c | 0 mcell/{ => src}/mcell_init.h | 0 mcell/{ => src}/mcell_misc.c | 0 mcell/{ => src}/mcell_misc.h | 0 mcell/{ => src}/mcell_objects.c | 0 mcell/{ => src}/mcell_objects.h | 0 mcell/{ => src}/mcell_react_out.c | 0 mcell/{ => src}/mcell_react_out.h | 0 mcell/{ => src}/mcell_reactions.c | 0 mcell/{ => src}/mcell_reactions.h | 0 mcell/{ => src}/mcell_release.c | 0 mcell/{ => src}/mcell_release.h | 0 mcell/{ => src}/mcell_run.c | 0 mcell/{ => src}/mcell_run.h | 0 mcell/{ => src}/mcell_species.c | 0 mcell/{ => src}/mcell_species.h | 0 mcell/{ => src}/mcell_structs.h | 0 mcell/{ => src}/mcell_surfclass.c | 0 mcell/{ => src}/mcell_surfclass.h | 0 mcell/{ => src}/mcell_viz.c | 0 mcell/{ => src}/mcell_viz.h | 0 mcell/{ => src}/mdlparse_aux.h | 0 mcell/{ => src}/mdlparse_util.c | 0 mcell/{ => src}/mdlparse_util.h | 0 mcell/{ => src}/mem_util.c | 0 mcell/{ => src}/mem_util.h | 0 mcell/{ => src}/minrng.c | 0 mcell/{ => src}/minrng.h | 0 mcell/{ => src}/nfsim_func.c | 0 mcell/{ => src}/nfsim_func.h | 0 mcell/{ => src}/pymcell_wrap.c | 0 mcell/{ => src}/react.h | 0 mcell/{ => src}/react_cond.c | 0 mcell/{ => src}/react_nfsim.h | 0 mcell/{ => src}/react_outc.c | 0 mcell/{ => src}/react_outc_nfsim.c | 0 mcell/{ => src}/react_outc_trimol.c | 0 mcell/{ => src}/react_output.c | 0 mcell/{ => src}/react_output.h | 0 mcell/{ => src}/react_trig.c | 0 mcell/{ => src}/react_trig_nfsim.c | 0 mcell/{ => src}/react_util.c | 0 mcell/{ => src}/react_util.h | 0 mcell/{ => src}/react_util_nfsim.c | 0 mcell/{ => src}/rng.c | 0 mcell/{ => src}/rng.h | 0 mcell/{ => src}/sched_util.c | 0 mcell/{ => src}/sched_util.h | 0 mcell/{ => src}/strfunc.c | 0 mcell/{ => src}/strfunc.h | 0 mcell/{ => src}/sym_table.c | 0 mcell/{ => src}/sym_table.h | 0 mcell/{ => src}/test_api.c | 0 mcell/{ => src}/test_api.h | 0 mcell/{ => src}/triangle_overlap.c | 0 mcell/{ => src}/triangle_overlap.h | 0 mcell/{ => src}/util.c | 0 mcell/{ => src}/util.h | 0 mcell/{ => src}/vector.c | 0 mcell/{ => src}/vector.h | 0 mcell/{ => src}/version.h | 0 mcell/{ => src}/version_info.c | 0 mcell/{ => src}/version_info.h | 0 mcell/{ => src}/viz_output.c | 0 mcell/{ => src}/viz_output.h | 0 mcell/{ => src}/vol_util.c | 0 mcell/{ => src}/vol_util.h | 0 mcell/{ => src}/volume_output.c | 0 mcell/{ => src}/volume_output.h | 0 mcell/{ => src}/wall_util.c | 0 mcell/{ => src}/wall_util.h | 0 requirements.py | 68 -------------------------- setup.py | 5 +- 108 files changed, 4 insertions(+), 69 deletions(-) rename mcell/{ => src}/argparse.c (100%) rename mcell/{ => src}/argparse.h (100%) rename mcell/{ => src}/chkpt.c (100%) rename mcell/{ => src}/chkpt.h (100%) rename mcell/{ => src}/config-nix.h (100%) rename mcell/{ => src}/config-win.h (100%) rename mcell/{ => src}/config.h (100%) rename mcell/{ => src}/count_util.c (100%) rename mcell/{ => src}/count_util.h (100%) rename mcell/{ => src}/diffuse.c (100%) rename mcell/{ => src}/diffuse.h (100%) rename mcell/{ => src}/diffuse_trimol.c (100%) rename mcell/{ => src}/diffuse_util.c (100%) rename mcell/{ => src}/diffuse_util.h (100%) rename mcell/{ => src}/dyngeom.c (100%) rename mcell/{ => src}/dyngeom.h (100%) rename mcell/{ => src}/dyngeom_lex.c (100%) rename mcell/{ => src}/dyngeom_parse_extras.c (100%) rename mcell/{ => src}/dyngeom_parse_extras.h (100%) rename mcell/{ => src}/dyngeom_yacc.c (100%) rename mcell/{ => src}/dyngeom_yacc.h (100%) rename mcell/{ => src}/grid_util.c (100%) rename mcell/{ => src}/grid_util.h (100%) rename mcell/{ => src}/hashmap.c (100%) rename mcell/{ => src}/hashmap.h (100%) rename mcell/{ => src}/init.c (100%) rename mcell/{ => src}/init.h (100%) rename mcell/{ => src}/isaac64.c (100%) rename mcell/{ => src}/isaac64.h (100%) rename mcell/{ => src}/libmcell_test.c (100%) rename mcell/{ => src}/logging.c (100%) rename mcell/{ => src}/logging.h (100%) rename mcell/{ => src}/mcell.c (100%) rename mcell/{ => src}/mcell_dyngeom.c (100%) rename mcell/{ => src}/mcell_dyngeom.h (100%) rename mcell/{ => src}/mcell_init.c (100%) rename mcell/{ => src}/mcell_init.h (100%) rename mcell/{ => src}/mcell_misc.c (100%) rename mcell/{ => src}/mcell_misc.h (100%) rename mcell/{ => src}/mcell_objects.c (100%) rename mcell/{ => src}/mcell_objects.h (100%) rename mcell/{ => src}/mcell_react_out.c (100%) rename mcell/{ => src}/mcell_react_out.h (100%) rename mcell/{ => src}/mcell_reactions.c (100%) rename mcell/{ => src}/mcell_reactions.h (100%) rename mcell/{ => src}/mcell_release.c (100%) rename mcell/{ => src}/mcell_release.h (100%) rename mcell/{ => src}/mcell_run.c (100%) rename mcell/{ => src}/mcell_run.h (100%) rename mcell/{ => src}/mcell_species.c (100%) rename mcell/{ => src}/mcell_species.h (100%) rename mcell/{ => src}/mcell_structs.h (100%) rename mcell/{ => src}/mcell_surfclass.c (100%) rename mcell/{ => src}/mcell_surfclass.h (100%) rename mcell/{ => src}/mcell_viz.c (100%) rename mcell/{ => src}/mcell_viz.h (100%) rename mcell/{ => src}/mdlparse_aux.h (100%) rename mcell/{ => src}/mdlparse_util.c (100%) rename mcell/{ => src}/mdlparse_util.h (100%) rename mcell/{ => src}/mem_util.c (100%) rename mcell/{ => src}/mem_util.h (100%) rename mcell/{ => src}/minrng.c (100%) rename mcell/{ => src}/minrng.h (100%) rename mcell/{ => src}/nfsim_func.c (100%) rename mcell/{ => src}/nfsim_func.h (100%) rename mcell/{ => src}/pymcell_wrap.c (100%) rename mcell/{ => src}/react.h (100%) rename mcell/{ => src}/react_cond.c (100%) rename mcell/{ => src}/react_nfsim.h (100%) rename mcell/{ => src}/react_outc.c (100%) rename mcell/{ => src}/react_outc_nfsim.c (100%) rename mcell/{ => src}/react_outc_trimol.c (100%) rename mcell/{ => src}/react_output.c (100%) rename mcell/{ => src}/react_output.h (100%) rename mcell/{ => src}/react_trig.c (100%) rename mcell/{ => src}/react_trig_nfsim.c (100%) rename mcell/{ => src}/react_util.c (100%) rename mcell/{ => src}/react_util.h (100%) rename mcell/{ => src}/react_util_nfsim.c (100%) rename mcell/{ => src}/rng.c (100%) rename mcell/{ => src}/rng.h (100%) rename mcell/{ => src}/sched_util.c (100%) rename mcell/{ => src}/sched_util.h (100%) rename mcell/{ => src}/strfunc.c (100%) rename mcell/{ => src}/strfunc.h (100%) rename mcell/{ => src}/sym_table.c (100%) rename mcell/{ => src}/sym_table.h (100%) rename mcell/{ => src}/test_api.c (100%) rename mcell/{ => src}/test_api.h (100%) rename mcell/{ => src}/triangle_overlap.c (100%) rename mcell/{ => src}/triangle_overlap.h (100%) rename mcell/{ => src}/util.c (100%) rename mcell/{ => src}/util.h (100%) rename mcell/{ => src}/vector.c (100%) rename mcell/{ => src}/vector.h (100%) rename mcell/{ => src}/version.h (100%) rename mcell/{ => src}/version_info.c (100%) rename mcell/{ => src}/version_info.h (100%) rename mcell/{ => src}/viz_output.c (100%) rename mcell/{ => src}/viz_output.h (100%) rename mcell/{ => src}/vol_util.c (100%) rename mcell/{ => src}/vol_util.h (100%) rename mcell/{ => src}/volume_output.c (100%) rename mcell/{ => src}/volume_output.h (100%) rename mcell/{ => src}/wall_util.c (100%) rename mcell/{ => src}/wall_util.h (100%) delete mode 100644 requirements.py diff --git a/mcell/argparse.c b/mcell/src/argparse.c similarity index 100% rename from mcell/argparse.c rename to mcell/src/argparse.c diff --git a/mcell/argparse.h b/mcell/src/argparse.h similarity index 100% rename from mcell/argparse.h rename to mcell/src/argparse.h diff --git a/mcell/chkpt.c b/mcell/src/chkpt.c similarity index 100% rename from mcell/chkpt.c rename to mcell/src/chkpt.c diff --git a/mcell/chkpt.h b/mcell/src/chkpt.h similarity index 100% rename from mcell/chkpt.h rename to mcell/src/chkpt.h diff --git a/mcell/config-nix.h b/mcell/src/config-nix.h similarity index 100% rename from mcell/config-nix.h rename to mcell/src/config-nix.h diff --git a/mcell/config-win.h b/mcell/src/config-win.h similarity index 100% rename from mcell/config-win.h rename to mcell/src/config-win.h diff --git a/mcell/config.h b/mcell/src/config.h similarity index 100% rename from mcell/config.h rename to mcell/src/config.h diff --git a/mcell/count_util.c b/mcell/src/count_util.c similarity index 100% rename from mcell/count_util.c rename to mcell/src/count_util.c diff --git a/mcell/count_util.h b/mcell/src/count_util.h similarity index 100% rename from mcell/count_util.h rename to mcell/src/count_util.h diff --git a/mcell/diffuse.c b/mcell/src/diffuse.c similarity index 100% rename from mcell/diffuse.c rename to mcell/src/diffuse.c diff --git a/mcell/diffuse.h b/mcell/src/diffuse.h similarity index 100% rename from mcell/diffuse.h rename to mcell/src/diffuse.h diff --git a/mcell/diffuse_trimol.c b/mcell/src/diffuse_trimol.c similarity index 100% rename from mcell/diffuse_trimol.c rename to mcell/src/diffuse_trimol.c diff --git a/mcell/diffuse_util.c b/mcell/src/diffuse_util.c similarity index 100% rename from mcell/diffuse_util.c rename to mcell/src/diffuse_util.c diff --git a/mcell/diffuse_util.h b/mcell/src/diffuse_util.h similarity index 100% rename from mcell/diffuse_util.h rename to mcell/src/diffuse_util.h diff --git a/mcell/dyngeom.c b/mcell/src/dyngeom.c similarity index 100% rename from mcell/dyngeom.c rename to mcell/src/dyngeom.c diff --git a/mcell/dyngeom.h b/mcell/src/dyngeom.h similarity index 100% rename from mcell/dyngeom.h rename to mcell/src/dyngeom.h diff --git a/mcell/dyngeom_lex.c b/mcell/src/dyngeom_lex.c similarity index 100% rename from mcell/dyngeom_lex.c rename to mcell/src/dyngeom_lex.c diff --git a/mcell/dyngeom_parse_extras.c b/mcell/src/dyngeom_parse_extras.c similarity index 100% rename from mcell/dyngeom_parse_extras.c rename to mcell/src/dyngeom_parse_extras.c diff --git a/mcell/dyngeom_parse_extras.h b/mcell/src/dyngeom_parse_extras.h similarity index 100% rename from mcell/dyngeom_parse_extras.h rename to mcell/src/dyngeom_parse_extras.h diff --git a/mcell/dyngeom_yacc.c b/mcell/src/dyngeom_yacc.c similarity index 100% rename from mcell/dyngeom_yacc.c rename to mcell/src/dyngeom_yacc.c diff --git a/mcell/dyngeom_yacc.h b/mcell/src/dyngeom_yacc.h similarity index 100% rename from mcell/dyngeom_yacc.h rename to mcell/src/dyngeom_yacc.h diff --git a/mcell/grid_util.c b/mcell/src/grid_util.c similarity index 100% rename from mcell/grid_util.c rename to mcell/src/grid_util.c diff --git a/mcell/grid_util.h b/mcell/src/grid_util.h similarity index 100% rename from mcell/grid_util.h rename to mcell/src/grid_util.h diff --git a/mcell/hashmap.c b/mcell/src/hashmap.c similarity index 100% rename from mcell/hashmap.c rename to mcell/src/hashmap.c diff --git a/mcell/hashmap.h b/mcell/src/hashmap.h similarity index 100% rename from mcell/hashmap.h rename to mcell/src/hashmap.h diff --git a/mcell/init.c b/mcell/src/init.c similarity index 100% rename from mcell/init.c rename to mcell/src/init.c diff --git a/mcell/init.h b/mcell/src/init.h similarity index 100% rename from mcell/init.h rename to mcell/src/init.h diff --git a/mcell/isaac64.c b/mcell/src/isaac64.c similarity index 100% rename from mcell/isaac64.c rename to mcell/src/isaac64.c diff --git a/mcell/isaac64.h b/mcell/src/isaac64.h similarity index 100% rename from mcell/isaac64.h rename to mcell/src/isaac64.h diff --git a/mcell/libmcell_test.c b/mcell/src/libmcell_test.c similarity index 100% rename from mcell/libmcell_test.c rename to mcell/src/libmcell_test.c diff --git a/mcell/logging.c b/mcell/src/logging.c similarity index 100% rename from mcell/logging.c rename to mcell/src/logging.c diff --git a/mcell/logging.h b/mcell/src/logging.h similarity index 100% rename from mcell/logging.h rename to mcell/src/logging.h diff --git a/mcell/mcell.c b/mcell/src/mcell.c similarity index 100% rename from mcell/mcell.c rename to mcell/src/mcell.c diff --git a/mcell/mcell_dyngeom.c b/mcell/src/mcell_dyngeom.c similarity index 100% rename from mcell/mcell_dyngeom.c rename to mcell/src/mcell_dyngeom.c diff --git a/mcell/mcell_dyngeom.h b/mcell/src/mcell_dyngeom.h similarity index 100% rename from mcell/mcell_dyngeom.h rename to mcell/src/mcell_dyngeom.h diff --git a/mcell/mcell_init.c b/mcell/src/mcell_init.c similarity index 100% rename from mcell/mcell_init.c rename to mcell/src/mcell_init.c diff --git a/mcell/mcell_init.h b/mcell/src/mcell_init.h similarity index 100% rename from mcell/mcell_init.h rename to mcell/src/mcell_init.h diff --git a/mcell/mcell_misc.c b/mcell/src/mcell_misc.c similarity index 100% rename from mcell/mcell_misc.c rename to mcell/src/mcell_misc.c diff --git a/mcell/mcell_misc.h b/mcell/src/mcell_misc.h similarity index 100% rename from mcell/mcell_misc.h rename to mcell/src/mcell_misc.h diff --git a/mcell/mcell_objects.c b/mcell/src/mcell_objects.c similarity index 100% rename from mcell/mcell_objects.c rename to mcell/src/mcell_objects.c diff --git a/mcell/mcell_objects.h b/mcell/src/mcell_objects.h similarity index 100% rename from mcell/mcell_objects.h rename to mcell/src/mcell_objects.h diff --git a/mcell/mcell_react_out.c b/mcell/src/mcell_react_out.c similarity index 100% rename from mcell/mcell_react_out.c rename to mcell/src/mcell_react_out.c diff --git a/mcell/mcell_react_out.h b/mcell/src/mcell_react_out.h similarity index 100% rename from mcell/mcell_react_out.h rename to mcell/src/mcell_react_out.h diff --git a/mcell/mcell_reactions.c b/mcell/src/mcell_reactions.c similarity index 100% rename from mcell/mcell_reactions.c rename to mcell/src/mcell_reactions.c diff --git a/mcell/mcell_reactions.h b/mcell/src/mcell_reactions.h similarity index 100% rename from mcell/mcell_reactions.h rename to mcell/src/mcell_reactions.h diff --git a/mcell/mcell_release.c b/mcell/src/mcell_release.c similarity index 100% rename from mcell/mcell_release.c rename to mcell/src/mcell_release.c diff --git a/mcell/mcell_release.h b/mcell/src/mcell_release.h similarity index 100% rename from mcell/mcell_release.h rename to mcell/src/mcell_release.h diff --git a/mcell/mcell_run.c b/mcell/src/mcell_run.c similarity index 100% rename from mcell/mcell_run.c rename to mcell/src/mcell_run.c diff --git a/mcell/mcell_run.h b/mcell/src/mcell_run.h similarity index 100% rename from mcell/mcell_run.h rename to mcell/src/mcell_run.h diff --git a/mcell/mcell_species.c b/mcell/src/mcell_species.c similarity index 100% rename from mcell/mcell_species.c rename to mcell/src/mcell_species.c diff --git a/mcell/mcell_species.h b/mcell/src/mcell_species.h similarity index 100% rename from mcell/mcell_species.h rename to mcell/src/mcell_species.h diff --git a/mcell/mcell_structs.h b/mcell/src/mcell_structs.h similarity index 100% rename from mcell/mcell_structs.h rename to mcell/src/mcell_structs.h diff --git a/mcell/mcell_surfclass.c b/mcell/src/mcell_surfclass.c similarity index 100% rename from mcell/mcell_surfclass.c rename to mcell/src/mcell_surfclass.c diff --git a/mcell/mcell_surfclass.h b/mcell/src/mcell_surfclass.h similarity index 100% rename from mcell/mcell_surfclass.h rename to mcell/src/mcell_surfclass.h diff --git a/mcell/mcell_viz.c b/mcell/src/mcell_viz.c similarity index 100% rename from mcell/mcell_viz.c rename to mcell/src/mcell_viz.c diff --git a/mcell/mcell_viz.h b/mcell/src/mcell_viz.h similarity index 100% rename from mcell/mcell_viz.h rename to mcell/src/mcell_viz.h diff --git a/mcell/mdlparse_aux.h b/mcell/src/mdlparse_aux.h similarity index 100% rename from mcell/mdlparse_aux.h rename to mcell/src/mdlparse_aux.h diff --git a/mcell/mdlparse_util.c b/mcell/src/mdlparse_util.c similarity index 100% rename from mcell/mdlparse_util.c rename to mcell/src/mdlparse_util.c diff --git a/mcell/mdlparse_util.h b/mcell/src/mdlparse_util.h similarity index 100% rename from mcell/mdlparse_util.h rename to mcell/src/mdlparse_util.h diff --git a/mcell/mem_util.c b/mcell/src/mem_util.c similarity index 100% rename from mcell/mem_util.c rename to mcell/src/mem_util.c diff --git a/mcell/mem_util.h b/mcell/src/mem_util.h similarity index 100% rename from mcell/mem_util.h rename to mcell/src/mem_util.h diff --git a/mcell/minrng.c b/mcell/src/minrng.c similarity index 100% rename from mcell/minrng.c rename to mcell/src/minrng.c diff --git a/mcell/minrng.h b/mcell/src/minrng.h similarity index 100% rename from mcell/minrng.h rename to mcell/src/minrng.h diff --git a/mcell/nfsim_func.c b/mcell/src/nfsim_func.c similarity index 100% rename from mcell/nfsim_func.c rename to mcell/src/nfsim_func.c diff --git a/mcell/nfsim_func.h b/mcell/src/nfsim_func.h similarity index 100% rename from mcell/nfsim_func.h rename to mcell/src/nfsim_func.h diff --git a/mcell/pymcell_wrap.c b/mcell/src/pymcell_wrap.c similarity index 100% rename from mcell/pymcell_wrap.c rename to mcell/src/pymcell_wrap.c diff --git a/mcell/react.h b/mcell/src/react.h similarity index 100% rename from mcell/react.h rename to mcell/src/react.h diff --git a/mcell/react_cond.c b/mcell/src/react_cond.c similarity index 100% rename from mcell/react_cond.c rename to mcell/src/react_cond.c diff --git a/mcell/react_nfsim.h b/mcell/src/react_nfsim.h similarity index 100% rename from mcell/react_nfsim.h rename to mcell/src/react_nfsim.h diff --git a/mcell/react_outc.c b/mcell/src/react_outc.c similarity index 100% rename from mcell/react_outc.c rename to mcell/src/react_outc.c diff --git a/mcell/react_outc_nfsim.c b/mcell/src/react_outc_nfsim.c similarity index 100% rename from mcell/react_outc_nfsim.c rename to mcell/src/react_outc_nfsim.c diff --git a/mcell/react_outc_trimol.c b/mcell/src/react_outc_trimol.c similarity index 100% rename from mcell/react_outc_trimol.c rename to mcell/src/react_outc_trimol.c diff --git a/mcell/react_output.c b/mcell/src/react_output.c similarity index 100% rename from mcell/react_output.c rename to mcell/src/react_output.c diff --git a/mcell/react_output.h b/mcell/src/react_output.h similarity index 100% rename from mcell/react_output.h rename to mcell/src/react_output.h diff --git a/mcell/react_trig.c b/mcell/src/react_trig.c similarity index 100% rename from mcell/react_trig.c rename to mcell/src/react_trig.c diff --git a/mcell/react_trig_nfsim.c b/mcell/src/react_trig_nfsim.c similarity index 100% rename from mcell/react_trig_nfsim.c rename to mcell/src/react_trig_nfsim.c diff --git a/mcell/react_util.c b/mcell/src/react_util.c similarity index 100% rename from mcell/react_util.c rename to mcell/src/react_util.c diff --git a/mcell/react_util.h b/mcell/src/react_util.h similarity index 100% rename from mcell/react_util.h rename to mcell/src/react_util.h diff --git a/mcell/react_util_nfsim.c b/mcell/src/react_util_nfsim.c similarity index 100% rename from mcell/react_util_nfsim.c rename to mcell/src/react_util_nfsim.c diff --git a/mcell/rng.c b/mcell/src/rng.c similarity index 100% rename from mcell/rng.c rename to mcell/src/rng.c diff --git a/mcell/rng.h b/mcell/src/rng.h similarity index 100% rename from mcell/rng.h rename to mcell/src/rng.h diff --git a/mcell/sched_util.c b/mcell/src/sched_util.c similarity index 100% rename from mcell/sched_util.c rename to mcell/src/sched_util.c diff --git a/mcell/sched_util.h b/mcell/src/sched_util.h similarity index 100% rename from mcell/sched_util.h rename to mcell/src/sched_util.h diff --git a/mcell/strfunc.c b/mcell/src/strfunc.c similarity index 100% rename from mcell/strfunc.c rename to mcell/src/strfunc.c diff --git a/mcell/strfunc.h b/mcell/src/strfunc.h similarity index 100% rename from mcell/strfunc.h rename to mcell/src/strfunc.h diff --git a/mcell/sym_table.c b/mcell/src/sym_table.c similarity index 100% rename from mcell/sym_table.c rename to mcell/src/sym_table.c diff --git a/mcell/sym_table.h b/mcell/src/sym_table.h similarity index 100% rename from mcell/sym_table.h rename to mcell/src/sym_table.h diff --git a/mcell/test_api.c b/mcell/src/test_api.c similarity index 100% rename from mcell/test_api.c rename to mcell/src/test_api.c diff --git a/mcell/test_api.h b/mcell/src/test_api.h similarity index 100% rename from mcell/test_api.h rename to mcell/src/test_api.h diff --git a/mcell/triangle_overlap.c b/mcell/src/triangle_overlap.c similarity index 100% rename from mcell/triangle_overlap.c rename to mcell/src/triangle_overlap.c diff --git a/mcell/triangle_overlap.h b/mcell/src/triangle_overlap.h similarity index 100% rename from mcell/triangle_overlap.h rename to mcell/src/triangle_overlap.h diff --git a/mcell/util.c b/mcell/src/util.c similarity index 100% rename from mcell/util.c rename to mcell/src/util.c diff --git a/mcell/util.h b/mcell/src/util.h similarity index 100% rename from mcell/util.h rename to mcell/src/util.h diff --git a/mcell/vector.c b/mcell/src/vector.c similarity index 100% rename from mcell/vector.c rename to mcell/src/vector.c diff --git a/mcell/vector.h b/mcell/src/vector.h similarity index 100% rename from mcell/vector.h rename to mcell/src/vector.h diff --git a/mcell/version.h b/mcell/src/version.h similarity index 100% rename from mcell/version.h rename to mcell/src/version.h diff --git a/mcell/version_info.c b/mcell/src/version_info.c similarity index 100% rename from mcell/version_info.c rename to mcell/src/version_info.c diff --git a/mcell/version_info.h b/mcell/src/version_info.h similarity index 100% rename from mcell/version_info.h rename to mcell/src/version_info.h diff --git a/mcell/viz_output.c b/mcell/src/viz_output.c similarity index 100% rename from mcell/viz_output.c rename to mcell/src/viz_output.c diff --git a/mcell/viz_output.h b/mcell/src/viz_output.h similarity index 100% rename from mcell/viz_output.h rename to mcell/src/viz_output.h diff --git a/mcell/vol_util.c b/mcell/src/vol_util.c similarity index 100% rename from mcell/vol_util.c rename to mcell/src/vol_util.c diff --git a/mcell/vol_util.h b/mcell/src/vol_util.h similarity index 100% rename from mcell/vol_util.h rename to mcell/src/vol_util.h diff --git a/mcell/volume_output.c b/mcell/src/volume_output.c similarity index 100% rename from mcell/volume_output.c rename to mcell/src/volume_output.c diff --git a/mcell/volume_output.h b/mcell/src/volume_output.h similarity index 100% rename from mcell/volume_output.h rename to mcell/src/volume_output.h diff --git a/mcell/wall_util.c b/mcell/src/wall_util.c similarity index 100% rename from mcell/wall_util.c rename to mcell/src/wall_util.c diff --git a/mcell/wall_util.h b/mcell/src/wall_util.h similarity index 100% rename from mcell/wall_util.h rename to mcell/src/wall_util.h diff --git a/requirements.py b/requirements.py deleted file mode 100644 index 4bccf50b7..000000000 --- a/requirements.py +++ /dev/null @@ -1,68 +0,0 @@ -import subprocess -import os -import shutil -import sys - -# -# def nfsim(): -# os.chdir('nfsim') -# -# try: -# os.mkdir('lib') -# except OSError: -# pass -# os.chdir('lib') -# subprocess.call(['cmake', '..']) -# subprocess.call(['make']) -# os.chdir('..') -# os.chdir('..') -# -# -# def nfsim_lib(): -# os.chdir('nfsimCInterface') -# -# try: -# os.mkdir('lib') -# except OSError: -# pass -# -# os.chdir('lib') -# extension = "so" -# if (sys.platform == 'darwin'): -# extension = "dylib" -# subprocess.call(['ln', '-s', os.path.join('..', '..', 'nfsim', 'lib', 'libNFsim.{0}'.format(extension))]) -# os.chdir('..') -# -# subprocess.call(['ln', '-s', os.path.join('..', 'nfsim', 'include')]) -# -# try: -# os.mkdir('build') -# except OSError: -# pass -# os.chdir('build') -# subprocess.call(['cmake', '..']) -# subprocess.call(['make']) -# os.chdir('..') -# os.chdir('..') -# -# -# def copy_library_files(): -# try: -# os.mkdir('build/lib') -# except OSError: -# pass -# os.chdir('build/lib') -# extension = "so" -# if (sys.platform == 'darwin'): -# extension = "dylib" -# shutil.copy(os.path.join('..', '..', 'nfsim', 'lib', 'libNFsim.{0}'.format(extension)), ".") -# shutil.copy(os.path.join('..', '..', 'nfsimCInterface', 'build', 'libnfsim_c.{0}'.format(extension)), ".") -# -# -# if __name__ == "__main__": -# subprocess.call(['git', 'submodule', 'init']) -# subprocess.call(['git', 'submodule', 'update']) -# os.chdir("..") -# nfsim() -# nfsim_lib() -# copy_library_files() diff --git a/setup.py b/setup.py index ae84acb74..2ae31c9b0 100644 --- a/setup.py +++ b/setup.py @@ -175,9 +175,12 @@ def run(self): # swig_opts=['-ltypemaps', '-py3'], # extra_compile_args=['-O2']) + +# TODO: Might be better to rename _pymcell to just mcell, but I do not want +# to break backwards compatibility. ext_modules = [CMakeExtension('nfsim', sourcedir='nfsim'), CMakeExtension('nfsimCInterface', sourcedir='nfsimCInterface'), - CMakeExtension('_pymcell')] + CMakeExtension('_pymcell', sourcedir='mcell')] setup(name='pymcell', py_modules=['pymcell'], From c27f5766ecdc90614993628d2894771418f9a1fb Mon Sep 17 00:00:00 2001 From: andreavs Date: Thu, 26 Apr 2018 11:30:25 -0700 Subject: [PATCH 08/28] step 1: move files. step 2: praise sun god --- mcell/{ => src}/mcell_dyngeom.i | 0 mcell/{ => src}/mcell_init.i | 0 mcell/{ => src}/mcell_misc.i | 0 mcell/{ => src}/mcell_objects.i | 0 mcell/{ => src}/mcell_react_out.i | 0 mcell/{ => src}/mcell_reactions.i | 0 mcell/{ => src}/mcell_release.i | 0 mcell/{ => src}/mcell_run.i | 0 mcell/{ => src}/mcell_species.i | 0 mcell/{ => src}/mcell_structs.i | 0 mcell/{ => src}/mcell_surfclass.i | 0 mcell/{ => src}/mcell_viz.i | 0 mcell/{ => src}/pymcell.i | 0 mcell/{ => src}/vector.i | 0 14 files changed, 0 insertions(+), 0 deletions(-) rename mcell/{ => src}/mcell_dyngeom.i (100%) rename mcell/{ => src}/mcell_init.i (100%) rename mcell/{ => src}/mcell_misc.i (100%) rename mcell/{ => src}/mcell_objects.i (100%) rename mcell/{ => src}/mcell_react_out.i (100%) rename mcell/{ => src}/mcell_reactions.i (100%) rename mcell/{ => src}/mcell_release.i (100%) rename mcell/{ => src}/mcell_run.i (100%) rename mcell/{ => src}/mcell_species.i (100%) rename mcell/{ => src}/mcell_structs.i (100%) rename mcell/{ => src}/mcell_surfclass.i (100%) rename mcell/{ => src}/mcell_viz.i (100%) rename mcell/{ => src}/pymcell.i (100%) rename mcell/{ => src}/vector.i (100%) diff --git a/mcell/mcell_dyngeom.i b/mcell/src/mcell_dyngeom.i similarity index 100% rename from mcell/mcell_dyngeom.i rename to mcell/src/mcell_dyngeom.i diff --git a/mcell/mcell_init.i b/mcell/src/mcell_init.i similarity index 100% rename from mcell/mcell_init.i rename to mcell/src/mcell_init.i diff --git a/mcell/mcell_misc.i b/mcell/src/mcell_misc.i similarity index 100% rename from mcell/mcell_misc.i rename to mcell/src/mcell_misc.i diff --git a/mcell/mcell_objects.i b/mcell/src/mcell_objects.i similarity index 100% rename from mcell/mcell_objects.i rename to mcell/src/mcell_objects.i diff --git a/mcell/mcell_react_out.i b/mcell/src/mcell_react_out.i similarity index 100% rename from mcell/mcell_react_out.i rename to mcell/src/mcell_react_out.i diff --git a/mcell/mcell_reactions.i b/mcell/src/mcell_reactions.i similarity index 100% rename from mcell/mcell_reactions.i rename to mcell/src/mcell_reactions.i diff --git a/mcell/mcell_release.i b/mcell/src/mcell_release.i similarity index 100% rename from mcell/mcell_release.i rename to mcell/src/mcell_release.i diff --git a/mcell/mcell_run.i b/mcell/src/mcell_run.i similarity index 100% rename from mcell/mcell_run.i rename to mcell/src/mcell_run.i diff --git a/mcell/mcell_species.i b/mcell/src/mcell_species.i similarity index 100% rename from mcell/mcell_species.i rename to mcell/src/mcell_species.i diff --git a/mcell/mcell_structs.i b/mcell/src/mcell_structs.i similarity index 100% rename from mcell/mcell_structs.i rename to mcell/src/mcell_structs.i diff --git a/mcell/mcell_surfclass.i b/mcell/src/mcell_surfclass.i similarity index 100% rename from mcell/mcell_surfclass.i rename to mcell/src/mcell_surfclass.i diff --git a/mcell/mcell_viz.i b/mcell/src/mcell_viz.i similarity index 100% rename from mcell/mcell_viz.i rename to mcell/src/mcell_viz.i diff --git a/mcell/pymcell.i b/mcell/src/pymcell.i similarity index 100% rename from mcell/pymcell.i rename to mcell/src/pymcell.i diff --git a/mcell/vector.i b/mcell/src/vector.i similarity index 100% rename from mcell/vector.i rename to mcell/src/vector.i From 9aa1ceb17e1519c536cb747414701c37daef33c6 Mon Sep 17 00:00:00 2001 From: andreavs Date: Thu, 26 Apr 2018 11:31:16 -0700 Subject: [PATCH 09/28] move move move --- CMakeLists.txt => mcell/CMakeLists.txt | 0 1 file changed, 0 insertions(+), 0 deletions(-) rename CMakeLists.txt => mcell/CMakeLists.txt (100%) diff --git a/CMakeLists.txt b/mcell/CMakeLists.txt similarity index 100% rename from CMakeLists.txt rename to mcell/CMakeLists.txt From 8d91836467c849480fe4023ab253907cef944e71 Mon Sep 17 00:00:00 2001 From: andreavs Date: Thu, 26 Apr 2018 11:32:07 -0700 Subject: [PATCH 10/28] added new CMakeList --- CMakeLists.txt | 0 1 file changed, 0 insertions(+), 0 deletions(-) create mode 100644 CMakeLists.txt diff --git a/CMakeLists.txt b/CMakeLists.txt new file mode 100644 index 000000000..e69de29bb From 1bb7f1f88dd2d89f48fed03129d0c7fa8afeb3e2 Mon Sep 17 00:00:00 2001 From: andreavs Date: Thu, 26 Apr 2018 16:10:47 -0700 Subject: [PATCH 11/28] rename files --- CMakeLists.txt | 11 +++++++++++ mcell/CMakeLists.txt | 20 ++++++++++---------- mcell/{ => src}/AUTHORS | 0 mcell/{ => src}/COPYING | 0 mcell/{ => src}/ChangeLog | 0 mcell/{ => src}/Changelog.md | 0 mcell/{ => src}/DGMakefile | 0 mcell/{ => src}/INSTALL | 0 mcell/{ => src}/Makefile.am | 0 mcell/{ => src}/NEWS | 0 mcell/{ => src}/README | 0 mcell/{ => src}/bootstrap | 0 mcell/{ => src}/configure.ac | 0 mcell/{ => src}/dyngeom_lex.l | 0 mcell/{ => src}/dyngeom_parse.y | 0 mcell/{ => src}/mdllex.l | 0 mcell/{ => src}/mdlparse.y | 0 mcell/{ => src}/version.sh | 0 mcell/{ => src}/version.txt | 0 pymcell/__init__.py | 1 + setup.py | 28 ++++++++++++++++++++-------- 21 files changed, 42 insertions(+), 18 deletions(-) rename mcell/{ => src}/AUTHORS (100%) rename mcell/{ => src}/COPYING (100%) rename mcell/{ => src}/ChangeLog (100%) rename mcell/{ => src}/Changelog.md (100%) rename mcell/{ => src}/DGMakefile (100%) rename mcell/{ => src}/INSTALL (100%) rename mcell/{ => src}/Makefile.am (100%) rename mcell/{ => src}/NEWS (100%) rename mcell/{ => src}/README (100%) rename mcell/{ => src}/bootstrap (100%) rename mcell/{ => src}/configure.ac (100%) rename mcell/{ => src}/dyngeom_lex.l (100%) rename mcell/{ => src}/dyngeom_parse.y (100%) rename mcell/{ => src}/mdllex.l (100%) rename mcell/{ => src}/mdlparse.y (100%) rename mcell/{ => src}/version.sh (100%) rename mcell/{ => src}/version.txt (100%) diff --git a/CMakeLists.txt b/CMakeLists.txt index e69de29bb..00864465d 100644 --- a/CMakeLists.txt +++ b/CMakeLists.txt @@ -0,0 +1,11 @@ +# CMakeLists files in this project can +# refer to the root source directory of the project as ${HELLO_SOURCE_DIR} and +# to the root binary directory of the project as ${HELLO_BINARY_DIR}. +cmake_minimum_required (VERSION 2.8.11) +project (PYMCELL) + +# Recurse into the "Hello" and "Demo" subdirectories. This does not actually +# cause another cmake executable to run. The same process will walk through +# the project's entire directory structure. +add_subdirectory (nfsim) +add_subdirectory (nfsimCInterface) diff --git a/mcell/CMakeLists.txt b/mcell/CMakeLists.txt index 6967644fb..707473333 100644 --- a/mcell/CMakeLists.txt +++ b/mcell/CMakeLists.txt @@ -248,13 +248,13 @@ endif() file(GLOB PYMCELL_EXAMPLES "${CMAKE_SOURCE_DIR}/src/pymcell_examples/*") file(COPY ${PYMCELL_EXAMPLES} DESTINATION ${CMAKE_CURRENT_BINARY_DIR}/python/) -file(COPY ${CMAKE_SOURCE_DIR}/src/pymcell_unittests.py DESTINATION ${CMAKE_CURRENT_BINARY_DIR}/python/) +# file(COPY ${CMAKE_SOURCE_DIR}/src/pymcell_unittests.py DESTINATION ${CMAKE_CURRENT_BINARY_DIR}/python/) # copy tools for MDLr to MDL -file(COPY ${CMAKE_SOURCE_DIR}/src/rules_py/ DESTINATION ${CMAKE_CURRENT_BINARY_DIR}) +file(COPY ${CMAKE_SOURCE_DIR}/../pymcell/rules_py/ DESTINATION ${CMAKE_CURRENT_BINARY_DIR}) # copy tools for MDLr to MDL -file(COPY ${CMAKE_SOURCE_DIR}/bionetgen/bng2/ DESTINATION ${CMAKE_CURRENT_BINARY_DIR}/bng2/) +file(COPY ${CMAKE_SOURCE_DIR}/../bionetgen/bng2/ DESTINATION ${CMAKE_CURRENT_BINARY_DIR}/bng2/) # build executable link_directories(${CMAKE_SOURCE_DIR}/lib) @@ -289,10 +289,10 @@ TARGET_COMPILE_DEFINITIONS(mcell PRIVATE NOSWIG=1) #target_link_libraries(libmcell_test ${M_LIB}) # build nfsim and nfsimCInterface before trying to build MCell -add_custom_target( - build_nfsim - COMMAND python ${CMAKE_SOURCE_DIR}/requirements.py) -add_dependencies(mcell build_nfsim) -add_dependencies(_pymcell build_nfsim) -add_dependencies(mcell version_h) -add_dependencies(_pymcell version_h) +#add_custom_target( +# build_nfsim +# COMMAND python ${CMAKE_SOURCE_DIR}/requirements.py) +#add_dependencies(mcell build_nfsim) +#add_dependencies(_pymcell build_nfsim) +#add_dependencies(mcell version_h) +#add_dependencies(_pymcell version_h) diff --git a/mcell/AUTHORS b/mcell/src/AUTHORS similarity index 100% rename from mcell/AUTHORS rename to mcell/src/AUTHORS diff --git a/mcell/COPYING b/mcell/src/COPYING similarity index 100% rename from mcell/COPYING rename to mcell/src/COPYING diff --git a/mcell/ChangeLog b/mcell/src/ChangeLog similarity index 100% rename from mcell/ChangeLog rename to mcell/src/ChangeLog diff --git a/mcell/Changelog.md b/mcell/src/Changelog.md similarity index 100% rename from mcell/Changelog.md rename to mcell/src/Changelog.md diff --git a/mcell/DGMakefile b/mcell/src/DGMakefile similarity index 100% rename from mcell/DGMakefile rename to mcell/src/DGMakefile diff --git a/mcell/INSTALL b/mcell/src/INSTALL similarity index 100% rename from mcell/INSTALL rename to mcell/src/INSTALL diff --git a/mcell/Makefile.am b/mcell/src/Makefile.am similarity index 100% rename from mcell/Makefile.am rename to mcell/src/Makefile.am diff --git a/mcell/NEWS b/mcell/src/NEWS similarity index 100% rename from mcell/NEWS rename to mcell/src/NEWS diff --git a/mcell/README b/mcell/src/README similarity index 100% rename from mcell/README rename to mcell/src/README diff --git a/mcell/bootstrap b/mcell/src/bootstrap similarity index 100% rename from mcell/bootstrap rename to mcell/src/bootstrap diff --git a/mcell/configure.ac b/mcell/src/configure.ac similarity index 100% rename from mcell/configure.ac rename to mcell/src/configure.ac diff --git a/mcell/dyngeom_lex.l b/mcell/src/dyngeom_lex.l similarity index 100% rename from mcell/dyngeom_lex.l rename to mcell/src/dyngeom_lex.l diff --git a/mcell/dyngeom_parse.y b/mcell/src/dyngeom_parse.y similarity index 100% rename from mcell/dyngeom_parse.y rename to mcell/src/dyngeom_parse.y diff --git a/mcell/mdllex.l b/mcell/src/mdllex.l similarity index 100% rename from mcell/mdllex.l rename to mcell/src/mdllex.l diff --git a/mcell/mdlparse.y b/mcell/src/mdlparse.y similarity index 100% rename from mcell/mdlparse.y rename to mcell/src/mdlparse.y diff --git a/mcell/version.sh b/mcell/src/version.sh similarity index 100% rename from mcell/version.sh rename to mcell/src/version.sh diff --git a/mcell/version.txt b/mcell/src/version.txt similarity index 100% rename from mcell/version.txt rename to mcell/src/version.txt diff --git a/pymcell/__init__.py b/pymcell/__init__.py index e69de29bb..b74a91eaa 100644 --- a/pymcell/__init__.py +++ b/pymcell/__init__.py @@ -0,0 +1 @@ +from .pymcell import * diff --git a/setup.py b/setup.py index 2ae31c9b0..82acd54da 100644 --- a/setup.py +++ b/setup.py @@ -51,13 +51,25 @@ def run(self): if cmake_version < '3.1.0': raise RuntimeError("CMake >= 3.1.0 is required on Windows") - subprocess.call(['ln', '-s', self.build_lib, 'lib']) + # subprocess.call(['ln', '-s', self.build_lib, 'lib']) + if not os.path.exists(self.build_lib): + os.makedirs(self.build_lib) os.chdir('nfsimCInterface') + print(self.build_lib) subprocess.call(['ln', '-s', os.path.join('..', self.build_lib), 'lib']) subprocess.call(['ln', '-s', os.path.join('..', 'nfsim', 'include')]) os.chdir('..') + os.chdir('mcell') + if not os.path.exists("include"): + os.makedirs("include") + subprocess.call(['ln', '-s', os.path.join('..', self.build_lib), 'lib']) + subprocess.call(['ln', '-s', os.path.join('..', 'nfsim', 'include/nfsim')]) + subprocess.call(['ln', '-s', os.path.join('..', 'nfsimCInterface', 'include/nfsimCInterface')]) + + os.chdir('..') + for ext in self.extensions: self.build_extension(ext) @@ -99,12 +111,12 @@ class CustomBuild(build): def run(self): # TODO: some of these lines can be trimmed down eventually disallow_python2() - if not os.path.exists("build"): - os.makedirs("build") - shutil.copy("./appveyor_windows/config.h", "./src") - shutil.copy("./appveyor_windows/version.h", "./src") - shutil.copy("./src/pymcell_helpers.py", ".") - shutil.copy("./src/data_model_import.py", ".") + # if not os.path.exists("build"): + # os.makedirs("build") + # shutil.copy("./appveyor_windows/config.h", "./src") + # shutil.copy("./appveyor_windows/version.h", "./src") + # shutil.copy("./src/pymcell_helpers.py", ".") + # shutil.copy("./src/data_model_import.py", ".") self.run_command('build_ext') # shutil.copy("./src/pymcell.py", ".") @@ -176,7 +188,7 @@ def run(self): # extra_compile_args=['-O2']) -# TODO: Might be better to rename _pymcell to just mcell, but I do not want +# NOTE: Might be better to rename _pymcell to just mcell, but I do not want # to break backwards compatibility. ext_modules = [CMakeExtension('nfsim', sourcedir='nfsim'), CMakeExtension('nfsimCInterface', sourcedir='nfsimCInterface'), From e7b450b7fff1bbf10207c4802e32424bd68b3b53 Mon Sep 17 00:00:00 2001 From: andreavs Date: Thu, 26 Apr 2018 16:23:22 -0700 Subject: [PATCH 12/28] changes --- CMakeLists.txt | 11 ----------- mcell/CMakeLists.txt | 2 +- setup.py | 4 ++-- 3 files changed, 3 insertions(+), 14 deletions(-) delete mode 100644 CMakeLists.txt diff --git a/CMakeLists.txt b/CMakeLists.txt deleted file mode 100644 index 00864465d..000000000 --- a/CMakeLists.txt +++ /dev/null @@ -1,11 +0,0 @@ -# CMakeLists files in this project can -# refer to the root source directory of the project as ${HELLO_SOURCE_DIR} and -# to the root binary directory of the project as ${HELLO_BINARY_DIR}. -cmake_minimum_required (VERSION 2.8.11) -project (PYMCELL) - -# Recurse into the "Hello" and "Demo" subdirectories. This does not actually -# cause another cmake executable to run. The same process will walk through -# the project's entire directory structure. -add_subdirectory (nfsim) -add_subdirectory (nfsimCInterface) diff --git a/mcell/CMakeLists.txt b/mcell/CMakeLists.txt index 707473333..3224e91ab 100644 --- a/mcell/CMakeLists.txt +++ b/mcell/CMakeLists.txt @@ -7,7 +7,7 @@ SET(CMAKE_C_FLAGS_DEBUG "${CMAKE_C_FLAGS_DEBUG} -O0") # directories holding flex/bison files and out of source includes. file(MAKE_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/deps) -include_directories("${CMAKE_SOURCE_DIR}/src" "${CMAKE_CURRENT_BINARY_DIR}/deps" "${CMAKE_SOURCE_DIR}/include") +include_directories("${CMAKE_SOURCE_DIR}/src" "${CMAKE_CURRENT_BINARY_DIR}/deps" "${CMAKE_SOURCE_DIR}/include/nsfim" "${CMAKE_SOURCE_DIR}/include/nfsimCInterface") # move config.h into place. Unix and Windows have different header files if (UNIX) diff --git a/setup.py b/setup.py index 82acd54da..cd04c5800 100644 --- a/setup.py +++ b/setup.py @@ -65,8 +65,8 @@ def run(self): if not os.path.exists("include"): os.makedirs("include") subprocess.call(['ln', '-s', os.path.join('..', self.build_lib), 'lib']) - subprocess.call(['ln', '-s', os.path.join('..', 'nfsim', 'include/nfsim')]) - subprocess.call(['ln', '-s', os.path.join('..', 'nfsimCInterface', 'include/nfsimCInterface')]) + subprocess.call(['ln', '-s', os.path.join('..', '..', 'nfsim', 'include'), 'include/nfsim']) + subprocess.call(['ln', '-s', os.path.join('..', '..', 'nfsimCInterface', 'src'), 'include/nfsimCInterface']) os.chdir('..') From 6527bcc3ba3ad984ef661011d79213131932b919 Mon Sep 17 00:00:00 2001 From: andreavs Date: Thu, 26 Apr 2018 17:11:37 -0700 Subject: [PATCH 13/28] python setup.py build now builds all extensions --- mcell/CMakeLists.txt | 19 ++++++++++--------- mcell/src/pymcell.i | 32 ++++++++++++++++---------------- 2 files changed, 26 insertions(+), 25 deletions(-) diff --git a/mcell/CMakeLists.txt b/mcell/CMakeLists.txt index 3224e91ab..ac17b4fb0 100644 --- a/mcell/CMakeLists.txt +++ b/mcell/CMakeLists.txt @@ -7,7 +7,7 @@ SET(CMAKE_C_FLAGS_DEBUG "${CMAKE_C_FLAGS_DEBUG} -O0") # directories holding flex/bison files and out of source includes. file(MAKE_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/deps) -include_directories("${CMAKE_SOURCE_DIR}/src" "${CMAKE_CURRENT_BINARY_DIR}/deps" "${CMAKE_SOURCE_DIR}/include/nsfim" "${CMAKE_SOURCE_DIR}/include/nfsimCInterface") +include_directories("${CMAKE_SOURCE_DIR}/src" "${CMAKE_CURRENT_BINARY_DIR}/deps" "${CMAKE_SOURCE_DIR}/../nfsim/include" "${CMAKE_SOURCE_DIR}/../nfsimCInterface/src") # move config.h into place. Unix and Windows have different header files if (UNIX) @@ -187,7 +187,7 @@ SET(CMAKE_LIBRARY_OUTPUT_DIRECTORY "${CMAKE_BINARY_DIR}/python") file(MAKE_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/python) SET_SOURCE_FILES_PROPERTIES(src/pymcell.i PROPERTIES C ON) SET_SOURCE_FILES_PROPERTIES(src/pymcell.i PROPERTIES SWIG_FLAGS "-includeall") -SWIG_ADD_MODULE(pymcell python +swig_add_library(pymcell LANGUAGE python SOURCES src/pymcell.i src/argparse.c src/chkpt.c src/count_util.c @@ -289,10 +289,11 @@ TARGET_COMPILE_DEFINITIONS(mcell PRIVATE NOSWIG=1) #target_link_libraries(libmcell_test ${M_LIB}) # build nfsim and nfsimCInterface before trying to build MCell -#add_custom_target( -# build_nfsim -# COMMAND python ${CMAKE_SOURCE_DIR}/requirements.py) -#add_dependencies(mcell build_nfsim) -#add_dependencies(_pymcell build_nfsim) -#add_dependencies(mcell version_h) -#add_dependencies(_pymcell version_h) +# add_custom_target( +# build_nfsim +# # COMMAND python ${CMAKE_SOURCE_DIR}/requirements.py +# ) +# add_dependencies(mcell build_nfsim) +# add_dependencies(_pymcell build_nfsim) +# add_dependencies(mcell version_h) +# add_dependencies(_pymcell version_h) diff --git a/mcell/src/pymcell.i b/mcell/src/pymcell.i index 8bb13c90f..7267d0afa 100644 --- a/mcell/src/pymcell.i +++ b/mcell/src/pymcell.i @@ -1,6 +1,6 @@ // =========================================================================== -// Main SWIG directive file for MCELL (taken from gamer) -// Compile commands +// Main SWIG directive file for MCELL (taken from gamer) +// Compile commands // swig -python pymcell.i // python setup_mcell_swig.py build_ext --inplace @@ -11,19 +11,19 @@ // This tells SWIG to treat char ** as a special case %typemap(in) char ** { /* Check if is a list */ - if (PyList_Check($input)) + if (PyList_Check($input)) { int size = PyList_Size($input); int i = 0; $1 = (char **) malloc((size+1)*sizeof(char *)); - for (i = 0; i < size; i++) + for (i = 0; i < size; i++) { PyObject *o = PyList_GetItem($input,i); if (PyUnicode_Check(o)) { $1[i] = PyUnicode_AsUTF8(PyList_GetItem($input,i)); } - else + else { PyErr_SetString(PyExc_TypeError,"list must contain strings"); free($1); @@ -31,8 +31,8 @@ } } $1[i] = 0; - } - else + } + else { PyErr_SetString(PyExc_TypeError,"not a list"); return NULL; @@ -47,19 +47,19 @@ // This tells SWIG to treat double* as a special case %typemap(in) double * { /* Check if is a list */ - if (PyList_Check($input)) + if (PyList_Check($input)) { int size = PyList_Size($input); int i = 0; $1 = (double *) malloc((size+1)*sizeof(double)); - for (i = 0; i < size; i++) + for (i = 0; i < size; i++) { PyObject *o = PyList_GetItem($input,i); if (PyFloat_Check(o)) { $1[i] = PyFloat_AsDouble(PyList_GetItem($input,i)); } - else + else { PyErr_SetString(PyExc_TypeError,"list must contain floats"); free($1); @@ -67,8 +67,8 @@ } } $1[i] = 0; - } - else + } + else { PyErr_SetString(PyExc_TypeError,"not a list"); return NULL; @@ -102,14 +102,14 @@ %} %pythonbegin %{ -from ctypes import * -lib1 = cdll.LoadLibrary('../lib/libNFsim.so') +from ctypes import * +lib1 = cdll.LoadLibrary('../lib/libNFsim.so') lib2 = cdll.LoadLibrary('../lib/libnfsim_c.so') %} /*Add functions for user interfacing */ -%pythoncode "pymcell_helpers.py" -%pythoncode "data_model_import.py" +#%pythoncode "pymcell_helpers.py" +#%pythoncode "data_model_import.py" %include "mcell_init.i" %include "mcell_misc.i" From 8398e7c48afeb29c2c78d793abbb03b09273896a Mon Sep 17 00:00:00 2001 From: andreavs Date: Fri, 27 Apr 2018 13:25:21 -0700 Subject: [PATCH 14/28] updates --- mcell/CMakeLists.txt | 14 +- mcell/src/pymcell.i | 4 +- pymcell/__init__.py | 6 + pymcell/data_model_import.py | 2 +- pymcell/pymcell.py | 3107 -------------------------- pymcell/pymcell_examples/__init__.py | 0 pymcell/pymcell_helpers.py | 8 +- setup.py | 6 +- 8 files changed, 24 insertions(+), 3123 deletions(-) delete mode 100644 pymcell/pymcell.py create mode 100644 pymcell/pymcell_examples/__init__.py diff --git a/mcell/CMakeLists.txt b/mcell/CMakeLists.txt index ac17b4fb0..49d4ea080 100644 --- a/mcell/CMakeLists.txt +++ b/mcell/CMakeLists.txt @@ -181,8 +181,8 @@ INCLUDE_DIRECTORIES("${CMAKE_CURRENT_SOURCE_DIR}/src") #SET(CMAKE_SWIG_FLAGS "-debug-typemap;-debug-tmsearch;-debug-tmused;-ltypemaps") SET(CMAKE_SWIG_FLAGS "-ltypemaps;-py3") -SET(CMAKE_SWIG_OUTDIR "${CMAKE_BINARY_DIR}/python") -SET(CMAKE_LIBRARY_OUTPUT_DIRECTORY "${CMAKE_BINARY_DIR}/python") +SET(CMAKE_SWIG_OUTDIR "${CMAKE_LIBRARY_OUTPUT_DIRECTORY}/pymcell") +SET(CMAKE_LIBRARY_OUTPUT_DIRECTORY "${CMAKE_LIBRARY_OUTPUT_DIRECTORY}/pymcell") file(MAKE_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/python) SET_SOURCE_FILES_PROPERTIES(src/pymcell.i PROPERTIES C ON) @@ -237,7 +237,8 @@ swig_add_library(pymcell LANGUAGE python SOURCES src/pymcell.i src/viz_output.c src/vol_util.c src/volume_output.c - src/wall_util.c) + src/wall_util.c +) if (APPLE) SWIG_LINK_LIBRARIES(pymcell ${CMAKE_SOURCE_DIR}/lib/libnfsim_c.dylib ${CMAKE_SOURCE_DIR}/lib/libNFsim.dylib ${PYTHON_LIBRARIES}) else() @@ -245,13 +246,14 @@ else() endif() # copy the pyMCell test scripts into place -file(GLOB PYMCELL_EXAMPLES "${CMAKE_SOURCE_DIR}/src/pymcell_examples/*") -file(COPY ${PYMCELL_EXAMPLES} DESTINATION ${CMAKE_CURRENT_BINARY_DIR}/python/) +# file(GLOB PYMCELL_EXAMPLES "${CMAKE_SOURCE_DIR}/src/pymcell_examples/*") +# file(COPY ${PYMCELL_EXAMPLES} DESTINATION ${CMAKE_CURRENT_BINARY_DIR}/python/) # file(COPY ${CMAKE_SOURCE_DIR}/src/pymcell_unittests.py DESTINATION ${CMAKE_CURRENT_BINARY_DIR}/python/) # copy tools for MDLr to MDL -file(COPY ${CMAKE_SOURCE_DIR}/../pymcell/rules_py/ DESTINATION ${CMAKE_CURRENT_BINARY_DIR}) +# NOTE: this should be in pymcell/__init__.py now +# file(COPY ${CMAKE_SOURCE_DIR}/../pymcell/rules_py/ DESTINATION ${CMAKE_CURRENT_BINARY_DIR}) # copy tools for MDLr to MDL file(COPY ${CMAKE_SOURCE_DIR}/../bionetgen/bng2/ DESTINATION ${CMAKE_CURRENT_BINARY_DIR}/bng2/) diff --git a/mcell/src/pymcell.i b/mcell/src/pymcell.i index 7267d0afa..626b28c51 100644 --- a/mcell/src/pymcell.i +++ b/mcell/src/pymcell.i @@ -108,8 +108,8 @@ lib2 = cdll.LoadLibrary('../lib/libnfsim_c.so') %} /*Add functions for user interfacing */ -#%pythoncode "pymcell_helpers.py" -#%pythoncode "data_model_import.py" +// %pythoncode "pymcell_helpers.py" +// %pythoncode "data_model_import.py" %include "mcell_init.i" %include "mcell_misc.i" diff --git a/pymcell/__init__.py b/pymcell/__init__.py index b74a91eaa..2385a49ed 100644 --- a/pymcell/__init__.py +++ b/pymcell/__init__.py @@ -1 +1,7 @@ from .pymcell import * +from .pymcell_helpers import * +from .data_model_import import * +from .pymcell_unittest import * + +from . import pymcell_examples +from . import rules_py diff --git a/pymcell/data_model_import.py b/pymcell/data_model_import.py index 641c165f9..e174c1354 100644 --- a/pymcell/data_model_import.py +++ b/pymcell/data_model_import.py @@ -1,4 +1,4 @@ -import pymcell as m +import .pymcell_helpers as m import json import pickle import logging diff --git a/pymcell/pymcell.py b/pymcell/pymcell.py deleted file mode 100644 index ac6b5e596..000000000 --- a/pymcell/pymcell.py +++ /dev/null @@ -1,3107 +0,0 @@ -# This file was automatically generated by SWIG (http://www.swig.org). -# Version 3.0.10 -# -# Do not make changes to this file unless you know what you are doing--modify -# the SWIG interface file instead. - - -from ctypes import * -lib1 = cdll.LoadLibrary('../lib/libNFsim.so') -lib2 = cdll.LoadLibrary('../lib/libnfsim_c.so') - - - - - -from sys import version_info as _swig_python_version_info -if _swig_python_version_info >= (2, 7, 0): - def swig_import_helper(): - import importlib - pkg = __name__.rpartition('.')[0] - mname = '.'.join((pkg, '_pymcell')).lstrip('.') - try: - return importlib.import_module(mname) - except ImportError: - return importlib.import_module('_pymcell') - _pymcell = swig_import_helper() - del swig_import_helper -elif _swig_python_version_info >= (2, 6, 0): - def swig_import_helper(): - from os.path import dirname - import imp - fp = None - try: - fp, pathname, description = imp.find_module('_pymcell', [dirname(__file__)]) - except ImportError: - import _pymcell - return _pymcell - if fp is not None: - try: - _mod = imp.load_module('_pymcell', fp, pathname, description) - finally: - fp.close() - return _mod - _pymcell = swig_import_helper() - del swig_import_helper -else: - import _pymcell -del _swig_python_version_info -try: - _swig_property = property -except NameError: - pass # Python < 2.2 doesn't have 'property'. - -try: - import builtins as __builtin__ -except ImportError: - import __builtin__ - -def _swig_setattr_nondynamic(self, class_type, name, value, static=1): - if (name == "thisown"): - return self.this.own(value) - if (name == "this"): - if type(value).__name__ == 'SwigPyObject': - self.__dict__[name] = value - return - method = class_type.__swig_setmethods__.get(name, None) - if method: - return method(self, value) - if (not static): - if _newclass: - object.__setattr__(self, name, value) - else: - self.__dict__[name] = value - else: - raise AttributeError("You cannot add attributes to %s" % self) - - -def _swig_setattr(self, class_type, name, value): - return _swig_setattr_nondynamic(self, class_type, name, value, 0) - - -def _swig_getattr(self, class_type, name): - if (name == "thisown"): - return self.this.own() - method = class_type.__swig_getmethods__.get(name, None) - if method: - return method(self) - raise AttributeError("'%s' object has no attribute '%s'" % (class_type.__name__, name)) - - -def _swig_repr(self): - try: - strthis = "proxy of " + self.this.__repr__() - except __builtin__.Exception: - strthis = "" - return "<%s.%s; %s >" % (self.__class__.__module__, self.__class__.__name__, strthis,) - -try: - _object = object - _newclass = 1 -except __builtin__.Exception: - class _object: - pass - _newclass = 0 - -"""pyMCell helper functions. - -Currently, this contains a mix of the original pyMCell functions and classes -and a set of more refined intuitive functions and classes. Future versions will -provide a cleaner separation between these two with the aim of eventually -deprecating or removing the original ones. - -""" - -import pymcell as m -from typing import List, Dict, Iterable, Tuple, Any -import logging -from enum import Enum -# import uuid -import random - - -class Orient(Enum): - up = 1 - down = 2 - mix = 3 - - -class SC(Enum): - reflect = 1 - transp = 2 - absorb = 3 - conc_clamp = 3 - - -class MolType(Enum): - surface_mols = 1 - volume_mols = 2 - all_mols = 3 - - -def single_true(iterable): - i = iter(iterable) - return any(i) and not any(i) - - -class MeshObj: - """ An entire polygon object and its associated surface regions. """ - def __init__( - self, - name: str, - vert_list: List[Tuple[float, float, float]], - face_list: List[Tuple[int, int, int]], - translation: Tuple[float, float, float] = None) -> None: - self.name = name - self.vert_list = vert_list - self.face_list = face_list - self.regions = [] # type: List[SurfaceRegion] - self.translation = translation - logging.info("Creating mesh object '%s'" % name) - - def __str__(self): - return self.name - - -class Species: - """ A type of molecule. - - Surface molecules have names, diffusion constants , and can either be a - surface molecule (embedded in a membrane) or a volume molecule (e.g. free - in the cytocol). The units for the diffusion constant is cm2/s. An - instance of Species is still a *type* of molecule, not an individual - molecule. For example, an instance of Species could be the ACh Species, but - it would not be an individual ACh molecule. - """ - def __init__( - self, - name: str, - diffusion_constant: float, - surface: bool = False) -> None: - self.name = name - self.diffusion_constant = diffusion_constant - self.surface = surface - vol_surf = "surface" if surface else "volume" - logging.info("Creating %s species '%s'" % (vol_surf, name)) - - def up(self): - return OrientedSpecies(self, Orient.up) - - def down(self): - return OrientedSpecies(self, Orient.down) - - def mix(self): - return OrientedSpecies(self, Orient.mix) - - def __str__(self): - return self.name - - -class OrientedSpecies: - """ A type of molecule with an orientation. - - This is like a normal Species object, but it also contains information - about its relative orientation (up, down, or mixed) with respect to a - surface membrane. - """ - def __init__( - self, - spec: Species, - orient: Orient) -> None: - self.spec = spec - odict_str = {Orient.up: "'", Orient.down: ",", Orient.mix: ";"} - odict_num = {Orient.up: 1, Orient.down: -1, Orient.mix: 0} - self.orient = orient - self.orient_num = odict_num[orient] - self.orient_str = odict_str[orient] - self.name = self.spec.name + self.orient_str - - def __str__(self): - return self.name - - -class Reaction: - """ A reaction involving one or more molecules. - - ex: vm1 -> vm2 + vm3 [1e3] - - Can be unimolecular or bimolecular. - - Involves surface and/or volume molecules. - - If a single surface molecule is involved, then all species in the - reaction must be OrientedSpecies. - """ - def __init__( - self, - reactants: List[Any], # List of Species or OrientedSpecies - products: List[Any], # List of Species or OrientedSpecies - rate_constant: float, - bkwd_rate_constant=None, - name=None) -> None: - self.reactants = reactants - self.products = products - self.rate_constant = rate_constant - self.bkwd_rate_constant = bkwd_rate_constant - self.name = name -# These variable names are terrible... -# reactants_so = all(isinstance(r, m.OrientedSpecies) for r in reactants) -# products_so = all(isinstance(p, m.OrientedSpecies) for p in products) -# reactants_s = all(isinstance(r, m.Species) for r in reactants) -# products_s = all(isinstance(p, m.Species) for p in products) -# if (reactants_so and (products_so or not products)) or (reactants_s and products_s): -# # make sure either everything is oriented (aside from possible NULL -# # product) or nothing is. -# pass -# else: -# logging.info( -# "Mixing oriented with non oriented species in reaction") - try: - reactant_names = [r.name for r in reactants] - reactants_str = " + ".join(reactant_names) - except TypeError: -# must be unimolecular - reactants_str = reactants.name - try: - if products: - product_names = [p.name for p in products] - products_str = " + ".join(product_names) - else: - products_str = "NULL" - except TypeError: - products_str = products.name - - arrow = "<->" if bkwd_rate_constant else "->" - - self.print_friendly_repr = "" - if bkwd_rate_constant: - self.print_friendly_repr = "%s <-> %s [%.2E, %.2E]" % (reactants_str, products_str, rate_constant, bkwd_rate_constant) - else: - self.print_friendly_repr = "%s -> %s [%.2E]" % (reactants_str, products_str, rate_constant) - logging.info("Creating reaction %s" % self.print_friendly_repr) - - def __str__(self): - return self.name - - -class SurfaceRegion: - """ Subsets of a surface. - - Examples of uses: molecules can be released on to these and surface classes - can be assigned to them. - """ - def __init__(self, - mesh_obj: MeshObj, - reg_name: str, - surf_reg_face_list: List) -> None: - self.reg_name = reg_name - self.full_reg_name = "%s[%s]" % (mesh_obj.name, reg_name) - self.surf_reg_face_list = surf_reg_face_list -# Relationship is symmetrical. Every region knows its object. Object -# knows its regions. - self.mesh_obj = mesh_obj - mesh_obj.regions.append(self) - logging.info("Creating region '%s'" % self.reg_name) - - def __str__(self): - return self.reg_name - - -class ListRelease: - """ A release of molecules specified as a series of XYZ coordinates. """ - def __init__( - self, - spec, - pos_list: Iterable[Tuple[float, float, float]])-> None: - self.spec = spec - self.pos_list = pos_list - logging.info("Creating list release") - - -class ObjectRelease: - """ An entire polygon object and its associated surface regions. """ - def __init__( - self, - spec, - number: int = None, - conc: float = None, - density: float = None, - mesh_obj: MeshObj = None, - region: SurfaceRegion = None) -> None: - if not single_true((number, conc, density)): - raise Exception( - "Multiple release methods (e.g. number and conc) specified") - self.spec = spec - self.number = number - self.conc = conc - self.density = density - self.region = region - self.what_in_where = "" - if self.region: - self.mesh_obj = self.region.mesh_obj - self.what_in_where = "{} in/on {}".format(self.spec.name, self.region.reg_name) - else: - self.mesh_obj = mesh_obj - self.what_in_where = "{} in/on {}".format(self.spec.name, self.mesh_obj.name) - logging.info("Creating release of {}".format(self.what_in_where)) - - -class Vector3: - """ Just a generic 3d vector to be used for positions and whatnot. """ - def __init__(self, x: float = 0.0, y: float = 0.0, z: float = 0.0) -> None: - self.x = x - self.y = y - self.z = z - - def __str__(self): - return "({}, {}, {})".format(self.x, self.y, self.z) - - -class SurfaceClass: - """ A SurfaceClass describes how species interact with various surfaces. - - ex: Species x are absorbed when they hit the front of a surface. - """ - def __init__( - self, sc_type: SC, species, name=None) -> None: - self.sc_type = sc_type - self.species = species - sc_dict = {SC.transp: "transparent", SC.reflect: "reflective", SC.absorb: "absorptive" } - if name: - self.name = name - else: - self.name = "{}_{}".format(sc_dict[sc_type], species.name) - logging.info( - "Creating surface class that is {} to {}".format(sc_dict[sc_type], species.name)) - - def __str__(self): - return self.name - - -class MCellSim: - """ The main class required to run a pyMCell simulation. """ - def __init__(self, seed: int) -> None: - self._world = m.mcell_create() - self._started = False -# the value for _species & _surface_classes is a swig wrapped sym_entry - self._species = {} # type: Dict[str, Any] - self._surface_classes = {} # type: Dict[str, Any] -# the value for _mesh_objects is a swig wrapped "object" - self._mesh_objects = {} # type: Dict[str, Any] -# the value for _mesh_objects is a swig wrapped "region" - self._regions = {} # type: Dict[str, Any] - self._releases = {} # type: Dict[str, Any] - self._counts = {} # type: Dict[str, Any] - self._iterations = 0 - self._current_iteration = 0 - self._finished = False - self._output_freq = 10 - self._seed = seed - m.mcell_set_seed(self._world, seed) -# m.mcell_silence_notifications(self._world) - m.mcell_init_state(self._world) -# This is the top level instance object. We just call it "Scene" here -# to be consistent with the MDL output from Blender. - self.scene_name = "Scene" - self._scene = m.create_instance_object(self._world, self.scene_name) - -# this is different than _species. instead of swig wrapped sym_entry, -# this contains Species objects - self.species = {} - -# These allow you to have surface properties affect all molecules. - self._all_mol_sym = m.mcell_get_all_mol_sym(self._world) - self._species['ALL_MOLECULES'] = self._all_mol_sym - self._all_volume_mol_sym = m.mcell_get_all_volume_mol_sym(self._world) - self._species['ALL_VOLUME_MOLECULES'] = self._all_volume_mol_sym - self._all_surface_mol_sym = m.mcell_get_all_mol_sym(self._world) - self._species['ALL_SURFACE_MOLECULES'] = self._all_surface_mol_sym - - def __str__(self): - return self.scene_name - - def __del__(self): - self.end_sim() - - def silence_warnings(self): - m.mcell_silence_warnings(self._world) - - def silence_notifications(self): - m.mcell_silence_notifications(self._world) - - def enable_logging(self): - logging.basicConfig(format='%(message)s', level=logging.DEBUG) - - def set_output_freq(self, output_freq: int) -> None: - """ The interval of iterations to create reaction data output. - - For example, if you set this to 10, reaction data would be created at - every 10th iteration. - """ - self._output_freq = output_freq - - def set_time_step(self, time_step: float) -> None: - """ Set time step in seconds. """ - m.mcell_set_time_step(self._world, time_step) - - def set_iterations(self, iterations: int) -> None: - """ Set number of iterations """ - m.mcell_set_iterations(self._world, iterations) - self._iterations = iterations - -# def set_seed(self, seed): -# self._seed = seed -# m.mcell_set_seed(self._world, seed) - - def add_single_species(self, spec): - if spec.name not in self._species: - spec_sym = m.create_species( - self._world, spec.name, spec.diffusion_constant, spec.surface) - self._species[spec.name] = spec_sym - self.species[spec.name] = spec - logging.info("Add species '%s' to simulation" % spec.name) - - def add_species(self, spec): - if isinstance(spec, m.Species): - self.add_single_species(spec) - else: - for s in spec: - self.add_single_species(s) - - def add_reaction(self, rxn: Reaction) -> None: - """ Add a Reaction object to the simulation. """ - r_spec_list = None - p_spec_list = None -# Figure out if it's an iterable of reactants or a single reactant - try: - for r in rxn.reactants: - if isinstance(r, m.OrientedSpecies): - r_sym = self._species[r.spec.name] - r_spec_list = m.mcell_add_to_species_list( - r_sym, True, r.orient_num, r_spec_list) - else: - r_sym = self._species[r.name] - r_spec_list = m.mcell_add_to_species_list( - r_sym, False, 0, r_spec_list) - except TypeError: - r = rxn.reactants - if isinstance(r, m.OrientedSpecies): - r_sym = self._species[r.spec.name] - r_spec_list = m.mcell_add_to_species_list( - r_sym, True, r.orient_num, r_spec_list) - else: - r_sym = self._species[r.name] - r_spec_list = m.mcell_add_to_species_list( - r_sym, False, 0, r_spec_list) - try: - for p in rxn.products: - if isinstance(r, m.OrientedSpecies): - p_sym = self._species[p.spec.name] - p_spec_list = m.mcell_add_to_species_list( - p_sym, True, p.orient_num, p_spec_list) - else: - p_sym = self._species[p.name] - p_spec_list = m.mcell_add_to_species_list( - p_sym, False, 0, p_spec_list) - except TypeError: - p = rxn.products - if isinstance(r, m.OrientedSpecies): - p_sym = self._species[p.spec.name] - p_spec_list = m.mcell_add_to_species_list( - p_sym, True, p.orient_num, p_spec_list) - else: - p_sym = self._species[p.name] - p_spec_list = m.mcell_add_to_species_list( - p_sym, False, 0, p_spec_list) - logging.info("Add reaction '%s' to simulation" % rxn.print_friendly_repr) - m.create_reaction( - self._world, - r_spec_list, - p_spec_list, - rxn.rate_constant, - rxn.bkwd_rate_constant, - name=rxn.name) - - def add_geometry(self, mesh_obj: MeshObj) -> None: - """ Add a mesh object to the simulation. """ - mesh = m.create_polygon_object( - self._world, - mesh_obj.vert_list, - mesh_obj.face_list, - self._scene, - mesh_obj.name, - mesh_obj.translation) - if mesh_obj.name not in self._mesh_objects: - self._mesh_objects[mesh_obj.name] = mesh - for reg in mesh_obj.regions: - region_swig_obj = m.create_surface_region( - self._world, mesh, reg.surf_reg_face_list, reg.reg_name) - full_reg_name = "%s[%s]" % (mesh_obj.name, reg.reg_name) - if reg.reg_name not in self._regions: - self._regions[full_reg_name] = region_swig_obj - logging.info("Add geometry '%s' to simulation" % mesh_obj.name) - - def add_viz(self, species: Iterable[Species]) -> None: - """ Set all the species in an Iterable to be visualized. """ - viz_list = None - for spec in species: - viz_list = m.mcell_add_to_species_list( - self._species[spec.name], False, 0, viz_list) - logging.info("Output '%s' for viz data." % spec.name) - m.mcell_create_viz_output( - self._world, "./viz_data/seed_%04i/Scene" % self._seed, viz_list, - 0, self._iterations, 1) - - def release(self, relobj): - """ Release molecules in/on an object or as a ListRelease. """ - if isinstance(relobj, ObjectRelease): - self.release_into_mesh_obj(relobj) - logging.info("Add release of '%s' to simulation" % relobj.what_in_where) - elif isinstance(relobj, ListRelease): - self.release_as_list(relobj.spec, relobj.pos_list) - logging.info("Add list release to simulation") - else: - raise ValueError("Invalid release site type") - - def release_as_list(self, spec, pos_list): - length_pos_list = len(pos_list) - try: - spec_list = [] - surf_flags = [] - orient = [] - for s in spec: - if isinstance(s, OrientedSpecies): - spec_list.append(self._species[s.spec.name]) - surf_flags.append(True) - orient.append(s.orient_num) - else: - spec_list.append(self._species[s.spec.name]) - surf_flags.append(False) - orient.append(0) - - except TypeError: - if isinstance(spec, OrientedSpecies): - spec_sym = self._species[spec.spec.name] - spec_list = [spec_sym] * length_pos_list - surf_flags = [True] * length_pos_list - orient = [spec.orient_num] * length_pos_list - else: - spec_sym = self._species[spec.name] - surf_flags = None - orient = None - spec_list = [spec_sym] * length_pos_list -# XXX: HACK. This is definitely not guaranteed to be unique, but I -# can't UUID to work for some reason - rel_name = "rel_{}".format(random.randint(1,1000)) -# rel_name = "rel_{}".format(uuid.uuid1()) - x_pos = [] - y_pos = [] - z_pos = [] - for pos in pos_list: - x_pos.append(pos[0]) - y_pos.append(pos[1]) - z_pos.append(pos[2]) - (rel_obj, return_status) = m.create_list_release_site( - self._world, self._scene, spec_list, x_pos, y_pos, z_pos, - rel_name, surf_flags=surf_flags, orientations=orient) - if rel_name not in self._releases: - self._releases[rel_name] = (rel_obj, return_status) - - def release_into_mesh_obj(self, relobj) -> None: - """ Release the specified amount of species into an object. """ - - mesh_obj = relobj.mesh_obj - species = relobj.spec - region = relobj.region - - if isinstance(species, m.OrientedSpecies): - orient = species.orient_num - species = species.spec - else: - orient = None - if species.surface and orient is None: - logging.info( - "Error: must specify orientation when releasing surface " - "molecule") - if region: - rel_name = "%s_%s_%s_rel" % ( - species.name, mesh_obj.name, region.reg_name) - else: - rel_name = "%s_%s_rel" % (species.name, mesh_obj.name) - - mol_sym = self._species[species.name] - if orient: - mol_list = m.mcell_add_to_species_list(mol_sym, True, orient, None) - else: - mol_list = m.mcell_add_to_species_list(mol_sym, False, 0, None) - rel_object = m.object() - if relobj.number: - number_type = 0 - rel_amt = relobj.number - elif relobj.conc: - number_type = 1 - rel_amt = relobj.conc - if region: - reg_name = region.reg_name - else: - reg_name = "ALL" - release_object = m.mcell_create_region_release( - self._world, self._scene, self._mesh_objects[mesh_obj.name], - rel_name, reg_name, mol_list, float(rel_amt), - number_type, 1, None, rel_object) - if rel_name not in self._releases: - self._releases[rel_name] = release_object - m.mcell_delete_species_list(mol_list) -# logging.info("Creating release site '%s'" % rel_name) - - def create_release_site( - self, species: Species, count: int, shape: str, - pos_vec3: Vector3 = None, diam_vec3=None) -> None: - """ Create a spherical/cubic release site. """ - if pos_vec3 is None: - pos_vec3 = m.Vector3() - if diam_vec3 is None: - diam_vec3 = m.Vector3() - species_sym = self._species[species.name] - rel_name = "%s_%s_rel" % (species.name, shape) - if shape == "spherical": - shape = m.SHAPE_SPHERICAL - elif shape == "cubic": - shape = m.SHAPE_CUBIC - position, diameter, release_object = m.create_release_site( - self._world, self._scene, pos_vec3, diam_vec3, shape, - count, 0, species_sym, rel_name) - if rel_name not in self._releases: - self._releases[rel_name] = (position, diameter, release_object) - - def add_partitions( - self, axis: str, start: float, stop: float, step: float) -> None: - """ Add partitions to speed up the simulation. """ - if axis == "x": - axis_num = 0 - elif axis == "y": - axis_num = 1 - elif axis == "z": - axis_num = 2 - m.create_partitions(self._world, axis_num, start, stop, step) - - def add_count(self, species: Species, mesh_obj: MeshObj = None, reg: SurfaceRegion = None) -> None: - """ Set a species (possibly in/on a surface) to be counted """ - species_sym = self._species[species.name] - if mesh_obj: - mesh = self._mesh_objects[mesh_obj.name] - mesh_sym = m.mcell_get_obj_sym(mesh) - count_str = "react_data/seed_%04d/%s_%s" % ( - self._seed, species.name, mesh_obj.name) - count_list, os, out_times, output = m.create_count( - self._world, mesh_sym, species_sym, count_str, 1e-5) - elif reg: - reg_swig_obj = self._regions[reg.full_reg_name] - reg_sym = m.mcell_get_reg_sym(reg_swig_obj) - count_str = "react_data/seed_%04d/%s_%s_%s" % ( - self._seed, species.name, reg.mesh_obj.name, reg.reg_name) - count_list, os, out_times, output = m.create_count( - self._world, reg_sym, species_sym, count_str, 1e-5) - else: - count_str = "react_data/seed_%04d/%s_WORLD" % ( - self._seed, species.name) - count_list, os, out_times, output = m.create_count( - self._world, None, species_sym, count_str, 1e-5) - self._counts[count_str] = (count_list, os, out_times, output) - - def _get_sc_type(self, sc_type): - if sc_type == SC.reflect: - sc_type = m.RFLCT - elif sc_type == SC.transp: - sc_type = m.TRANSP - elif sc_type == SC.absorb: - sc_type = m.SINK - return sc_type - - def assign_surface_property_to_all_mols(self, sc_name, sc_type, region, moltype=MolType.all_mols): - sc_type = self._get_sc_type(sc_type) - - if moltype == MolType.surface_mols: - moltype = 'ALL_SURFACE_MOLECULES' - elif moltype == MolType.volume_mols: - moltype = 'ALL_VOLUME_MOLECULES' - elif moltype == MolType.all_mols: - moltype = 'ALL_MOLECULES' - - try: - sc_sym = self._surface_classes[sc_name] - except KeyError: - sc_sym = m.create_surf_class(self._world, sc_name) - self._surface_classes[sc_name] = sc_sym - spec_sym = self._species[moltype] -# XXX: add support for orientation - m.mcell_add_surf_class_properties( - self._world, sc_type, sc_sym, spec_sym, 0) - region_swig_obj = self._regions[region.full_reg_name] - m.mcell_assign_surf_class_to_region(sc_sym, region_swig_obj) - - def assign_surf_class( - self, sc: SurfaceClass, region: SurfaceRegion) -> None: - """ Assign a surface class to a region. """ - - sc_type = self._get_sc_type(sc.sc_type) - - if isinstance(sc.species, m.OrientedSpecies): - orient = sc.species.orient_num - spec_name = sc.species.spec.name - else: - orient = 0 - spec_name = sc.species.name - try: - sc_sym = self._surface_classes[sc.name] - except KeyError: - sc_sym = m.create_surf_class(self._world, sc.name) - self._surface_classes[sc.name] = sc_sym - spec_sym = self._species[spec_name] - m.mcell_add_surf_class_properties( - self._world, sc_type, sc_sym, spec_sym, orient) - region_swig_obj = self._regions[region.full_reg_name] - m.mcell_assign_surf_class_to_region(sc_sym, region_swig_obj) - - def get_species_count(self, species: Species, mesh_obj: MeshObj) -> int: - """ Get the current count of a molecule species. """ - return m.mcell_get_count( - species.name, "Scene.%s,ALL" % mesh_obj.name, self._world) - - def modify_rate_constant( - self, rxn: Reaction, new_rate_constant: float) -> None: - """ Modify the rate constant of the specified reaction. """ - if not rxn.name: - print("You can only change a named reaction.") - else: - m.mcell_modify_rate_constant( - self._world, rxn.name, new_rate_constant) - - def run_iteration(self) -> None: - """ Run a single iteration. """ - if self._finished: - print("The simulation is done running") - return - - if not self._started: - m.mcell_init_simulation(self._world) - m.mcell_init_output(self._world) - self._started = True - if self._current_iteration <= self._iterations: - m.mcell_run_iteration(self._world, self._output_freq, 0) -# You have to kill it now or it will hang - if self._current_iteration == self._iterations: - m.mcell_flush_data(self._world) - m.mcell_print_final_warnings(self._world) - m.mcell_print_final_statistics(self._world) - self._finished = True - self._current_iteration += 1 - - def run_sim(self) -> None: - """ Run the entire simulation without interruption. """ - if self._finished: - print("The simulation is done running") - return - - m.mcell_init_simulation(self._world) - m.mcell_init_output(self._world) - - for i in range(self._iterations+1): - m.mcell_run_iteration(self._world, self._output_freq, 0) - m.mcell_flush_data(self._world) - m.mcell_print_final_warnings(self._world) - m.mcell_print_final_statistics(self._world) - self._finished = True - - def end_sim(self) -> None: - """ Call this if we end the simulation early """ - if self._started and not self._finished: - m.mcell_flush_data(self._world) - m.mcell_print_final_warnings(self._world) - m.mcell_print_final_statistics(self._world) - self._finished = True - - -def create_partitions(world, axis, start, stop, step): - expr_list = m.num_expr_list_head() - expr_list.value_head = None - expr_list.value_tail = None - expr_list.value_count = 0 - expr_list.shared = 1 - m.mcell_generate_range(expr_list, start, stop, step) - expr_list.shared = 1 - m.mcell_set_partition(world, axis, expr_list) - - -def create_release_pattern( - world, name, delay=0, release_interval=1e20, train_interval=1e20, - train_duration=1e20, number_of_trains=1): - """Create a release pattern - - Args: - world (object) -- the world object which has been generated by - mcell create_instance_object - name -- name of the release pattern - other arguments -- as listed - """ - - return m.mcell_create_release_pattern( - world, name, delay, release_interval, train_interval, train_duration, - number_of_trains) - - -def create_count(world, where, mol_sym, file_path, step): - """Creates a count for a specified molecule in a specified region - and initializes an output block for the count data that will be - generated. - - Args: - world (object) -- the world object which has been generated by - mcell create_instance_object - where (sym_entry) -- symbol entry for the location you want to - record - mol_sym (sym_entry) -- symbol entry for the molecule - file_path (dir) -- name of the file path to output the data to - step -- frequency of output in seconds - - Returns: - The return values count list, output set, output times and - output structure - - """ - report_flags = m.REPORT_CONTENTS - c_list = m.output_column_list() -# XXX: m.ORIENT_NOT_SET is using -100 instead of SHRT_MIN (used typemap -# for mcell_create_count in mcell_react_out.i) because limits.h does not -# work well with swig - count_list = m.mcell_create_count( - world, mol_sym, m.ORIENT_NOT_SET, where, report_flags, None, c_list) - - os = m.output_set() - os = m.mcell_create_new_output_set( - None, 0, count_list.column_head, m.FILE_SUBSTITUTE, file_path) - - out_times = m.output_times_inlist() - out_times.type = m.OUTPUT_BY_STEP - out_times.step = step - - output = m.output_set_list() - output.set_head = os - output.set_tail = os - - m.mcell_add_reaction_output_block(world, output, 10000, out_times) - - return (count_list, os, out_times, output) - - -def create_species(world, name, D, is_2d, custom_time_step=0): - """Creates a molecule species - - Args: - world (object) -- the world object which has been generated by - mcell create_instance_object - name (string) -- Name of the molecule species that will be - generated - D (double) -- Diffusion Coefficient for the molecule species - that will be generated. - is_2d (bool) -- Boolean describing whether new species is a - surface molecule - custom_time_step -- Custom time step (< 0.0 for a custom space step, - >0.0 for custom timestep, 0.0 for default timestep) - Returns: - (mcell_symbol) Returns a species sym_entry - - """ - species_def = m.mcell_species_spec() - species_def.name = name - species_def.D = D - is_2d = 1 if is_2d else 0 - species_def.is_2d = is_2d - species_def.custom_time_step = custom_time_step - species_def.target_only = 0 - species_def.max_step_length = 0 - - species_temp_sym = m.mcell_symbol() - species_sym = m.mcell_create_species( - world, species_def, species_temp_sym) - - return species_sym - - -def create_reaction( - world, reactants, products, rate_constant, - backward_rate_constant=0.0, surf_class=None, name=None): - """Creates a molecular reaction - - Args: - world (object) -- the world object which has been generated by - mcell create_instance_object - reactants (mcell_species_list) -- list of species that are the - reactants for the reaction - products (mcell_species_list) -- list of species that are the - products for the reaction - rate_constant (double) -- the rate constant for the forward - direction reaction -> product - backward_rate_constant (double)(optional) -- the rate constant - for the backward direction reaction <- product - surf_class (mcell species list surface class)(optional) -- the - surface class upon which the reaction will happen - name (string)(optional) -- Name of the reaction - - Returns: - void -- creates a reaction, by generating reaction_rates - structure - - """ - - if surf_class: -# Do nothing, surf_class has been added and a null object is not needed - pass - else: - surf_class = m.mcell_add_to_species_list(None, False, 0, None) - - arrow = m.reaction_arrow() -# reversible reaction e.g. A<->B - if backward_rate_constant: - arrow.flags = m.ARROW_BIDIRECTIONAL - rate_constant = m.mcell_create_reaction_rates( - m.RATE_CONSTANT, rate_constant, m.RATE_CONSTANT, - backward_rate_constant) -# irreversible reaction e.g. A->B - else: - arrow.flags = m.REGULAR_ARROW - rate_constant = m.mcell_create_reaction_rates( - m.RATE_CONSTANT, rate_constant, m.RATE_UNSET, 0) - arrow.catalyst = m.mcell_species() - arrow.catalyst.next = None - arrow.catalyst.mol_type = None - arrow.catalyst.orient_set = 0 - arrow.catalyst.orient = 0 - - if (name): - name_sym = m.mcell_new_rxn_pathname(world, name) - else: - name_sym = None - m.mcell_add_reaction_simplified( - world, reactants, arrow, surf_class, products, rate_constant, name_sym) - - -def create_instance_object(world, name): - """Creates an instance object. Simple translation from wrapped code - to python function. Frees the user from having to initialize the - scene object and then pass it in and generate the object. - - Args: - world (object) -- the world object which has been generated by - mcell create_instance_object - name (string) -- name of the instance object - - Returns: - instance object - - """ - scene_temp = m.object() - return m.mcell_create_instance_object(world, name, scene_temp) - - -def create_surf_class(world, name): - """Creates a surface class. Simple translation from wrapped code to - python function Frees the user from having to initialize the surface - class symbol and then pass it in and generate the object. - - Args: - world (object) -- the world object which has been generated by - mcell create_instance_object - name (string) -- name of the instance object - - Returns: - mcell_symbol for surface class - - """ - - sc_temp = m.mcell_symbol() - return m.mcell_create_surf_class(world, name, sc_temp) - - -def create_list_release_site( - world, scene, mol_list, xpos, ypos, zpos, name, surf_flags=None, - orientations=None, diameter=1e-4): - ''' - Creates a list release site - All is self explanatory except mol_list: - This is a list of "mol_sym" that you get back when you create the species. - This is a Python list - it is converted to a species list in this function - for you. By default, assumes all molecules are volume molecules. Else, need - to pass surf_flags=[True,True,False,...] and their orientations = - [1,0,1,...] Diameter is the diameter we search for to place a surface mol - It can be None (= NULL in C) but then we do a poor job of placing surface - mols - ''' - -# Check that they're all the same length - n = len(mol_list) - if len(xpos) != n or len(ypos) != n or len(zpos) != n: - raise ValueError("All lists must have the same length.") - -# Check that if there are surface molecules - if surf_flags is not None: -# Check that there are enough - if len(surf_flags) != n or len(orientations) != n: - raise ValueError( - "surf_flags and orientations lists must have the same lengths " - "as the others.") - -# Convert to floats (can't be int) - xpos = [float(q) for q in xpos] - ypos = [float(q) for q in ypos] - zpos = [float(q) for q in zpos] - -# Diameter - diam = m.vector3() - diam.x = diameter - diam.y = diameter - diam.z = diameter - -# Mols - mol_list.reverse() - species_list = None -# All volume molecules - if surf_flags is None: - for mol_sym in mol_list: - species_list = m.mcell_add_to_species_list( - mol_sym, False, 0, species_list) - else: - for i, mol_sym in enumerate(mol_list): - species_list = m.mcell_add_to_species_list( - mol_sym, surf_flags[i], orientations[i], species_list) - - rel_object = m.object() - ret = m.mcell_create_list_release_site( - world, scene, name, species_list, xpos, ypos, zpos, n, diam, - rel_object) -# Delete the species list - m.mcell_delete_species_list(species_list) - -# VERY IMPORTANT HERE - MUST RETURN "ret" -# If we throw this away, all is lost.... - return (rel_object, ret) - - -def create_release_site( - world, scene, pos, diam, shape, number, number_type, mol_sym, name): - """Creates a molecule release site - - Args: - world (object) -- the world object which has been generated by - mcell create_instance_object - scene (instance object) -- scene for mcell simulation - pos (vector3) -- position of release site - diam (vector3) -- diameter of release site - number (int or float) -- number to be release at release site - number_type (int) -- 0 for NUMBER, 1 for CONCENTRATION - mol_sym (mcell_symbol) -- species to be released - name (string) -- name of the release site - - Returns: - void -- generates a species release site - - """ - - position = m.vector3() - position.x = pos.x - position.y = pos.y - position.z = pos.z - diameter = m.vector3() - diameter.x = diam.x - diameter.y = diam.y - diameter.z = diam.z - - mol_list = m.mcell_add_to_species_list(mol_sym, False, 0, None) - rel_object = m.object() - release_object = m.mcell_create_geometrical_release_site( - world, scene, name, shape, position, diameter, mol_list, float(number), - number_type, 1, None, rel_object) - m.mcell_delete_species_list(mol_list) - - return (position, diameter, release_object) - - -def create_region_release_site( - world, scene, mesh, release_name, reg_name, number, number_type, - mol_sym): - """Creates a release site on a specific region - - Args: - world (object) -- the world object which has been generated by - mcell create_instance_object - scene (instance object) -- scene for mcell simulation - mesh (mesh object) -- scene object where the release will occur - release_name (string) -- name of the region release site - reg_name (string) -- name of the region for the release site - number (int or float) -- number to be released at the region release - site - number_type (int) -- 0 for NUMBER, 1 for CONCENTRATION - mol_sym (mcell_symbol) -- species to be released - - Returns: - release object (object) - - """ - - mol_list = m.mcell_add_to_species_list(mol_sym, False, 0, None) - rel_object = m.object() - release_object = m.mcell_create_region_release( - world, scene, mesh, release_name, reg_name, mol_list, float(number), - number_type, 1, None, rel_object) - m.mcell_delete_species_list(mol_list) - - return release_object - - -def create_box(world, scene, half_length, name): - """Creates the verteces and lines of a cube object at the origin - - Args: - half_length (double) -- half length of the cube - - Returns: - vertex list and element connection list - - """ - - hl = half_length - verts = m.mcell_add_to_vertex_list(hl, hl, -hl, None) - verts = m.mcell_add_to_vertex_list(hl, -hl, -hl, verts) - verts = m.mcell_add_to_vertex_list(-hl, -hl, -hl, verts) - verts = m.mcell_add_to_vertex_list(-hl, hl, -hl, verts) - verts = m.mcell_add_to_vertex_list(hl, hl, hl, verts) - verts = m.mcell_add_to_vertex_list(hl, -hl, hl, verts) - verts = m.mcell_add_to_vertex_list(-hl, -hl, hl, verts) - verts = m.mcell_add_to_vertex_list(-hl, hl, hl, verts) - - elems = m.mcell_add_to_connection_list(1, 2, 3, None) - elems = m.mcell_add_to_connection_list(7, 6, 5, elems) - elems = m.mcell_add_to_connection_list(0, 4, 5, elems) - elems = m.mcell_add_to_connection_list(1, 5, 6, elems) - elems = m.mcell_add_to_connection_list(6, 7, 3, elems) - elems = m.mcell_add_to_connection_list(0, 3, 7, elems) - elems = m.mcell_add_to_connection_list(0, 1, 3, elems) - elems = m.mcell_add_to_connection_list(4, 7, 5, elems) - elems = m.mcell_add_to_connection_list(1, 0, 5, elems) - elems = m.mcell_add_to_connection_list(2, 1, 6, elems) - elems = m.mcell_add_to_connection_list(2, 6, 3, elems) - elems = m.mcell_add_to_connection_list(4, 0, 7, elems) - - pobj = m.poly_object() - pobj.obj_name = name - pobj.vertices = verts - pobj.num_vert = 8 - pobj.connections = elems - pobj.num_conn = 12 - - mesh_temp = m.object() - mesh = m.mcell_create_poly_object(world, scene, pobj, mesh_temp) - - return mesh - - -def change_geometry(world, scene_name, obj_list): - - pobj_list = None - verts = None - elems = None - - for p in obj_list: - - verts = None - for x, y, z in p.vert_list: - verts = m.mcell_add_to_vertex_list(x, y, z, verts) - - elems = None - for x, y, z in p.face_list: - elems = m.mcell_add_to_connection_list(x, y, z, elems) - - pobj = m.poly_object() - pobj.obj_name = p.obj_name - pobj.vertices = verts - pobj.num_vert = len(p.vert_list) - pobj.connections = elems - pobj.num_conn = len(p.face_list) - - surf_reg_faces = None - for idx in p.surf_reg_face_list: - surf_reg_faces = m.mcell_add_to_region_list(surf_reg_faces, idx) - - pobj_list = m.mcell_add_to_poly_obj_list( - pobj_list, p.obj_name, verts, len(p.vert_list), elems, - len(p.face_list), surf_reg_faces, p.reg_name) - - m.mcell_change_geometry(world, pobj_list) - - -def create_polygon_object(world, vert_list, face_list, scene, name, translation=None): - """Creates a polygon object from a vertex and element lest - - Args: - world (object) -- the world object which has been generated by - mcell create_instance_object - vert_list (vertex list) -- verteces for the polygon - face_list (element connection list) -- faces for the polygon - scene (instance object) -- scene for mcell simulation - name (string) -- name of polygon object that will be created - - Returns: - polygon object - """ - - verts = None - vert_list = vert_list[::-1] - t = translation - if t: - for x, y, z in vert_list: - verts = m.mcell_add_to_vertex_list(x+t[0], y+t[1], z+t[2], verts) - else: - for x, y, z in vert_list: - verts = m.mcell_add_to_vertex_list(x, y, z, verts) - - elems = None - face_list = face_list[::-1] - for x, y, z in face_list: - elems = m.mcell_add_to_connection_list(x, y, z, elems) - - pobj = m.poly_object() - pobj.obj_name = name - pobj.vertices = verts - pobj.num_vert = len(vert_list) - pobj.connections = elems - pobj.num_conn = len(face_list) - - mesh_temp = m.object() - mesh = m.mcell_create_poly_object(world, scene, pobj, mesh_temp) - - return mesh - - -def create_surface_region(world, mesh, surf_reg_face_list, region_name): - """Creates a surface region - - Args: - world (object) -- the world object which has been generated by - mcell create_instance_object - mesh (polygon object) -- object where surface region will reside - surf_reg_face_list (element connection list) -- list of surface - region faces - region_name (string) -- name of the surface region being created - - Returns: - region object - - """ - - surface_region = m.mcell_create_region(world, mesh, region_name) - - surf_reg_faces = None - for idx in surf_reg_face_list: - surf_reg_faces = m.mcell_add_to_region_list(surf_reg_faces, idx) - - m.mcell_set_region_elements(surface_region, surf_reg_faces, 1) - - return surface_region - -import pymcell as m -import json -import pickle -import logging -from typing import List, Dict, Tuple, Any - - -def read_json_data_model(file_name: str) -> Dict[str, Any]: - """ Read a CellBlender data model in JSON format """ - with open(file_name, 'r') as f: - json_model = f.read() - data_model = json.loads(json_model) - logging.info("Reading data model {}".format(file_name)) - return data_model - - -def read_pickle_data_model(file_name) -> Dict[str, Any]: - """ Read a pickled CellBlender data model """ - pickle_model = pickle.load( open( file_name, "rb" ) ) - logging.info("Reading data model {}".format(file_name)) - return pickle_model - - -def create_species_from_dm( - data_model: Dict[str, Any]) -> Dict[str, m.Species]: - """ Create a dictionary of Species from a CB data model """ - logging.info("Creating species from data model") - species_dm_list = data_model['mcell']['define_molecules']['molecule_list'] - species_dict = {} - for species_dm in species_dm_list: - species_name = species_dm['mol_name'] - dc = float(species_dm['diffusion_constant']) - species_type = species_dm['mol_type'] - surface = False - if species_type == '2D': - surface = True - species_dm = m.Species(species_name, dc, surface) - species_dict[species_name] = species_dm - return species_dict - - -def make_spec_orient_list( - mol_str_list: List[str], - species: Dict[str, m.Species]) -> List[Tuple[m.Species, m.Orient]]: - spec_orient_list = [] - for r in mol_str_list: - if r.endswith("'") or r.endswith(",") or r.endswith(";"): - r_str = r[:-1] - r_orient = r[-1] - if r_orient == "'": - orient = m.Orient.up - elif r_orient == ",": - orient = m.Orient.down - elif r_orient == ";": - orient = m.Orient.mix - else: - orient = m.Orient.mix - spec = species[r_str] - spec_orient_list.append(m.OrientedSpecies(spec, orient)) - else: - spec = species[r] - spec_orient_list.append(spec) - return spec_orient_list - - -def create_reactions_from_dm( - data_model: Dict[str, Any], - species: Dict[str, m.Species]) -> List[m.Reaction]: - """ Create a dictionary of Reactions from a CB data model """ - logging.info("Creating reactions from data model") - rxn_dm_list = data_model['mcell']['define_reactions']['reaction_list'] - rxn_list = [] - for rxn_dm in rxn_dm_list: -# rxn_name = rxn_dm['rxn_name'] - fwd_rate = float(rxn_dm['fwd_rate']) -# try: -# bkwd_rate = float(rxn_dm['bkwd_rate']) -# except ValueError: -# pass - reactants_str_list = rxn_dm['reactants'].split(" + ") - products_str_list = rxn_dm['products'].split(" + ") - r_list = make_spec_orient_list(reactants_str_list, species) - p_list = make_spec_orient_list(products_str_list, species) -# rxn_type = rxn_dm['rxn_type'] - rxn_dm = m.Reaction(r_list, p_list, fwd_rate) - rxn_list.append(rxn_dm) - return rxn_list - - -def create_meshobjs_from_dm( - dm: Dict[str, Any]) -> Dict[str, m.MeshObj]: - """ Create a dictionary of MeshObj objects from a CB data model """ - logging.info("Creating mesh objects from data model") - meshobj_dm_list = dm['mcell']['geometrical_objects']['object_list'] - meshobj_dict = {} - for meshobj_dm in meshobj_dm_list: - name = meshobj_dm['name'] - vert_list = meshobj_dm['vertex_list'] - face_list = meshobj_dm['element_connections'] - meshobj = m.MeshObj(name, vert_list, face_list) - try: - for reg_dm in meshobj_dm['define_surface_regions']: - reg_name = reg_dm['name'] - face_list = reg_dm['include_elements'] - m.SurfaceRegion(meshobj, reg_name, face_list) - except KeyError: - pass - meshobj_dict[name] = meshobj - return meshobj_dict - - -def create_surface_classes_from_dm( - dm: Dict[str, Any], - world: m.MCellSim, - spec_dict: Dict[str, m.Species]) -> Dict[str, m.SurfaceClass]: - """ Create a dictionary of SurfaceClass objects from a CB data model """ - logging.info("Creating surface classes from data model") - sc_dm_list = dm['mcell']['define_surface_classes']['surface_class_list'] - sc_dict = {} - for sc_dm in sc_dm_list: - sc_name = sc_dm['name'] - for sc_prop_dm in sc_dm['surface_class_prop_list']: - if sc_prop_dm['affected_mols'] == 'SINGLE': - spec_name = sc_prop_dm['molecule'] - else: -# XXX: Need to add in case for ALL_MOLECULES, -# ALL_SURFACE_MOLECULES, etc. - pass - spec = spec_dict[spec_name] - sc_enums = {"TRANSPARENT": m.SC.transp , "REFLECTIVE": m.SC.reflect, "ABSORPTIVE": m.SC.absorb } - surf_class_type = sc_enums[sc_prop_dm['surf_class_type']] - odict = {"'": Orient.up, ",": Orient.down, ";": Orient.mix} - orient = odict[sc_prop_dm['surf_class_orient']] - spec_orient = OrientedSpecies(spec, orient) - sc = m.SurfaceClass(surf_class_type, spec_orient, name=sc_name) - sc_dict[sc_name] = sc - return sc_dict - - -def create_mod_surf_reg_from_dm( - dm: Dict[str, Any], - world: m.MCellSim, - sc_dict: Dict[str, m.SurfaceClass], - meshobj_dict: Dict[str, m.MeshObj]) -> None: - logging.info("Creating surface region modifications from data model") - mod_sr_list = dm['mcell']['modify_surface_regions']['modify_surface_regions_list'] - for mod_sr in mod_sr_list: - object_name = mod_sr['object_name'] - region_name = mod_sr['region_name'] - surf_class_name = mod_sr['surf_class_name'] - sc = sc_dict[surf_class_name] - meshobj = meshobj_dict[object_name] - for reg in meshobj.regions: - if reg.reg_name == region_name: - world.assign_surf_class(sc, reg) - break - - -def create_release_sites_from_dm( - data_model: Dict[str, Any], - world: m.MCellSim, - meshobjs: Dict[str, m.MeshObj], - species: Dict[str, m.Species]) -> None: - logging.info("Creating release sites from data model") - rel_site_dm_list = \ - data_model['mcell']['release_sites']['release_site_list'] - for rel_site_dm in rel_site_dm_list: - rel_site_name = rel_site_dm['name'] - object_expr = rel_site_dm['object_expr'] - idx = object_expr.find("[") - if idx > 0: - object_name = object_expr[:idx] - reg_name = object_expr[idx+1:-1] - else: - object_name = object_expr - reg_name = "" - meshobj = meshobjs[object_name] - spec_name = rel_site_dm['molecule'] - spec = species[spec_name] - quantity = int(rel_site_dm['quantity']) - orient = rel_site_dm['orient'] - odict = {"'": Orient.up, ",": Orient.down, ";": Orient.mix} - spec_orient = OrientedSpecies(spec, odict[orient]) -# XXX: this is really clunky. - reg = None - for r in meshobj.regions: - if r.reg_name == reg_name: - reg = r - break - if reg: - rel = m.ObjectRelease(spec_orient, number=quantity, region=reg) - else: - rel = m.ObjectRelease(spec_orient, number=quantity, mesh_obj=meshobj) - world.release(rel) - - -def create_reaction_data_from_dm( - data_model: Dict[str, Any], - world: m.MCellSim, - meshobjs: Dict[str, m.MeshObj], - species: Dict[str, m.Species]) -> None: - logging.info("Creating reactions from data model") - rxn_out_dm_list = \ - data_model['mcell']['reaction_data_output']['reaction_output_list'] - for rxn_out_dm in rxn_out_dm_list: - molecule_name = rxn_out_dm['molecule_name'] - spec = species[molecule_name] - count_location = rxn_out_dm['count_location'] - if count_location == "Object": - object_name = rxn_out_dm['object_name'] - meshobj = meshobjs[object_name] - world.add_count(spec, mesh_obj=meshobj) - elif count_location == "Region": - region_name = rxn_out_dm['region_name'] - object_name = rxn_out_dm['object_name'] - meshobj = meshobjs[object_name] - for reg in meshobj.regions: - if reg.reg_name == region_name: - world.add_count(spec, reg=reg) - else: - world.add_count(spec) - - -def create_viz_data_from_dm( - data_model: Dict, - world: m.MCellSim, - species: Dict[str, m.Species]) -> None: - logging.info("Creating visualization data from data model") - species_dm_list = data_model['mcell']['define_molecules']['molecule_list'] - export_all = data_model['mcell']['viz_output']['export_all'] - species_list = [] - for species_dm in species_dm_list: - if export_all or species_dm['export_viz']: - species_name = species_dm['mol_name'] - spec = species[species_name] - species_list.append(spec) - world.add_viz(species_list) - - -def create_initializations_from_dm( - data_model: Dict, - world: m.MCellSim) -> None: - logging.info("Creating initializations from data model") - initialization = data_model['mcell']['initialization'] - iterations = int(initialization['iterations']) - time_step = float(initialization['time_step']) - world.set_iterations(iterations) - world.set_time_step(time_step) - -MCELL_SUCCESS = _pymcell.MCELL_SUCCESS -MCELL_FAIL = _pymcell.MCELL_FAIL -class num_expr_list_head(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, num_expr_list_head, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, num_expr_list_head, name) - __repr__ = _swig_repr - __swig_setmethods__["value_head"] = _pymcell.num_expr_list_head_value_head_set - __swig_getmethods__["value_head"] = _pymcell.num_expr_list_head_value_head_get - if _newclass: - value_head = _swig_property(_pymcell.num_expr_list_head_value_head_get, _pymcell.num_expr_list_head_value_head_set) - __swig_setmethods__["value_tail"] = _pymcell.num_expr_list_head_value_tail_set - __swig_getmethods__["value_tail"] = _pymcell.num_expr_list_head_value_tail_get - if _newclass: - value_tail = _swig_property(_pymcell.num_expr_list_head_value_tail_get, _pymcell.num_expr_list_head_value_tail_set) - __swig_setmethods__["value_count"] = _pymcell.num_expr_list_head_value_count_set - __swig_getmethods__["value_count"] = _pymcell.num_expr_list_head_value_count_get - if _newclass: - value_count = _swig_property(_pymcell.num_expr_list_head_value_count_get, _pymcell.num_expr_list_head_value_count_set) - __swig_setmethods__["shared"] = _pymcell.num_expr_list_head_shared_set - __swig_getmethods__["shared"] = _pymcell.num_expr_list_head_shared_get - if _newclass: - shared = _swig_property(_pymcell.num_expr_list_head_shared_get, _pymcell.num_expr_list_head_shared_set) - - def __init__(self, *args): - """__init__(self) -> num_expr_list_head""" - this = _pymcell.new_num_expr_list_head(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_num_expr_list_head - __del__ = lambda self: None -num_expr_list_head_swigregister = _pymcell.num_expr_list_head_swigregister -num_expr_list_head_swigregister(num_expr_list_head) - - -def mcell_set_seed(state: 'MCELL_STATE *', seed: 'int') -> "void": - return _pymcell.mcell_set_seed(state, seed) -mcell_set_seed = _pymcell.mcell_set_seed - -def mcell_create() -> "MCELL_STATE *": - return _pymcell.mcell_create() -mcell_create = _pymcell.mcell_create - -def mcell_init_state(state: 'MCELL_STATE *') -> "MCELL_STATUS": - return _pymcell.mcell_init_state(state) -mcell_init_state = _pymcell.mcell_init_state - -def mcell_init_simulation(state: 'MCELL_STATE *') -> "MCELL_STATUS": - return _pymcell.mcell_init_simulation(state) -mcell_init_simulation = _pymcell.mcell_init_simulation - -def mcell_init_read_checkpoint(state: 'MCELL_STATE *') -> "MCELL_STATUS": - return _pymcell.mcell_init_read_checkpoint(state) -mcell_init_read_checkpoint = _pymcell.mcell_init_read_checkpoint - -def mcell_init_output(state: 'MCELL_STATE *') -> "MCELL_STATUS": - return _pymcell.mcell_init_output(state) -mcell_init_output = _pymcell.mcell_init_output - -def mcell_set_partition(state: 'MCELL_STATE *', dim: 'int', head: 'num_expr_list_head') -> "MCELL_STATUS": - return _pymcell.mcell_set_partition(state, dim, head) -mcell_set_partition = _pymcell.mcell_set_partition - -def mcell_set_time_step(state: 'MCELL_STATE *', step: 'double') -> "MCELL_STATUS": - return _pymcell.mcell_set_time_step(state, step) -mcell_set_time_step = _pymcell.mcell_set_time_step - -def mcell_set_iterations(state: 'MCELL_STATE *', iterations: 'long long') -> "MCELL_STATUS": - return _pymcell.mcell_set_iterations(state, iterations) -mcell_set_iterations = _pymcell.mcell_set_iterations - -def mcell_silence_notifications(state: 'MCELL_STATE *') -> "MCELL_STATUS": - return _pymcell.mcell_silence_notifications(state) -mcell_silence_notifications = _pymcell.mcell_silence_notifications - -def mcell_enable_notifications(state: 'MCELL_STATE *') -> "MCELL_STATUS": - return _pymcell.mcell_enable_notifications(state) -mcell_enable_notifications = _pymcell.mcell_enable_notifications - -def mcell_silence_warnings(state: 'MCELL_STATE *') -> "MCELL_STATUS": - return _pymcell.mcell_silence_warnings(state) -mcell_silence_warnings = _pymcell.mcell_silence_warnings - -def mcell_enable_warnings(state: 'MCELL_STATE *') -> "MCELL_STATUS": - return _pymcell.mcell_enable_warnings(state) -mcell_enable_warnings = _pymcell.mcell_enable_warnings - -def mcell_print_version() -> "void": - return _pymcell.mcell_print_version() -mcell_print_version = _pymcell.mcell_print_version - -def mcell_print_usage(executable_name: 'char const *') -> "void": - return _pymcell.mcell_print_usage(executable_name) -mcell_print_usage = _pymcell.mcell_print_usage - -def mcell_print_stats() -> "void": - return _pymcell.mcell_print_stats() -mcell_print_stats = _pymcell.mcell_print_stats - -def mcell_argparse(argc: 'int', argv: 'char **', state: 'MCELL_STATE *') -> "int": - return _pymcell.mcell_argparse(argc, argv, state) -mcell_argparse = _pymcell.mcell_argparse - -def mcell_copysort_numeric_list(head: 'num_expr_list') -> "struct num_expr_list *": - return _pymcell.mcell_copysort_numeric_list(head) -mcell_copysort_numeric_list = _pymcell.mcell_copysort_numeric_list - -def mcell_sort_numeric_list(head: 'num_expr_list') -> "void": - return _pymcell.mcell_sort_numeric_list(head) -mcell_sort_numeric_list = _pymcell.mcell_sort_numeric_list - -def mcell_free_numeric_list(nel: 'num_expr_list') -> "void": - return _pymcell.mcell_free_numeric_list(nel) -mcell_free_numeric_list = _pymcell.mcell_free_numeric_list - -def mcell_generate_range(list: 'num_expr_list_head', start: 'double', end: 'double', step: 'double') -> "MCELL_STATUS": - return _pymcell.mcell_generate_range(list, start, end, step) -mcell_generate_range = _pymcell.mcell_generate_range - -def mcell_generate_range_singleton(lh: 'num_expr_list_head', value: 'double') -> "int": - return _pymcell.mcell_generate_range_singleton(lh, value) -mcell_generate_range_singleton = _pymcell.mcell_generate_range_singleton - -def mcell_print(message: 'char const *') -> "void": - return _pymcell.mcell_print(message) -mcell_print = _pymcell.mcell_print -class object_creation(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, object_creation, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, object_creation, name) - __repr__ = _swig_repr - __swig_setmethods__["object_name_list"] = _pymcell.object_creation_object_name_list_set - __swig_getmethods__["object_name_list"] = _pymcell.object_creation_object_name_list_get - if _newclass: - object_name_list = _swig_property(_pymcell.object_creation_object_name_list_get, _pymcell.object_creation_object_name_list_set) - __swig_setmethods__["object_name_list_end"] = _pymcell.object_creation_object_name_list_end_set - __swig_getmethods__["object_name_list_end"] = _pymcell.object_creation_object_name_list_end_get - if _newclass: - object_name_list_end = _swig_property(_pymcell.object_creation_object_name_list_end_get, _pymcell.object_creation_object_name_list_end_set) - __swig_setmethods__["current_object"] = _pymcell.object_creation_current_object_set - __swig_getmethods__["current_object"] = _pymcell.object_creation_current_object_get - if _newclass: - current_object = _swig_property(_pymcell.object_creation_current_object_get, _pymcell.object_creation_current_object_set) - - def __init__(self, *args): - """__init__(self) -> object_creation""" - this = _pymcell.new_object_creation(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_object_creation - __del__ = lambda self: None -object_creation_swigregister = _pymcell.object_creation_swigregister -object_creation_swigregister(object_creation) - -class poly_object(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, poly_object, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, poly_object, name) - __repr__ = _swig_repr - __swig_setmethods__["obj_name"] = _pymcell.poly_object_obj_name_set - __swig_getmethods__["obj_name"] = _pymcell.poly_object_obj_name_get - if _newclass: - obj_name = _swig_property(_pymcell.poly_object_obj_name_get, _pymcell.poly_object_obj_name_set) - __swig_setmethods__["vertices"] = _pymcell.poly_object_vertices_set - __swig_getmethods__["vertices"] = _pymcell.poly_object_vertices_get - if _newclass: - vertices = _swig_property(_pymcell.poly_object_vertices_get, _pymcell.poly_object_vertices_set) - __swig_setmethods__["num_vert"] = _pymcell.poly_object_num_vert_set - __swig_getmethods__["num_vert"] = _pymcell.poly_object_num_vert_get - if _newclass: - num_vert = _swig_property(_pymcell.poly_object_num_vert_get, _pymcell.poly_object_num_vert_set) - __swig_setmethods__["connections"] = _pymcell.poly_object_connections_set - __swig_getmethods__["connections"] = _pymcell.poly_object_connections_get - if _newclass: - connections = _swig_property(_pymcell.poly_object_connections_get, _pymcell.poly_object_connections_set) - __swig_setmethods__["num_conn"] = _pymcell.poly_object_num_conn_set - __swig_getmethods__["num_conn"] = _pymcell.poly_object_num_conn_get - if _newclass: - num_conn = _swig_property(_pymcell.poly_object_num_conn_get, _pymcell.poly_object_num_conn_set) - - def __init__(self, *args): - """__init__(self) -> poly_object""" - this = _pymcell.new_poly_object(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_poly_object - __del__ = lambda self: None -poly_object_swigregister = _pymcell.poly_object_swigregister -poly_object_swigregister(poly_object) - -class poly_object_list(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, poly_object_list, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, poly_object_list, name) - __repr__ = _swig_repr - __swig_setmethods__["obj_name"] = _pymcell.poly_object_list_obj_name_set - __swig_getmethods__["obj_name"] = _pymcell.poly_object_list_obj_name_get - if _newclass: - obj_name = _swig_property(_pymcell.poly_object_list_obj_name_get, _pymcell.poly_object_list_obj_name_set) - __swig_setmethods__["vertices"] = _pymcell.poly_object_list_vertices_set - __swig_getmethods__["vertices"] = _pymcell.poly_object_list_vertices_get - if _newclass: - vertices = _swig_property(_pymcell.poly_object_list_vertices_get, _pymcell.poly_object_list_vertices_set) - __swig_setmethods__["num_vert"] = _pymcell.poly_object_list_num_vert_set - __swig_getmethods__["num_vert"] = _pymcell.poly_object_list_num_vert_get - if _newclass: - num_vert = _swig_property(_pymcell.poly_object_list_num_vert_get, _pymcell.poly_object_list_num_vert_set) - __swig_setmethods__["connections"] = _pymcell.poly_object_list_connections_set - __swig_getmethods__["connections"] = _pymcell.poly_object_list_connections_get - if _newclass: - connections = _swig_property(_pymcell.poly_object_list_connections_get, _pymcell.poly_object_list_connections_set) - __swig_setmethods__["num_conn"] = _pymcell.poly_object_list_num_conn_set - __swig_getmethods__["num_conn"] = _pymcell.poly_object_list_num_conn_get - if _newclass: - num_conn = _swig_property(_pymcell.poly_object_list_num_conn_get, _pymcell.poly_object_list_num_conn_set) - __swig_setmethods__["surf_reg_faces"] = _pymcell.poly_object_list_surf_reg_faces_set - __swig_getmethods__["surf_reg_faces"] = _pymcell.poly_object_list_surf_reg_faces_get - if _newclass: - surf_reg_faces = _swig_property(_pymcell.poly_object_list_surf_reg_faces_get, _pymcell.poly_object_list_surf_reg_faces_set) - __swig_setmethods__["reg_name"] = _pymcell.poly_object_list_reg_name_set - __swig_getmethods__["reg_name"] = _pymcell.poly_object_list_reg_name_get - if _newclass: - reg_name = _swig_property(_pymcell.poly_object_list_reg_name_get, _pymcell.poly_object_list_reg_name_set) - __swig_setmethods__["next"] = _pymcell.poly_object_list_next_set - __swig_getmethods__["next"] = _pymcell.poly_object_list_next_get - if _newclass: - next = _swig_property(_pymcell.poly_object_list_next_get, _pymcell.poly_object_list_next_set) - - def __init__(self, *args): - """__init__(self) -> poly_object_list""" - this = _pymcell.new_poly_object_list(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_poly_object_list - __del__ = lambda self: None -poly_object_list_swigregister = _pymcell.poly_object_list_swigregister -poly_object_list_swigregister(poly_object_list) - - -def mcell_create_instance_object(state: 'MCELL_STATE *', name: 'char *', new_object: 'struct object **') -> "struct object **": - return _pymcell.mcell_create_instance_object(state, name, new_object) -mcell_create_instance_object = _pymcell.mcell_create_instance_object - -def mcell_create_poly_object(state: 'MCELL_STATE *', parent: 'object', poly_obj: 'poly_object', new_object: 'struct object **') -> "struct object **": - return _pymcell.mcell_create_poly_object(state, parent, poly_obj, new_object) -mcell_create_poly_object = _pymcell.mcell_create_poly_object - -def new_polygon_list(state: 'MCELL_STATE *', obj_ptr: 'object', n_vertices: 'int', vertices: 'struct vertex_list *', n_connections: 'int', connections: 'struct element_connection_list *') -> "struct polygon_object *": - return _pymcell.new_polygon_list(state, obj_ptr, n_vertices, vertices, n_connections, connections) -new_polygon_list = _pymcell.new_polygon_list - -def make_new_object(dg_parse: 'struct dyngeom_parse_vars *', obj_sym_table: 'sym_table_head', obj_name: 'char *', error_code: 'int *') -> "struct object *": - return _pymcell.make_new_object(dg_parse, obj_sym_table, obj_name, error_code) -make_new_object = _pymcell.make_new_object - -def push_object_name(obj_creation: 'object_creation', name: 'char *') -> "char *": - return _pymcell.push_object_name(obj_creation, name) -push_object_name = _pymcell.push_object_name - -def pop_object_name(obj_creation: 'object_creation') -> "void": - return _pymcell.pop_object_name(obj_creation) -pop_object_name = _pymcell.pop_object_name - -def mcell_add_to_vertex_list(x: 'double', y: 'double', z: 'double', vertices: 'struct vertex_list *') -> "struct vertex_list *": - return _pymcell.mcell_add_to_vertex_list(x, y, z, vertices) -mcell_add_to_vertex_list = _pymcell.mcell_add_to_vertex_list - -def free_vertex_list(vert_list: 'struct vertex_list *') -> "void": - return _pymcell.free_vertex_list(vert_list) -free_vertex_list = _pymcell.free_vertex_list - -def mcell_add_to_connection_list(v1: 'int', v2: 'int', v3: 'int', elements: 'struct element_connection_list *') -> "struct element_connection_list *": - return _pymcell.mcell_add_to_connection_list(v1, v2, v3, elements) -mcell_add_to_connection_list = _pymcell.mcell_add_to_connection_list - -def free_connection_list(elem_conn_list: 'struct element_connection_list *') -> "void": - return _pymcell.free_connection_list(elem_conn_list) -free_connection_list = _pymcell.free_connection_list - -def mcell_set_region_elements(rgn: 'struct region *', elements: 'struct element_list *', normalize_now: 'int') -> "int": - return _pymcell.mcell_set_region_elements(rgn, elements, normalize_now) -mcell_set_region_elements = _pymcell.mcell_set_region_elements - -def mcell_add_to_region_list(elements: 'struct element_list *', region_idx: 'unsigned int') -> "struct element_list *": - return _pymcell.mcell_add_to_region_list(elements, region_idx) -mcell_add_to_region_list = _pymcell.mcell_add_to_region_list - -def add_child_objects(parent: 'object', child_head: 'object', child_tail: 'object') -> "void": - return _pymcell.add_child_objects(parent, child_head, child_tail) -add_child_objects = _pymcell.add_child_objects - -def mcell_create_region(state: 'MCELL_STATE *', objp: 'object', name: 'char *') -> "struct region *": - return _pymcell.mcell_create_region(state, objp, name) -mcell_create_region = _pymcell.mcell_create_region - -def make_new_region(dg_parse: 'struct dyngeom_parse_vars *', state: 'MCELL_STATE *', obj_name: 'char *', region_last_name: 'char *') -> "struct region *": - return _pymcell.make_new_region(dg_parse, state, obj_name, region_last_name) -make_new_region = _pymcell.make_new_region - -def remove_gaps_from_regions(obj_ptr: 'object') -> "void": - return _pymcell.remove_gaps_from_regions(obj_ptr) -remove_gaps_from_regions = _pymcell.remove_gaps_from_regions - -def check_degenerate_polygon_list(obj_ptr: 'object') -> "int": - return _pymcell.check_degenerate_polygon_list(obj_ptr) -check_degenerate_polygon_list = _pymcell.check_degenerate_polygon_list - -def common_ancestor(a: 'object', b: 'object') -> "struct object *": - return _pymcell.common_ancestor(a, b) -common_ancestor = _pymcell.common_ancestor - -def allocate_polygon_object(desc: 'char const *') -> "struct polygon_object *": - return _pymcell.allocate_polygon_object(desc) -allocate_polygon_object = _pymcell.allocate_polygon_object - -def new_element_list(begin: 'unsigned int', end: 'unsigned int') -> "struct element_list *": - return _pymcell.new_element_list(begin, end) -new_element_list = _pymcell.new_element_list - -def normalize_elements(reg: 'struct region *', existing: 'int') -> "int": - return _pymcell.normalize_elements(reg, existing) -normalize_elements = _pymcell.normalize_elements - -def count_cuboid_elements(sb: 'struct subdivided_box *') -> "int": - return _pymcell.count_cuboid_elements(sb) -count_cuboid_elements = _pymcell.count_cuboid_elements - -def cuboid_patch_to_bits(subd_box: 'struct subdivided_box *', v1: 'vector3', v2: 'vector3', bit_arr: 'struct bit_array *') -> "int": - return _pymcell.cuboid_patch_to_bits(subd_box, v1, v2, bit_arr) -cuboid_patch_to_bits = _pymcell.cuboid_patch_to_bits - -def check_patch(b: 'struct subdivided_box *', p1: 'vector3', p2: 'vector3', egd: 'double') -> "int": - return _pymcell.check_patch(b, p1, p2, egd) -check_patch = _pymcell.check_patch - -def mcell_get_obj_sym(obj: 'object') -> "struct sym_entry *": - return _pymcell.mcell_get_obj_sym(obj) -mcell_get_obj_sym = _pymcell.mcell_get_obj_sym - -def mcell_get_reg_sym(reg: 'struct region *') -> "struct sym_entry *": - return _pymcell.mcell_get_reg_sym(reg) -mcell_get_reg_sym = _pymcell.mcell_get_reg_sym - -def mcell_get_all_mol_sym(state: 'MCELL_STATE *') -> "struct sym_entry *": - return _pymcell.mcell_get_all_mol_sym(state) -mcell_get_all_mol_sym = _pymcell.mcell_get_all_mol_sym - -def mcell_get_all_volume_mol_sym(state: 'MCELL_STATE *') -> "struct sym_entry *": - return _pymcell.mcell_get_all_volume_mol_sym(state) -mcell_get_all_volume_mol_sym = _pymcell.mcell_get_all_volume_mol_sym - -def mcell_get_all_surface_mol_sym(state: 'MCELL_STATE *') -> "struct sym_entry *": - return _pymcell.mcell_get_all_surface_mol_sym(state) -mcell_get_all_surface_mol_sym = _pymcell.mcell_get_all_surface_mol_sym - -def mcell_add_to_poly_obj_list(poly_obj_list: 'poly_object_list', obj_name: 'char *', vertices: 'struct vertex_list *', num_vert: 'int', connections: 'struct element_connection_list *', num_conn: 'int', surf_reg_faces: 'struct element_list *', reg_name: 'char *') -> "struct poly_object_list *": - return _pymcell.mcell_add_to_poly_obj_list(poly_obj_list, obj_name, vertices, num_vert, connections, num_conn, surf_reg_faces, reg_name) -mcell_add_to_poly_obj_list = _pymcell.mcell_add_to_poly_obj_list -class output_column_list(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, output_column_list, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, output_column_list, name) - __repr__ = _swig_repr - __swig_setmethods__["column_head"] = _pymcell.output_column_list_column_head_set - __swig_getmethods__["column_head"] = _pymcell.output_column_list_column_head_get - if _newclass: - column_head = _swig_property(_pymcell.output_column_list_column_head_get, _pymcell.output_column_list_column_head_set) - __swig_setmethods__["column_tail"] = _pymcell.output_column_list_column_tail_set - __swig_getmethods__["column_tail"] = _pymcell.output_column_list_column_tail_get - if _newclass: - column_tail = _swig_property(_pymcell.output_column_list_column_tail_get, _pymcell.output_column_list_column_tail_set) - - def __init__(self, *args): - """__init__(self) -> output_column_list""" - this = _pymcell.new_output_column_list(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_output_column_list - __del__ = lambda self: None -output_column_list_swigregister = _pymcell.output_column_list_swigregister -output_column_list_swigregister(output_column_list) - -class output_set_list(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, output_set_list, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, output_set_list, name) - __repr__ = _swig_repr - __swig_setmethods__["set_head"] = _pymcell.output_set_list_set_head_set - __swig_getmethods__["set_head"] = _pymcell.output_set_list_set_head_get - if _newclass: - set_head = _swig_property(_pymcell.output_set_list_set_head_get, _pymcell.output_set_list_set_head_set) - __swig_setmethods__["set_tail"] = _pymcell.output_set_list_set_tail_set - __swig_getmethods__["set_tail"] = _pymcell.output_set_list_set_tail_get - if _newclass: - set_tail = _swig_property(_pymcell.output_set_list_set_tail_get, _pymcell.output_set_list_set_tail_set) - - def __init__(self, *args): - """__init__(self) -> output_set_list""" - this = _pymcell.new_output_set_list(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_output_set_list - __del__ = lambda self: None -output_set_list_swigregister = _pymcell.output_set_list_swigregister -output_set_list_swigregister(output_set_list) - -class output_times_inlist(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, output_times_inlist, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, output_times_inlist, name) - __repr__ = _swig_repr - __swig_setmethods__["type"] = _pymcell.output_times_inlist_type_set - __swig_getmethods__["type"] = _pymcell.output_times_inlist_type_get - if _newclass: - type = _swig_property(_pymcell.output_times_inlist_type_get, _pymcell.output_times_inlist_type_set) - __swig_setmethods__["step"] = _pymcell.output_times_inlist_step_set - __swig_getmethods__["step"] = _pymcell.output_times_inlist_step_get - if _newclass: - step = _swig_property(_pymcell.output_times_inlist_step_get, _pymcell.output_times_inlist_step_set) - __swig_setmethods__["values"] = _pymcell.output_times_inlist_values_set - __swig_getmethods__["values"] = _pymcell.output_times_inlist_values_get - if _newclass: - values = _swig_property(_pymcell.output_times_inlist_values_get, _pymcell.output_times_inlist_values_set) - - def __init__(self, *args): - """__init__(self) -> output_times_inlist""" - this = _pymcell.new_output_times_inlist(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_output_times_inlist - __del__ = lambda self: None -output_times_inlist_swigregister = _pymcell.output_times_inlist_swigregister -output_times_inlist_swigregister(output_times_inlist) - - -def mcell_get_count(mol_name: 'char *', reg_name: 'char *', world: 'struct volume *') -> "int": - return _pymcell.mcell_get_count(mol_name, reg_name, world) -mcell_get_count = _pymcell.mcell_get_count - -def mcell_new_output_request(state: 'MCELL_STATE *', target: 'mcell_symbol', orientation: 'short', location: 'mcell_symbol', img: 'struct periodic_image *', report_flags: 'int') -> "struct output_request *": - return _pymcell.mcell_new_output_request(state, target, orientation, location, img, report_flags) -mcell_new_output_request = _pymcell.mcell_new_output_request - -def mcell_create_new_output_set(comment: 'char *', exact_time: 'int', col_head: 'struct output_column *', file_flags: 'int', outfile_name: 'char *') -> "struct output_set *": - return _pymcell.mcell_create_new_output_set(comment, exact_time, col_head, file_flags, outfile_name) -mcell_create_new_output_set = _pymcell.mcell_create_new_output_set - -def mcell_prepare_single_count_expr(list: 'output_column_list', expr: 'struct output_expression *', custom_header: 'char *') -> "MCELL_STATUS": - return _pymcell.mcell_prepare_single_count_expr(list, expr, custom_header) -mcell_prepare_single_count_expr = _pymcell.mcell_prepare_single_count_expr - -def mcell_add_reaction_output_block(state: 'MCELL_STATE *', osets: 'output_set_list', buffer_size: 'int', otimes: 'output_times_inlist') -> "MCELL_STATUS": - return _pymcell.mcell_add_reaction_output_block(state, osets, buffer_size, otimes) -mcell_add_reaction_output_block = _pymcell.mcell_add_reaction_output_block - -def mcell_create_count(state: 'MCELL_STATE *', target: 'mcell_symbol', orientation: 'short', location: 'mcell_symbol', report_flags: 'int', custom_header: 'char *', count_list: 'output_column_list') -> "struct output_column_list *": - return _pymcell.mcell_create_count(state, target, orientation, location, report_flags, custom_header, count_list) -mcell_create_count = _pymcell.mcell_create_count - -def mcell_get_counter_value(state: 'MCELL_STATE *', counter_name: 'char const *', column: 'int', count_data: 'double *', count_data_type: 'enum count_type_t *') -> "MCELL_STATUS": - return _pymcell.mcell_get_counter_value(state, counter_name, column, count_data, count_data_type) -mcell_get_counter_value = _pymcell.mcell_get_counter_value -REGULAR_ARROW = _pymcell.REGULAR_ARROW -ARROW_BIDIRECTIONAL = _pymcell.ARROW_BIDIRECTIONAL -ARROW_CATALYTIC = _pymcell.ARROW_CATALYTIC -RATE_UNSET = _pymcell.RATE_UNSET -RATE_CONSTANT = _pymcell.RATE_CONSTANT -RATE_FILE = _pymcell.RATE_FILE -RFLCT = _pymcell.RFLCT -TRANSP = _pymcell.TRANSP -SINK = _pymcell.SINK -class reaction_def(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, reaction_def, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, reaction_def, name) - __repr__ = _swig_repr - __swig_setmethods__["sym"] = _pymcell.reaction_def_sym_set - __swig_getmethods__["sym"] = _pymcell.reaction_def_sym_get - if _newclass: - sym = _swig_property(_pymcell.reaction_def_sym_get, _pymcell.reaction_def_sym_set) - - def __init__(self, *args): - """__init__(self) -> reaction_def""" - this = _pymcell.new_reaction_def(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_reaction_def - __del__ = lambda self: None -reaction_def_swigregister = _pymcell.reaction_def_swigregister -reaction_def_swigregister(reaction_def) - -class release_single_molecule_list(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, release_single_molecule_list, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, release_single_molecule_list, name) - __repr__ = _swig_repr - __swig_setmethods__["rsm_head"] = _pymcell.release_single_molecule_list_rsm_head_set - __swig_getmethods__["rsm_head"] = _pymcell.release_single_molecule_list_rsm_head_get - if _newclass: - rsm_head = _swig_property(_pymcell.release_single_molecule_list_rsm_head_get, _pymcell.release_single_molecule_list_rsm_head_set) - __swig_setmethods__["rsm_tail"] = _pymcell.release_single_molecule_list_rsm_tail_set - __swig_getmethods__["rsm_tail"] = _pymcell.release_single_molecule_list_rsm_tail_get - if _newclass: - rsm_tail = _swig_property(_pymcell.release_single_molecule_list_rsm_tail_get, _pymcell.release_single_molecule_list_rsm_tail_set) - __swig_setmethods__["rsm_count"] = _pymcell.release_single_molecule_list_rsm_count_set - __swig_getmethods__["rsm_count"] = _pymcell.release_single_molecule_list_rsm_count_get - if _newclass: - rsm_count = _swig_property(_pymcell.release_single_molecule_list_rsm_count_get, _pymcell.release_single_molecule_list_rsm_count_set) - - def __init__(self, *args): - """__init__(self) -> release_single_molecule_list""" - this = _pymcell.new_release_single_molecule_list(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_release_single_molecule_list - __del__ = lambda self: None -release_single_molecule_list_swigregister = _pymcell.release_single_molecule_list_swigregister -release_single_molecule_list_swigregister(release_single_molecule_list) - -class reaction_arrow(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, reaction_arrow, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, reaction_arrow, name) - __repr__ = _swig_repr - __swig_setmethods__["flags"] = _pymcell.reaction_arrow_flags_set - __swig_getmethods__["flags"] = _pymcell.reaction_arrow_flags_get - if _newclass: - flags = _swig_property(_pymcell.reaction_arrow_flags_get, _pymcell.reaction_arrow_flags_set) - __swig_setmethods__["catalyst"] = _pymcell.reaction_arrow_catalyst_set - __swig_getmethods__["catalyst"] = _pymcell.reaction_arrow_catalyst_get - if _newclass: - catalyst = _swig_property(_pymcell.reaction_arrow_catalyst_get, _pymcell.reaction_arrow_catalyst_set) - - def __init__(self, *args): - """__init__(self) -> reaction_arrow""" - this = _pymcell.new_reaction_arrow(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_reaction_arrow - __del__ = lambda self: None -reaction_arrow_swigregister = _pymcell.reaction_arrow_swigregister -reaction_arrow_swigregister(reaction_arrow) - -class reaction_rate(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, reaction_rate, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, reaction_rate, name) - __repr__ = _swig_repr - __swig_setmethods__["rate_type"] = _pymcell.reaction_rate_rate_type_set - __swig_getmethods__["rate_type"] = _pymcell.reaction_rate_rate_type_get - if _newclass: - rate_type = _swig_property(_pymcell.reaction_rate_rate_type_get, _pymcell.reaction_rate_rate_type_set) - __swig_getmethods__["v"] = _pymcell.reaction_rate_v_get - if _newclass: - v = _swig_property(_pymcell.reaction_rate_v_get) - - def __init__(self, *args): - """__init__(self) -> reaction_rate""" - this = _pymcell.new_reaction_rate(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_reaction_rate - __del__ = lambda self: None -reaction_rate_swigregister = _pymcell.reaction_rate_swigregister -reaction_rate_swigregister(reaction_rate) - -class reaction_rate_v(_object): - """Proxy of C reaction_rate_v struct.""" - - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, reaction_rate_v, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, reaction_rate_v, name) - __repr__ = _swig_repr - __swig_setmethods__["rate_constant"] = _pymcell.reaction_rate_v_rate_constant_set - __swig_getmethods__["rate_constant"] = _pymcell.reaction_rate_v_rate_constant_get - if _newclass: - rate_constant = _swig_property(_pymcell.reaction_rate_v_rate_constant_get, _pymcell.reaction_rate_v_rate_constant_set) - __swig_setmethods__["rate_file"] = _pymcell.reaction_rate_v_rate_file_set - __swig_getmethods__["rate_file"] = _pymcell.reaction_rate_v_rate_file_get - if _newclass: - rate_file = _swig_property(_pymcell.reaction_rate_v_rate_file_get, _pymcell.reaction_rate_v_rate_file_set) - - def __init__(self, *args): - """__init__(self) -> reaction_rate_v""" - this = _pymcell.new_reaction_rate_v(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_reaction_rate_v - __del__ = lambda self: None -reaction_rate_v_swigregister = _pymcell.reaction_rate_v_swigregister -reaction_rate_v_swigregister(reaction_rate_v) - -class reaction_rates(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, reaction_rates, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, reaction_rates, name) - __repr__ = _swig_repr - __swig_setmethods__["forward_rate"] = _pymcell.reaction_rates_forward_rate_set - __swig_getmethods__["forward_rate"] = _pymcell.reaction_rates_forward_rate_get - if _newclass: - forward_rate = _swig_property(_pymcell.reaction_rates_forward_rate_get, _pymcell.reaction_rates_forward_rate_set) - __swig_setmethods__["backward_rate"] = _pymcell.reaction_rates_backward_rate_set - __swig_getmethods__["backward_rate"] = _pymcell.reaction_rates_backward_rate_get - if _newclass: - backward_rate = _swig_property(_pymcell.reaction_rates_backward_rate_get, _pymcell.reaction_rates_backward_rate_set) - - def __init__(self, *args): - """__init__(self) -> reaction_rates""" - this = _pymcell.new_reaction_rates(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_reaction_rates - __del__ = lambda self: None -reaction_rates_swigregister = _pymcell.reaction_rates_swigregister -reaction_rates_swigregister(reaction_rates) - - -def mcell_modify_multiple_rate_constants(world: 'struct volume *', names: 'char **', rate_constants: 'double *', n_rxns: 'int') -> "MCELL_STATUS": - return _pymcell.mcell_modify_multiple_rate_constants(world, names, rate_constants, n_rxns) -mcell_modify_multiple_rate_constants = _pymcell.mcell_modify_multiple_rate_constants - -def mcell_modify_rate_constant(world: 'struct volume *', name: 'char *', rate: 'double') -> "MCELL_STATUS": - return _pymcell.mcell_modify_rate_constant(world, name, rate) -mcell_modify_rate_constant = _pymcell.mcell_modify_rate_constant - -def mcell_add_reaction_simplified(state: 'struct volume *', reactants: 'mcell_species', arrow: 'reaction_arrow', surfs: 'mcell_species', products: 'mcell_species', rates: 'reaction_rates', pathname: 'mcell_symbol') -> "MCELL_STATUS": - return _pymcell.mcell_add_reaction_simplified(state, reactants, arrow, surfs, products, rates, pathname) -mcell_add_reaction_simplified = _pymcell.mcell_add_reaction_simplified - -def mcell_add_reaction(notify: 'struct notifications *', r_step_release: 'double **', rxn_sym_table: 'sym_table_head', radial_subdivisions: 'u_int', vacancy_search_dist2: 'double', reactants: 'mcell_species', react_arrow: 'reaction_arrow', surf_class: 'mcell_species', products: 'mcell_species', pathname: 'mcell_symbol', rates: 'reaction_rates', forward_rate_filename: 'char const *', backward_rate_filename: 'char const *') -> "MCELL_STATUS": - return _pymcell.mcell_add_reaction(notify, r_step_release, rxn_sym_table, radial_subdivisions, vacancy_search_dist2, reactants, react_arrow, surf_class, products, pathname, rates, forward_rate_filename, backward_rate_filename) -mcell_add_reaction = _pymcell.mcell_add_reaction - -def mcell_add_surface_reaction(rxn_sym_table: 'sym_table_head', reaction_type: 'int', surface_class: 'struct species *', reactant_sym: 'mcell_symbol', orient: 'short') -> "MCELL_STATUS": - return _pymcell.mcell_add_surface_reaction(rxn_sym_table, reaction_type, surface_class, reactant_sym, orient) -mcell_add_surface_reaction = _pymcell.mcell_add_surface_reaction - -def mcell_add_concentration_clamp(rxn_sym_table: 'sym_table_head', surface_class: 'struct species *', mol_sym: 'mcell_symbol', orient: 'short', conc: 'double') -> "MCELL_STATUS": - return _pymcell.mcell_add_concentration_clamp(rxn_sym_table, surface_class, mol_sym, orient, conc) -mcell_add_concentration_clamp = _pymcell.mcell_add_concentration_clamp - -def init_reactions(state: 'MCELL_STATE *') -> "MCELL_STATUS": - return _pymcell.init_reactions(state) -init_reactions = _pymcell.init_reactions - -def mcell_change_reaction_rate(state: 'MCELL_STATE *', reaction_name: 'char const *', new_rate: 'double') -> "MCELL_STATUS": - return _pymcell.mcell_change_reaction_rate(state, reaction_name, new_rate) -mcell_change_reaction_rate = _pymcell.mcell_change_reaction_rate - -def mcell_create_reaction_rates(forwardRateType: 'int', forwardRate: 'double', backwardRateType: 'int', backwardRate: 'double') -> "struct reaction_rates": - return _pymcell.mcell_create_reaction_rates(forwardRateType, forwardRate, backwardRateType, backwardRate) -mcell_create_reaction_rates = _pymcell.mcell_create_reaction_rates - -def mcell_new_rxn_pathname(state: 'struct volume *', name: 'char *') -> "struct sym_entry *": - return _pymcell.mcell_new_rxn_pathname(state, name) -mcell_new_rxn_pathname = _pymcell.mcell_new_rxn_pathname - -def mcell_create_list_release_site(state: 'MCELL_STATE *', parent: 'object', site_name: 'char *', mol: 'mcell_species', x_pos: 'double *', y_pos: 'double *', z_pos: 'double *', n_site: 'int', diameter: 'vector3', new_object: 'struct object **') -> "struct object **": - return _pymcell.mcell_create_list_release_site(state, parent, site_name, mol, x_pos, y_pos, z_pos, n_site, diameter, new_object) -mcell_create_list_release_site = _pymcell.mcell_create_list_release_site - -def mcell_create_geometrical_release_site(state: 'MCELL_STATE *', parent: 'object', site_name: 'char *', shape: 'int', position: 'vector3', diameter: 'vector3', mol: 'mcell_species', num: 'double', num_type: 'int', release_prob: 'double', rpatp: 'release_pattern', new_object: 'struct object **') -> "struct object **": - return _pymcell.mcell_create_geometrical_release_site(state, parent, site_name, shape, position, diameter, mol, num, num_type, release_prob, rpatp, new_object) -mcell_create_geometrical_release_site = _pymcell.mcell_create_geometrical_release_site - -def mcell_start_release_site(state: 'MCELL_STATE *', sym_ptr: 'mcell_symbol', obj: 'struct object **') -> "MCELL_STATUS": - return _pymcell.mcell_start_release_site(state, sym_ptr, obj) -mcell_start_release_site = _pymcell.mcell_start_release_site - -def mcell_finish_release_site(sym_ptr: 'mcell_symbol', obj: 'struct object **') -> "MCELL_STATUS": - return _pymcell.mcell_finish_release_site(sym_ptr, obj) -mcell_finish_release_site = _pymcell.mcell_finish_release_site - -def set_release_site_concentration(rel_site_obj_ptr: 'struct release_site_obj *', conc: 'double') -> "int": - return _pymcell.set_release_site_concentration(rel_site_obj_ptr, conc) -set_release_site_concentration = _pymcell.set_release_site_concentration - -def mcell_create_region_release(state: 'MCELL_STATE *', parent: 'object', release_on_in: 'object', site_name: 'char *', reg_name: 'char *', mol: 'mcell_species', num: 'double', num_type: 'int', rel_prob: 'double', rpatp: 'release_pattern', new_object: 'struct object **') -> "struct object **": - return _pymcell.mcell_create_region_release(state, parent, release_on_in, site_name, reg_name, mol, num, num_type, rel_prob, rpatp, new_object) -mcell_create_region_release = _pymcell.mcell_create_region_release - -def mcell_create_region_release_boolean(state: 'MCELL_STATE *', parent: 'object', site_name: 'char *', mol: 'mcell_species', num: 'double', num_type: 'int', rel_prob: 'double', rpatp: 'release_pattern', rel_eval: 'release_evaluator', new_object: 'struct object **') -> "struct object **": - return _pymcell.mcell_create_region_release_boolean(state, parent, site_name, mol, num, num_type, rel_prob, rpatp, rel_eval, new_object) -mcell_create_region_release_boolean = _pymcell.mcell_create_region_release_boolean - -def mcell_create_release_pattern(state: 'MCELL_STATE *', name: 'char *', delay: 'double', release_interval: 'double', train_interval: 'double', train_duration: 'double', number_of_trains: 'int') -> "struct release_pattern *": - return _pymcell.mcell_create_release_pattern(state, name, delay, release_interval, train_interval, train_duration, number_of_trains) -mcell_create_release_pattern = _pymcell.mcell_create_release_pattern - -def mcell_set_release_site_geometry_region(state: 'MCELL_STATE *', rel_site_obj_ptr: 'struct release_site_obj *', objp: 'object', re: 'release_evaluator') -> "int": - return _pymcell.mcell_set_release_site_geometry_region(state, rel_site_obj_ptr, objp, re) -mcell_set_release_site_geometry_region = _pymcell.mcell_set_release_site_geometry_region - -def check_release_regions(rel: 'release_evaluator', parent: 'object', instance: 'object') -> "int": - return _pymcell.check_release_regions(rel, parent, instance) -check_release_regions = _pymcell.check_release_regions - -def is_release_site_valid(rel_site_obj_ptr: 'struct release_site_obj *') -> "int": - return _pymcell.is_release_site_valid(rel_site_obj_ptr) -is_release_site_valid = _pymcell.is_release_site_valid - -def new_release_region_expr_term(my_sym: 'mcell_symbol') -> "struct release_evaluator *": - return _pymcell.new_release_region_expr_term(my_sym) -new_release_region_expr_term = _pymcell.new_release_region_expr_term - -def set_release_site_constant_number(rel_site_obj_ptr: 'struct release_site_obj *', num: 'double') -> "void": - return _pymcell.set_release_site_constant_number(rel_site_obj_ptr, num) -set_release_site_constant_number = _pymcell.set_release_site_constant_number - -def set_release_site_gaussian_number(rel_site_obj_ptr: 'struct release_site_obj *', mean: 'double', stdev: 'double') -> "void": - return _pymcell.set_release_site_gaussian_number(rel_site_obj_ptr, mean, stdev) -set_release_site_gaussian_number = _pymcell.set_release_site_gaussian_number - -def new_release_region_expr_binary(reL: 'release_evaluator', reR: 'release_evaluator', op: 'int') -> "struct release_evaluator *": - return _pymcell.new_release_region_expr_binary(reL, reR, op) -new_release_region_expr_binary = _pymcell.new_release_region_expr_binary - -def set_release_site_location(state: 'MCELL_STATE *', rel_site_obj_ptr: 'struct release_site_obj *', location: 'vector3') -> "void": - return _pymcell.set_release_site_location(state, rel_site_obj_ptr, location) -set_release_site_location = _pymcell.set_release_site_location - -def existing_region(state: 'MCELL_STATE *', obj_symp: 'mcell_symbol', region_name: 'char *') -> "struct sym_entry *": - return _pymcell.existing_region(state, obj_symp, region_name) -existing_region = _pymcell.existing_region -class mcell_symbol(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, mcell_symbol, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, mcell_symbol, name) - __repr__ = _swig_repr - __swig_setmethods__["next"] = _pymcell.mcell_symbol_next_set - __swig_getmethods__["next"] = _pymcell.mcell_symbol_next_get - if _newclass: - next = _swig_property(_pymcell.mcell_symbol_next_get, _pymcell.mcell_symbol_next_set) - __swig_setmethods__["sym_type"] = _pymcell.mcell_symbol_sym_type_set - __swig_getmethods__["sym_type"] = _pymcell.mcell_symbol_sym_type_get - if _newclass: - sym_type = _swig_property(_pymcell.mcell_symbol_sym_type_get, _pymcell.mcell_symbol_sym_type_set) - __swig_setmethods__["name"] = _pymcell.mcell_symbol_name_set - __swig_getmethods__["name"] = _pymcell.mcell_symbol_name_get - if _newclass: - name = _swig_property(_pymcell.mcell_symbol_name_get, _pymcell.mcell_symbol_name_set) - __swig_setmethods__["value"] = _pymcell.mcell_symbol_value_set - __swig_getmethods__["value"] = _pymcell.mcell_symbol_value_get - if _newclass: - value = _swig_property(_pymcell.mcell_symbol_value_get, _pymcell.mcell_symbol_value_set) - - def __init__(self, *args): - """__init__(self) -> mcell_symbol""" - this = _pymcell.new_mcell_symbol(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_mcell_symbol - __del__ = lambda self: None -mcell_symbol_swigregister = _pymcell.mcell_symbol_swigregister -mcell_symbol_swigregister(mcell_symbol) - -class mcell_species_spec(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, mcell_species_spec, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, mcell_species_spec, name) - __repr__ = _swig_repr - __swig_setmethods__["name"] = _pymcell.mcell_species_spec_name_set - __swig_getmethods__["name"] = _pymcell.mcell_species_spec_name_get - if _newclass: - name = _swig_property(_pymcell.mcell_species_spec_name_get, _pymcell.mcell_species_spec_name_set) - __swig_setmethods__["D"] = _pymcell.mcell_species_spec_D_set - __swig_getmethods__["D"] = _pymcell.mcell_species_spec_D_get - if _newclass: - D = _swig_property(_pymcell.mcell_species_spec_D_get, _pymcell.mcell_species_spec_D_set) - __swig_setmethods__["is_2d"] = _pymcell.mcell_species_spec_is_2d_set - __swig_getmethods__["is_2d"] = _pymcell.mcell_species_spec_is_2d_get - if _newclass: - is_2d = _swig_property(_pymcell.mcell_species_spec_is_2d_get, _pymcell.mcell_species_spec_is_2d_set) - __swig_setmethods__["custom_time_step"] = _pymcell.mcell_species_spec_custom_time_step_set - __swig_getmethods__["custom_time_step"] = _pymcell.mcell_species_spec_custom_time_step_get - if _newclass: - custom_time_step = _swig_property(_pymcell.mcell_species_spec_custom_time_step_get, _pymcell.mcell_species_spec_custom_time_step_set) - __swig_setmethods__["target_only"] = _pymcell.mcell_species_spec_target_only_set - __swig_getmethods__["target_only"] = _pymcell.mcell_species_spec_target_only_get - if _newclass: - target_only = _swig_property(_pymcell.mcell_species_spec_target_only_get, _pymcell.mcell_species_spec_target_only_set) - __swig_setmethods__["max_step_length"] = _pymcell.mcell_species_spec_max_step_length_set - __swig_getmethods__["max_step_length"] = _pymcell.mcell_species_spec_max_step_length_get - if _newclass: - max_step_length = _swig_property(_pymcell.mcell_species_spec_max_step_length_get, _pymcell.mcell_species_spec_max_step_length_set) - __swig_setmethods__["space_step"] = _pymcell.mcell_species_spec_space_step_set - __swig_getmethods__["space_step"] = _pymcell.mcell_species_spec_space_step_get - if _newclass: - space_step = _swig_property(_pymcell.mcell_species_spec_space_step_get, _pymcell.mcell_species_spec_space_step_set) - - def __init__(self, *args): - """__init__(self) -> mcell_species_spec""" - this = _pymcell.new_mcell_species_spec(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_mcell_species_spec - __del__ = lambda self: None -mcell_species_spec_swigregister = _pymcell.mcell_species_spec_swigregister -mcell_species_spec_swigregister(mcell_species_spec) - -class mcell_species(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, mcell_species, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, mcell_species, name) - __repr__ = _swig_repr - __swig_setmethods__["next"] = _pymcell.mcell_species_next_set - __swig_getmethods__["next"] = _pymcell.mcell_species_next_get - if _newclass: - next = _swig_property(_pymcell.mcell_species_next_get, _pymcell.mcell_species_next_set) - __swig_setmethods__["mol_type"] = _pymcell.mcell_species_mol_type_set - __swig_getmethods__["mol_type"] = _pymcell.mcell_species_mol_type_get - if _newclass: - mol_type = _swig_property(_pymcell.mcell_species_mol_type_get, _pymcell.mcell_species_mol_type_set) - __swig_setmethods__["orient_set"] = _pymcell.mcell_species_orient_set_set - __swig_getmethods__["orient_set"] = _pymcell.mcell_species_orient_set_get - if _newclass: - orient_set = _swig_property(_pymcell.mcell_species_orient_set_get, _pymcell.mcell_species_orient_set_set) - __swig_setmethods__["orient"] = _pymcell.mcell_species_orient_set - __swig_getmethods__["orient"] = _pymcell.mcell_species_orient_get - if _newclass: - orient = _swig_property(_pymcell.mcell_species_orient_get, _pymcell.mcell_species_orient_set) - - def __init__(self, *args): - """__init__(self) -> mcell_species""" - this = _pymcell.new_mcell_species(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_mcell_species - __del__ = lambda self: None -mcell_species_swigregister = _pymcell.mcell_species_swigregister -mcell_species_swigregister(mcell_species) - -class mcell_species_list(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, mcell_species_list, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, mcell_species_list, name) - __repr__ = _swig_repr - __swig_setmethods__["mol_type_head"] = _pymcell.mcell_species_list_mol_type_head_set - __swig_getmethods__["mol_type_head"] = _pymcell.mcell_species_list_mol_type_head_get - if _newclass: - mol_type_head = _swig_property(_pymcell.mcell_species_list_mol_type_head_get, _pymcell.mcell_species_list_mol_type_head_set) - __swig_setmethods__["mol_type_tail"] = _pymcell.mcell_species_list_mol_type_tail_set - __swig_getmethods__["mol_type_tail"] = _pymcell.mcell_species_list_mol_type_tail_get - if _newclass: - mol_type_tail = _swig_property(_pymcell.mcell_species_list_mol_type_tail_get, _pymcell.mcell_species_list_mol_type_tail_set) - - def __init__(self, *args): - """__init__(self) -> mcell_species_list""" - this = _pymcell.new_mcell_species_list(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_mcell_species_list - __del__ = lambda self: None -mcell_species_list_swigregister = _pymcell.mcell_species_list_swigregister -mcell_species_list_swigregister(mcell_species_list) - - -def mcell_create_species(state: 'MCELL_STATE *', species: 'mcell_species_spec', species_ptr: 'mcell_symbol **') -> "struct sym_entry **": - return _pymcell.mcell_create_species(state, species, species_ptr) -mcell_create_species = _pymcell.mcell_create_species - -def mcell_add_to_species_list(species_ptr: 'mcell_symbol', is_oriented: 'bool', orientation: 'int', species_list: 'mcell_species') -> "struct mcell_species *": - return _pymcell.mcell_add_to_species_list(species_ptr, is_oriented, orientation, species_list) -mcell_add_to_species_list = _pymcell.mcell_add_to_species_list - -def mcell_delete_species_list(species: 'mcell_species') -> "void": - return _pymcell.mcell_delete_species_list(species) -mcell_delete_species_list = _pymcell.mcell_delete_species_list - -def new_mol_species(state: 'MCELL_STATE *', name: 'char *', sym_ptr: 'struct sym_entry **') -> "int": - return _pymcell.new_mol_species(state, name, sym_ptr) -new_mol_species = _pymcell.new_mol_species - -def mcell_create_viz_output(state: 'MCELL_STATE *', filename: 'char *', mol_viz_list: 'mcell_species', start: 'long long', end: 'long long', step: 'long long') -> "MCELL_STATUS": - return _pymcell.mcell_create_viz_output(state, filename, mol_viz_list, start, end, step) -mcell_create_viz_output = _pymcell.mcell_create_viz_output - -def mcell_new_viz_output_block(vizblk: 'struct viz_output_block *') -> "void": - return _pymcell.mcell_new_viz_output_block(vizblk) -mcell_new_viz_output_block = _pymcell.mcell_new_viz_output_block - -def mcell_create_viz_frame(time_type: 'int', type: 'int', iteration_list: 'num_expr_list') -> "struct frame_data_list *": - return _pymcell.mcell_create_viz_frame(time_type, type, iteration_list) -mcell_create_viz_frame = _pymcell.mcell_create_viz_frame - -def mcell_set_molecule_viz_state(vizblk: 'struct viz_output_block *', specp: 'struct species *', viz_state: 'int') -> "int": - return _pymcell.mcell_set_molecule_viz_state(vizblk, specp, viz_state) -mcell_set_molecule_viz_state = _pymcell.mcell_set_molecule_viz_state - -def mcell_add_surf_class_properties(state: 'MCELL_STATE *', reaction_type: 'int', sc_sym: 'mcell_symbol', reactant_sym: 'mcell_symbol', orient: 'short') -> "MCELL_STATUS": - return _pymcell.mcell_add_surf_class_properties(state, reaction_type, sc_sym, reactant_sym, orient) -mcell_add_surf_class_properties = _pymcell.mcell_add_surf_class_properties - -def mcell_create_surf_class(state: 'MCELL_STATE *', surf_class_name: 'char *', sc_sym: 'mcell_symbol **') -> "struct sym_entry **": - return _pymcell.mcell_create_surf_class(state, surf_class_name, sc_sym) -mcell_create_surf_class = _pymcell.mcell_create_surf_class - -def mcell_add_mol_release_to_surf_class(state: 'MCELL_STATE *', sc_sym: 'mcell_symbol', sm_info: 'mcell_species', quantity: 'double', density_or_num: 'int', smd_list: 'struct sm_dat *') -> "struct sm_dat *": - return _pymcell.mcell_add_mol_release_to_surf_class(state, sc_sym, sm_info, quantity, density_or_num, smd_list) -mcell_add_mol_release_to_surf_class = _pymcell.mcell_add_mol_release_to_surf_class - -def mcell_assign_surf_class_to_region(sc_sym: 'mcell_symbol', rgn: 'struct region *') -> "MCELL_STATUS": - return _pymcell.mcell_assign_surf_class_to_region(sc_sym, rgn) -mcell_assign_surf_class_to_region = _pymcell.mcell_assign_surf_class_to_region - -def mcell_run_simulation(state: 'MCELL_STATE *') -> "MCELL_STATUS": - return _pymcell.mcell_run_simulation(state) -mcell_run_simulation = _pymcell.mcell_run_simulation - -def mcell_run_n_iterations(state: 'MCELL_STATE *', output_frequency: 'long long', INPUT: 'int *', n_iter: 'int') -> "MCELL_STATUS": - return _pymcell.mcell_run_n_iterations(state, output_frequency, INPUT, n_iter) -mcell_run_n_iterations = _pymcell.mcell_run_n_iterations - -def mcell_run_iteration(state: 'MCELL_STATE *', output_frequency: 'long long', INPUT: 'int *') -> "MCELL_STATUS": - return _pymcell.mcell_run_iteration(state, output_frequency, INPUT) -mcell_run_iteration = _pymcell.mcell_run_iteration - -def mcell_flush_data(state: 'MCELL_STATE *') -> "MCELL_STATUS": - return _pymcell.mcell_flush_data(state) -mcell_flush_data = _pymcell.mcell_flush_data - -def mcell_print_final_warnings(state: 'MCELL_STATE *') -> "MCELL_STATUS": - return _pymcell.mcell_print_final_warnings(state) -mcell_print_final_warnings = _pymcell.mcell_print_final_warnings - -def mcell_print_final_statistics(state: 'MCELL_STATE *') -> "MCELL_STATUS": - return _pymcell.mcell_print_final_statistics(state) -mcell_print_final_statistics = _pymcell.mcell_print_final_statistics -ORIENT_NOT_SET = _pymcell.ORIENT_NOT_SET -class object(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, object, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, object, name) - __repr__ = _swig_repr - __swig_setmethods__["next"] = _pymcell.object_next_set - __swig_getmethods__["next"] = _pymcell.object_next_get - if _newclass: - next = _swig_property(_pymcell.object_next_get, _pymcell.object_next_set) - __swig_setmethods__["parent"] = _pymcell.object_parent_set - __swig_getmethods__["parent"] = _pymcell.object_parent_get - if _newclass: - parent = _swig_property(_pymcell.object_parent_get, _pymcell.object_parent_set) - __swig_setmethods__["first_child"] = _pymcell.object_first_child_set - __swig_getmethods__["first_child"] = _pymcell.object_first_child_get - if _newclass: - first_child = _swig_property(_pymcell.object_first_child_get, _pymcell.object_first_child_set) - __swig_setmethods__["last_child"] = _pymcell.object_last_child_set - __swig_getmethods__["last_child"] = _pymcell.object_last_child_get - if _newclass: - last_child = _swig_property(_pymcell.object_last_child_get, _pymcell.object_last_child_set) - __swig_setmethods__["sym"] = _pymcell.object_sym_set - __swig_getmethods__["sym"] = _pymcell.object_sym_get - if _newclass: - sym = _swig_property(_pymcell.object_sym_get, _pymcell.object_sym_set) - __swig_setmethods__["last_name"] = _pymcell.object_last_name_set - __swig_getmethods__["last_name"] = _pymcell.object_last_name_get - if _newclass: - last_name = _swig_property(_pymcell.object_last_name_get, _pymcell.object_last_name_set) - __swig_setmethods__["object_type"] = _pymcell.object_object_type_set - __swig_getmethods__["object_type"] = _pymcell.object_object_type_get - if _newclass: - object_type = _swig_property(_pymcell.object_object_type_get, _pymcell.object_object_type_set) - __swig_setmethods__["contents"] = _pymcell.object_contents_set - __swig_getmethods__["contents"] = _pymcell.object_contents_get - if _newclass: - contents = _swig_property(_pymcell.object_contents_get, _pymcell.object_contents_set) - __swig_setmethods__["num_regions"] = _pymcell.object_num_regions_set - __swig_getmethods__["num_regions"] = _pymcell.object_num_regions_get - if _newclass: - num_regions = _swig_property(_pymcell.object_num_regions_get, _pymcell.object_num_regions_set) - __swig_setmethods__["regions"] = _pymcell.object_regions_set - __swig_getmethods__["regions"] = _pymcell.object_regions_get - if _newclass: - regions = _swig_property(_pymcell.object_regions_get, _pymcell.object_regions_set) - __swig_setmethods__["n_walls"] = _pymcell.object_n_walls_set - __swig_getmethods__["n_walls"] = _pymcell.object_n_walls_get - if _newclass: - n_walls = _swig_property(_pymcell.object_n_walls_get, _pymcell.object_n_walls_set) - __swig_setmethods__["n_walls_actual"] = _pymcell.object_n_walls_actual_set - __swig_getmethods__["n_walls_actual"] = _pymcell.object_n_walls_actual_get - if _newclass: - n_walls_actual = _swig_property(_pymcell.object_n_walls_actual_get, _pymcell.object_n_walls_actual_set) - __swig_setmethods__["walls"] = _pymcell.object_walls_set - __swig_getmethods__["walls"] = _pymcell.object_walls_get - if _newclass: - walls = _swig_property(_pymcell.object_walls_get, _pymcell.object_walls_set) - __swig_setmethods__["wall_p"] = _pymcell.object_wall_p_set - __swig_getmethods__["wall_p"] = _pymcell.object_wall_p_get - if _newclass: - wall_p = _swig_property(_pymcell.object_wall_p_get, _pymcell.object_wall_p_set) - __swig_setmethods__["n_verts"] = _pymcell.object_n_verts_set - __swig_getmethods__["n_verts"] = _pymcell.object_n_verts_get - if _newclass: - n_verts = _swig_property(_pymcell.object_n_verts_get, _pymcell.object_n_verts_set) - __swig_setmethods__["vertices"] = _pymcell.object_vertices_set - __swig_getmethods__["vertices"] = _pymcell.object_vertices_get - if _newclass: - vertices = _swig_property(_pymcell.object_vertices_get, _pymcell.object_vertices_set) - __swig_setmethods__["total_area"] = _pymcell.object_total_area_set - __swig_getmethods__["total_area"] = _pymcell.object_total_area_get - if _newclass: - total_area = _swig_property(_pymcell.object_total_area_get, _pymcell.object_total_area_set) - __swig_setmethods__["n_tiles"] = _pymcell.object_n_tiles_set - __swig_getmethods__["n_tiles"] = _pymcell.object_n_tiles_get - if _newclass: - n_tiles = _swig_property(_pymcell.object_n_tiles_get, _pymcell.object_n_tiles_set) - __swig_setmethods__["n_occupied_tiles"] = _pymcell.object_n_occupied_tiles_set - __swig_getmethods__["n_occupied_tiles"] = _pymcell.object_n_occupied_tiles_get - if _newclass: - n_occupied_tiles = _swig_property(_pymcell.object_n_occupied_tiles_get, _pymcell.object_n_occupied_tiles_set) - __swig_setmethods__["t_matrix"] = _pymcell.object_t_matrix_set - __swig_getmethods__["t_matrix"] = _pymcell.object_t_matrix_get - if _newclass: - t_matrix = _swig_property(_pymcell.object_t_matrix_get, _pymcell.object_t_matrix_set) - __swig_setmethods__["periodic_x"] = _pymcell.object_periodic_x_set - __swig_getmethods__["periodic_x"] = _pymcell.object_periodic_x_get - if _newclass: - periodic_x = _swig_property(_pymcell.object_periodic_x_get, _pymcell.object_periodic_x_set) - __swig_setmethods__["periodic_y"] = _pymcell.object_periodic_y_set - __swig_getmethods__["periodic_y"] = _pymcell.object_periodic_y_get - if _newclass: - periodic_y = _swig_property(_pymcell.object_periodic_y_get, _pymcell.object_periodic_y_set) - __swig_setmethods__["periodic_z"] = _pymcell.object_periodic_z_set - __swig_getmethods__["periodic_z"] = _pymcell.object_periodic_z_get - if _newclass: - periodic_z = _swig_property(_pymcell.object_periodic_z_get, _pymcell.object_periodic_z_set) - - def __init__(self, *args): - """__init__(self) -> object""" - this = _pymcell.new_object(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_object - __del__ = lambda self: None -object_swigregister = _pymcell.object_swigregister -object_swigregister(object) - -SHAPE_UNDEFINED = _pymcell.SHAPE_UNDEFINED -SHAPE_SPHERICAL = _pymcell.SHAPE_SPHERICAL -SHAPE_CUBIC = _pymcell.SHAPE_CUBIC -SHAPE_ELLIPTIC = _pymcell.SHAPE_ELLIPTIC -SHAPE_RECTANGULAR = _pymcell.SHAPE_RECTANGULAR -SHAPE_SPHERICAL_SHELL = _pymcell.SHAPE_SPHERICAL_SHELL -SHAPE_REGION = _pymcell.SHAPE_REGION -SHAPE_LIST = _pymcell.SHAPE_LIST -NOTIFY_NONE = _pymcell.NOTIFY_NONE -NOTIFY_BRIEF = _pymcell.NOTIFY_BRIEF -NOTIFY_FULL = _pymcell.NOTIFY_FULL -WARN_COPE = _pymcell.WARN_COPE -WARN_WARN = _pymcell.WARN_WARN -WARN_ERROR = _pymcell.WARN_ERROR -FILE_UNDEFINED = _pymcell.FILE_UNDEFINED -FILE_OVERWRITE = _pymcell.FILE_OVERWRITE -FILE_SUBSTITUTE = _pymcell.FILE_SUBSTITUTE -FILE_APPEND = _pymcell.FILE_APPEND -FILE_APPEND_HEADER = _pymcell.FILE_APPEND_HEADER -FILE_CREATE = _pymcell.FILE_CREATE -REPORT_CONTENTS = _pymcell.REPORT_CONTENTS -REPORT_WORLD = _pymcell.REPORT_WORLD -REPORT_ENCLOSED = _pymcell.REPORT_ENCLOSED -REPORT_TRIGGER = _pymcell.REPORT_TRIGGER -class release_pattern(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, release_pattern, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, release_pattern, name) - __repr__ = _swig_repr - __swig_setmethods__["sym"] = _pymcell.release_pattern_sym_set - __swig_getmethods__["sym"] = _pymcell.release_pattern_sym_get - if _newclass: - sym = _swig_property(_pymcell.release_pattern_sym_get, _pymcell.release_pattern_sym_set) - __swig_setmethods__["delay"] = _pymcell.release_pattern_delay_set - __swig_getmethods__["delay"] = _pymcell.release_pattern_delay_get - if _newclass: - delay = _swig_property(_pymcell.release_pattern_delay_get, _pymcell.release_pattern_delay_set) - __swig_setmethods__["release_interval"] = _pymcell.release_pattern_release_interval_set - __swig_getmethods__["release_interval"] = _pymcell.release_pattern_release_interval_get - if _newclass: - release_interval = _swig_property(_pymcell.release_pattern_release_interval_get, _pymcell.release_pattern_release_interval_set) - __swig_setmethods__["train_interval"] = _pymcell.release_pattern_train_interval_set - __swig_getmethods__["train_interval"] = _pymcell.release_pattern_train_interval_get - if _newclass: - train_interval = _swig_property(_pymcell.release_pattern_train_interval_get, _pymcell.release_pattern_train_interval_set) - __swig_setmethods__["train_duration"] = _pymcell.release_pattern_train_duration_set - __swig_getmethods__["train_duration"] = _pymcell.release_pattern_train_duration_get - if _newclass: - train_duration = _swig_property(_pymcell.release_pattern_train_duration_get, _pymcell.release_pattern_train_duration_set) - __swig_setmethods__["number_of_trains"] = _pymcell.release_pattern_number_of_trains_set - __swig_getmethods__["number_of_trains"] = _pymcell.release_pattern_number_of_trains_get - if _newclass: - number_of_trains = _swig_property(_pymcell.release_pattern_number_of_trains_get, _pymcell.release_pattern_number_of_trains_set) - - def __init__(self, *args): - """__init__(self) -> release_pattern""" - this = _pymcell.new_release_pattern(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_release_pattern - __del__ = lambda self: None -release_pattern_swigregister = _pymcell.release_pattern_swigregister -release_pattern_swigregister(release_pattern) - -class release_evaluator(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, release_evaluator, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, release_evaluator, name) - __repr__ = _swig_repr - __swig_setmethods__["op"] = _pymcell.release_evaluator_op_set - __swig_getmethods__["op"] = _pymcell.release_evaluator_op_get - if _newclass: - op = _swig_property(_pymcell.release_evaluator_op_get, _pymcell.release_evaluator_op_set) - __swig_setmethods__["left"] = _pymcell.release_evaluator_left_set - __swig_getmethods__["left"] = _pymcell.release_evaluator_left_get - if _newclass: - left = _swig_property(_pymcell.release_evaluator_left_get, _pymcell.release_evaluator_left_set) - __swig_setmethods__["right"] = _pymcell.release_evaluator_right_set - __swig_getmethods__["right"] = _pymcell.release_evaluator_right_get - if _newclass: - right = _swig_property(_pymcell.release_evaluator_right_get, _pymcell.release_evaluator_right_set) - - def __init__(self, *args): - """__init__(self) -> release_evaluator""" - this = _pymcell.new_release_evaluator(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_release_evaluator - __del__ = lambda self: None -release_evaluator_swigregister = _pymcell.release_evaluator_swigregister -release_evaluator_swigregister(release_evaluator) - -class output_set(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, output_set, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, output_set, name) - __repr__ = _swig_repr - __swig_setmethods__["next"] = _pymcell.output_set_next_set - __swig_getmethods__["next"] = _pymcell.output_set_next_get - if _newclass: - next = _swig_property(_pymcell.output_set_next_get, _pymcell.output_set_next_set) - __swig_setmethods__["block"] = _pymcell.output_set_block_set - __swig_getmethods__["block"] = _pymcell.output_set_block_get - if _newclass: - block = _swig_property(_pymcell.output_set_block_get, _pymcell.output_set_block_set) - __swig_setmethods__["outfile_name"] = _pymcell.output_set_outfile_name_set - __swig_getmethods__["outfile_name"] = _pymcell.output_set_outfile_name_get - if _newclass: - outfile_name = _swig_property(_pymcell.output_set_outfile_name_get, _pymcell.output_set_outfile_name_set) - __swig_setmethods__["file_flags"] = _pymcell.output_set_file_flags_set - __swig_getmethods__["file_flags"] = _pymcell.output_set_file_flags_get - if _newclass: - file_flags = _swig_property(_pymcell.output_set_file_flags_get, _pymcell.output_set_file_flags_set) - __swig_setmethods__["chunk_count"] = _pymcell.output_set_chunk_count_set - __swig_getmethods__["chunk_count"] = _pymcell.output_set_chunk_count_get - if _newclass: - chunk_count = _swig_property(_pymcell.output_set_chunk_count_get, _pymcell.output_set_chunk_count_set) - __swig_setmethods__["header_comment"] = _pymcell.output_set_header_comment_set - __swig_getmethods__["header_comment"] = _pymcell.output_set_header_comment_get - if _newclass: - header_comment = _swig_property(_pymcell.output_set_header_comment_get, _pymcell.output_set_header_comment_set) - __swig_setmethods__["exact_time_flag"] = _pymcell.output_set_exact_time_flag_set - __swig_getmethods__["exact_time_flag"] = _pymcell.output_set_exact_time_flag_get - if _newclass: - exact_time_flag = _swig_property(_pymcell.output_set_exact_time_flag_get, _pymcell.output_set_exact_time_flag_set) - __swig_setmethods__["column_head"] = _pymcell.output_set_column_head_set - __swig_getmethods__["column_head"] = _pymcell.output_set_column_head_get - if _newclass: - column_head = _swig_property(_pymcell.output_set_column_head_get, _pymcell.output_set_column_head_set) - - def __init__(self, *args): - """__init__(self) -> output_set""" - this = _pymcell.new_output_set(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_output_set - __del__ = lambda self: None -output_set_swigregister = _pymcell.output_set_swigregister -output_set_swigregister(output_set) - -OUTPUT_BY_STEP = _pymcell.OUTPUT_BY_STEP -OUTPUT_BY_TIME_LIST = _pymcell.OUTPUT_BY_TIME_LIST -OUTPUT_BY_ITERATION_LIST = _pymcell.OUTPUT_BY_ITERATION_LIST -class sym_table_head(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, sym_table_head, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, sym_table_head, name) - __repr__ = _swig_repr - __swig_setmethods__["entries"] = _pymcell.sym_table_head_entries_set - __swig_getmethods__["entries"] = _pymcell.sym_table_head_entries_get - if _newclass: - entries = _swig_property(_pymcell.sym_table_head_entries_get, _pymcell.sym_table_head_entries_set) - __swig_setmethods__["n_entries"] = _pymcell.sym_table_head_n_entries_set - __swig_getmethods__["n_entries"] = _pymcell.sym_table_head_n_entries_get - if _newclass: - n_entries = _swig_property(_pymcell.sym_table_head_n_entries_get, _pymcell.sym_table_head_n_entries_set) - __swig_setmethods__["n_bins"] = _pymcell.sym_table_head_n_bins_set - __swig_getmethods__["n_bins"] = _pymcell.sym_table_head_n_bins_get - if _newclass: - n_bins = _swig_property(_pymcell.sym_table_head_n_bins_get, _pymcell.sym_table_head_n_bins_set) - - def __init__(self, *args): - """__init__(self) -> sym_table_head""" - this = _pymcell.new_sym_table_head(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_sym_table_head - __del__ = lambda self: None -sym_table_head_swigregister = _pymcell.sym_table_head_swigregister -sym_table_head_swigregister(sym_table_head) - -class sym_entry(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, sym_entry, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, sym_entry, name) - __repr__ = _swig_repr - __swig_setmethods__["next"] = _pymcell.sym_entry_next_set - __swig_getmethods__["next"] = _pymcell.sym_entry_next_get - if _newclass: - next = _swig_property(_pymcell.sym_entry_next_get, _pymcell.sym_entry_next_set) - __swig_setmethods__["sym_type"] = _pymcell.sym_entry_sym_type_set - __swig_getmethods__["sym_type"] = _pymcell.sym_entry_sym_type_get - if _newclass: - sym_type = _swig_property(_pymcell.sym_entry_sym_type_get, _pymcell.sym_entry_sym_type_set) - __swig_setmethods__["name"] = _pymcell.sym_entry_name_set - __swig_getmethods__["name"] = _pymcell.sym_entry_name_get - if _newclass: - name = _swig_property(_pymcell.sym_entry_name_get, _pymcell.sym_entry_name_set) - __swig_setmethods__["value"] = _pymcell.sym_entry_value_set - __swig_getmethods__["value"] = _pymcell.sym_entry_value_get - if _newclass: - value = _swig_property(_pymcell.sym_entry_value_get, _pymcell.sym_entry_value_set) - - def __init__(self, *args): - """__init__(self) -> sym_entry""" - this = _pymcell.new_sym_entry(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_sym_entry - __del__ = lambda self: None -sym_entry_swigregister = _pymcell.sym_entry_swigregister -sym_entry_swigregister(sym_entry) - -class sym_table_list(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, sym_table_list, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, sym_table_list, name) - __repr__ = _swig_repr - __swig_setmethods__["next"] = _pymcell.sym_table_list_next_set - __swig_getmethods__["next"] = _pymcell.sym_table_list_next_get - if _newclass: - next = _swig_property(_pymcell.sym_table_list_next_get, _pymcell.sym_table_list_next_set) - __swig_setmethods__["node"] = _pymcell.sym_table_list_node_set - __swig_getmethods__["node"] = _pymcell.sym_table_list_node_get - if _newclass: - node = _swig_property(_pymcell.sym_table_list_node_get, _pymcell.sym_table_list_node_set) - - def __init__(self, *args): - """__init__(self) -> sym_table_list""" - this = _pymcell.new_sym_table_list(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_sym_table_list - __del__ = lambda self: None -sym_table_list_swigregister = _pymcell.sym_table_list_swigregister -sym_table_list_swigregister(sym_table_list) - -class num_expr_list(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, num_expr_list, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, num_expr_list, name) - __repr__ = _swig_repr - __swig_setmethods__["next"] = _pymcell.num_expr_list_next_set - __swig_getmethods__["next"] = _pymcell.num_expr_list_next_get - if _newclass: - next = _swig_property(_pymcell.num_expr_list_next_get, _pymcell.num_expr_list_next_set) - __swig_setmethods__["value"] = _pymcell.num_expr_list_value_set - __swig_getmethods__["value"] = _pymcell.num_expr_list_value_get - if _newclass: - value = _swig_property(_pymcell.num_expr_list_value_get, _pymcell.num_expr_list_value_set) - - def __init__(self, *args): - """__init__(self) -> num_expr_list""" - this = _pymcell.new_num_expr_list(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_num_expr_list - __del__ = lambda self: None -num_expr_list_swigregister = _pymcell.num_expr_list_swigregister -num_expr_list_swigregister(num_expr_list) - -class mesh_region_string_buffs(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, mesh_region_string_buffs, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, mesh_region_string_buffs, name) - __repr__ = _swig_repr - __swig_setmethods__["old_inst_mesh_names"] = _pymcell.mesh_region_string_buffs_old_inst_mesh_names_set - __swig_getmethods__["old_inst_mesh_names"] = _pymcell.mesh_region_string_buffs_old_inst_mesh_names_get - if _newclass: - old_inst_mesh_names = _swig_property(_pymcell.mesh_region_string_buffs_old_inst_mesh_names_get, _pymcell.mesh_region_string_buffs_old_inst_mesh_names_set) - __swig_setmethods__["old_region_names"] = _pymcell.mesh_region_string_buffs_old_region_names_set - __swig_getmethods__["old_region_names"] = _pymcell.mesh_region_string_buffs_old_region_names_get - if _newclass: - old_region_names = _swig_property(_pymcell.mesh_region_string_buffs_old_region_names_get, _pymcell.mesh_region_string_buffs_old_region_names_set) - - def __init__(self, *args): - """__init__(self) -> mesh_region_string_buffs""" - this = _pymcell.new_mesh_region_string_buffs(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_mesh_region_string_buffs - __del__ = lambda self: None -mesh_region_string_buffs_swigregister = _pymcell.mesh_region_string_buffs_swigregister -mesh_region_string_buffs_swigregister(mesh_region_string_buffs) - - -def mcell_change_geometry(state: 'struct volume *', pobj_list: 'poly_object_list') -> "int": - return _pymcell.mcell_change_geometry(state, pobj_list) -mcell_change_geometry = _pymcell.mcell_change_geometry -class vector2(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, vector2, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, vector2, name) - __repr__ = _swig_repr - __swig_setmethods__["u"] = _pymcell.vector2_u_set - __swig_getmethods__["u"] = _pymcell.vector2_u_get - if _newclass: - u = _swig_property(_pymcell.vector2_u_get, _pymcell.vector2_u_set) - __swig_setmethods__["v"] = _pymcell.vector2_v_set - __swig_getmethods__["v"] = _pymcell.vector2_v_get - if _newclass: - v = _swig_property(_pymcell.vector2_v_get, _pymcell.vector2_v_set) - - def __init__(self, *args): - """__init__(self) -> vector2""" - this = _pymcell.new_vector2(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_vector2 - __del__ = lambda self: None -vector2_swigregister = _pymcell.vector2_swigregister -vector2_swigregister(vector2) - -class vector3(_object): - __swig_setmethods__ = {} - __setattr__ = lambda self, name, value: _swig_setattr(self, vector3, name, value) - __swig_getmethods__ = {} - __getattr__ = lambda self, name: _swig_getattr(self, vector3, name) - __repr__ = _swig_repr - __swig_setmethods__["x"] = _pymcell.vector3_x_set - __swig_getmethods__["x"] = _pymcell.vector3_x_get - if _newclass: - x = _swig_property(_pymcell.vector3_x_get, _pymcell.vector3_x_set) - __swig_setmethods__["y"] = _pymcell.vector3_y_set - __swig_getmethods__["y"] = _pymcell.vector3_y_get - if _newclass: - y = _swig_property(_pymcell.vector3_y_get, _pymcell.vector3_y_set) - __swig_setmethods__["z"] = _pymcell.vector3_z_set - __swig_getmethods__["z"] = _pymcell.vector3_z_get - if _newclass: - z = _swig_property(_pymcell.vector3_z_get, _pymcell.vector3_z_set) - - def __init__(self, *args): - """__init__(self) -> vector3""" - this = _pymcell.new_vector3(*args) - try: - self.this.append(this) - except __builtin__.Exception: - self.this = this - __swig_destroy__ = _pymcell.delete_vector3 - __del__ = lambda self: None -vector3_swigregister = _pymcell.vector3_swigregister -vector3_swigregister(vector3) - - -def mult_matrix(m1: 'double (*)[4]', m2: 'double (*)[4]', om: 'double (*)[4]', l: 'unsigned short', m: 'unsigned short', n: 'unsigned short') -> "void": - return _pymcell.mult_matrix(m1, m2, om, l, m, n) -mult_matrix = _pymcell.mult_matrix - -def normalize(v: 'vector3') -> "void": - return _pymcell.normalize(v) -normalize = _pymcell.normalize - -def init_matrix(im: 'double (*)[4]') -> "void": - return _pymcell.init_matrix(im) -init_matrix = _pymcell.init_matrix - -def scale_matrix(im: 'double (*)[4]', om: 'double (*)[4]', scale: 'vector3') -> "void": - return _pymcell.scale_matrix(im, om, scale) -scale_matrix = _pymcell.scale_matrix - -def translate_matrix(im: 'double (*)[4]', om: 'double (*)[4]', translate: 'vector3') -> "void": - return _pymcell.translate_matrix(im, om, translate) -translate_matrix = _pymcell.translate_matrix - -def rotate_matrix(im: 'double (*)[4]', om: 'double (*)[4]', axis: 'vector3', angle: 'double') -> "void": - return _pymcell.rotate_matrix(im, om, axis, angle) -rotate_matrix = _pymcell.rotate_matrix - -def tform_matrix(scale: 'vector3', translate: 'vector3', axis: 'vector3', angle: 'double', om: 'double (*)[4]') -> "void": - return _pymcell.tform_matrix(scale, translate, axis, angle, om) -tform_matrix = _pymcell.tform_matrix - -def vectorize(p1: 'vector3', p2: 'vector3', v: 'vector3') -> "void": - return _pymcell.vectorize(p1, p2, v) -vectorize = _pymcell.vectorize - -def vect_length(v: 'vector3') -> "double": - return _pymcell.vect_length(v) -vect_length = _pymcell.vect_length - -def dot_prod(v1: 'vector3', v2: 'vector3') -> "double": - return _pymcell.dot_prod(v1, v2) -dot_prod = _pymcell.dot_prod - -def cross_prod(v1: 'vector3', v2: 'vector3', v3: 'vector3') -> "void": - return _pymcell.cross_prod(v1, v2, v3) -cross_prod = _pymcell.cross_prod - -def vect_sum(v1: 'vector3', v2: 'vector3', v3: 'vector3') -> "void": - return _pymcell.vect_sum(v1, v2, v3) -vect_sum = _pymcell.vect_sum - -def scalar_prod(v1: 'vector3', a: 'double', result: 'vector3') -> "void": - return _pymcell.scalar_prod(v1, a, result) -scalar_prod = _pymcell.scalar_prod - -def distinguishable_vec3(a: 'vector3', b: 'vector3', eps: 'double') -> "int": - return _pymcell.distinguishable_vec3(a, b, eps) -distinguishable_vec3 = _pymcell.distinguishable_vec3 - -def distinguishable_vec2(a: 'vector2', b: 'vector2', eps: 'double') -> "int": - return _pymcell.distinguishable_vec2(a, b, eps) -distinguishable_vec2 = _pymcell.distinguishable_vec2 - -def distance_vec3(a: 'vector3', b: 'vector3') -> "double": - return _pymcell.distance_vec3(a, b) -distance_vec3 = _pymcell.distance_vec3 - -def parallel_segments(A: 'vector3', B: 'vector3', R: 'vector3', S: 'vector3') -> "int": - return _pymcell.parallel_segments(A, B, R, S) -parallel_segments = _pymcell.parallel_segments - -def point_in_triangle(p: 'vector3', a: 'vector3', b: 'vector3', c: 'vector3') -> "int": - return _pymcell.point_in_triangle(p, a, b, c) -point_in_triangle = _pymcell.point_in_triangle - -def same_side(p1: 'vector3', p2: 'vector3', a: 'vector3', b: 'vector3') -> "int": - return _pymcell.same_side(p1, p2, a, b) -same_side = _pymcell.same_side - -def intersect_point_segment(P: 'vector3', A: 'vector3', B: 'vector3') -> "int": - return _pymcell.intersect_point_segment(P, A, B) -intersect_point_segment = _pymcell.intersect_point_segment - -def cross2D(a: 'vector2', b: 'vector2') -> "double": - return _pymcell.cross2D(a, b) -cross2D = _pymcell.cross2D - -def vectorize2D(p1: 'vector2', p2: 'vector2', p3: 'vector2') -> "void": - return _pymcell.vectorize2D(p1, p2, p3) -vectorize2D = _pymcell.vectorize2D - -def point_in_triangle_2D(p: 'vector2', a: 'vector2', b: 'vector2', c: 'vector2') -> "int": - return _pymcell.point_in_triangle_2D(p, a, b, c) -point_in_triangle_2D = _pymcell.point_in_triangle_2D - -def point_in_box(low_left: 'vector3', up_right: 'vector3', point: 'vector3') -> "int": - return _pymcell.point_in_box(low_left, up_right, point) -point_in_box = _pymcell.point_in_box -# This file is compatible with both classic and new-style classes. - - diff --git a/pymcell/pymcell_examples/__init__.py b/pymcell/pymcell_examples/__init__.py new file mode 100644 index 000000000..e69de29bb diff --git a/pymcell/pymcell_helpers.py b/pymcell/pymcell_helpers.py index 2784c67ac..d0126f2cc 100644 --- a/pymcell/pymcell_helpers.py +++ b/pymcell/pymcell_helpers.py @@ -94,7 +94,7 @@ def __str__(self): class OrientedSpecies: """ A type of molecule with an orientation. - + This is like a normal Species object, but it also contains information about its relative orientation (up, down, or mixed) with respect to a surface membrane. @@ -325,8 +325,8 @@ def enable_logging(self): logging.basicConfig(format='%(message)s', level=logging.DEBUG) def set_output_freq(self, output_freq: int) -> None: - """ The interval of iterations to create reaction data output. - + """ The interval of iterations to create reaction data output. + For example, if you set this to 10, reaction data would be created at every 10th iteration. """ @@ -501,7 +501,7 @@ def release_as_list(self, spec, pos_list): def release_into_mesh_obj(self, relobj) -> None: """ Release the specified amount of species into an object. """ - + mesh_obj = relobj.mesh_obj species = relobj.spec region = relobj.region diff --git a/setup.py b/setup.py index cd04c5800..d9f46eaa9 100644 --- a/setup.py +++ b/setup.py @@ -190,12 +190,12 @@ def run(self): # NOTE: Might be better to rename _pymcell to just mcell, but I do not want # to break backwards compatibility. -ext_modules = [CMakeExtension('nfsim', sourcedir='nfsim'), +ext_modules = [CMakeExtension('nfsimparty', sourcedir='nfsim'), CMakeExtension('nfsimCInterface', sourcedir='nfsimCInterface'), CMakeExtension('_pymcell', sourcedir='mcell')] setup(name='pymcell', - py_modules=['pymcell'], + packages=find_packages(), version='0.1', author="The MCell team", description="""Python bindings to libmcell""", @@ -204,5 +204,5 @@ def run(self): download_url="https://github.com/mcellteam/mcell/archive/pymcell_0.1.tar.gz", ext_modules=ext_modules, license='GPL v2', - cmdclass={'build_ext': CMakeBuild, 'sdist': CustomSDist}, + cmdclass={'build_ext': CMakeBuild, 'build':CustomBuild, 'sdist': CustomSDist}, ) From ad24531156398c2e58f035942839780a97d37e14 Mon Sep 17 00:00:00 2001 From: andreavs Date: Fri, 27 Apr 2018 13:34:10 -0700 Subject: [PATCH 15/28] moved pymcell_examples_to_top_folder --- pymcell/pymcell_examples/__init__.py | 0 .../pymcell_examples => pymcell_examples}/box.py | 0 .../lipidraft.json | 0 .../lipidraft.txt | Bin .../pymcell_test.ipynb | 0 .../pymcell_examples => pymcell_examples}/test.json | 0 .../test_api.py | 0 .../test_bool.py | 0 .../test_dm_read.py | 0 .../test_mcell_neuron_python.py | 0 .../test_release_list.py | 0 .../test_release_pattern.py | 0 .../pymcell_examples => pymcell_examples}/torus.py | 0 13 files changed, 0 insertions(+), 0 deletions(-) delete mode 100644 pymcell/pymcell_examples/__init__.py rename {pymcell/pymcell_examples => pymcell_examples}/box.py (100%) rename {pymcell/pymcell_examples => pymcell_examples}/lipidraft.json (100%) rename {pymcell/pymcell_examples => pymcell_examples}/lipidraft.txt (100%) rename {pymcell/pymcell_examples => pymcell_examples}/pymcell_test.ipynb (100%) rename {pymcell/pymcell_examples => pymcell_examples}/test.json (100%) rename {pymcell/pymcell_examples => pymcell_examples}/test_api.py (100%) rename {pymcell/pymcell_examples => pymcell_examples}/test_bool.py (100%) rename {pymcell/pymcell_examples => pymcell_examples}/test_dm_read.py (100%) rename {pymcell/pymcell_examples => pymcell_examples}/test_mcell_neuron_python.py (100%) rename {pymcell/pymcell_examples => pymcell_examples}/test_release_list.py (100%) rename {pymcell/pymcell_examples => pymcell_examples}/test_release_pattern.py (100%) rename {pymcell/pymcell_examples => pymcell_examples}/torus.py (100%) diff --git a/pymcell/pymcell_examples/__init__.py b/pymcell/pymcell_examples/__init__.py deleted file mode 100644 index e69de29bb..000000000 diff --git a/pymcell/pymcell_examples/box.py b/pymcell_examples/box.py similarity index 100% rename from pymcell/pymcell_examples/box.py rename to pymcell_examples/box.py diff --git a/pymcell/pymcell_examples/lipidraft.json b/pymcell_examples/lipidraft.json similarity index 100% rename from pymcell/pymcell_examples/lipidraft.json rename to pymcell_examples/lipidraft.json diff --git a/pymcell/pymcell_examples/lipidraft.txt b/pymcell_examples/lipidraft.txt similarity index 100% rename from pymcell/pymcell_examples/lipidraft.txt rename to pymcell_examples/lipidraft.txt diff --git a/pymcell/pymcell_examples/pymcell_test.ipynb b/pymcell_examples/pymcell_test.ipynb similarity index 100% rename from pymcell/pymcell_examples/pymcell_test.ipynb rename to pymcell_examples/pymcell_test.ipynb diff --git a/pymcell/pymcell_examples/test.json b/pymcell_examples/test.json similarity index 100% rename from pymcell/pymcell_examples/test.json rename to pymcell_examples/test.json diff --git a/pymcell/pymcell_examples/test_api.py b/pymcell_examples/test_api.py similarity index 100% rename from pymcell/pymcell_examples/test_api.py rename to pymcell_examples/test_api.py diff --git a/pymcell/pymcell_examples/test_bool.py b/pymcell_examples/test_bool.py similarity index 100% rename from pymcell/pymcell_examples/test_bool.py rename to pymcell_examples/test_bool.py diff --git a/pymcell/pymcell_examples/test_dm_read.py b/pymcell_examples/test_dm_read.py similarity index 100% rename from pymcell/pymcell_examples/test_dm_read.py rename to pymcell_examples/test_dm_read.py diff --git a/pymcell/pymcell_examples/test_mcell_neuron_python.py b/pymcell_examples/test_mcell_neuron_python.py similarity index 100% rename from pymcell/pymcell_examples/test_mcell_neuron_python.py rename to pymcell_examples/test_mcell_neuron_python.py diff --git a/pymcell/pymcell_examples/test_release_list.py b/pymcell_examples/test_release_list.py similarity index 100% rename from pymcell/pymcell_examples/test_release_list.py rename to pymcell_examples/test_release_list.py diff --git a/pymcell/pymcell_examples/test_release_pattern.py b/pymcell_examples/test_release_pattern.py similarity index 100% rename from pymcell/pymcell_examples/test_release_pattern.py rename to pymcell_examples/test_release_pattern.py diff --git a/pymcell/pymcell_examples/torus.py b/pymcell_examples/torus.py similarity index 100% rename from pymcell/pymcell_examples/torus.py rename to pymcell_examples/torus.py From 8b716300f74afd0e2173e15f4799d33194e49d13 Mon Sep 17 00:00:00 2001 From: andreavs Date: Fri, 27 Apr 2018 13:35:44 -0700 Subject: [PATCH 16/28] moved rules_py to top_folder --- pymcell/__init__.py | 3 --- {pymcell/rules_py => rules_py}/grammar_definition.py | 0 {pymcell/rules_py => rules_py}/mcell3r.py | 0 {pymcell/rules_py => rules_py}/mdlr2mdl.py | 0 {pymcell/rules_py => rules_py}/nfsim_python.py | 0 {pymcell/rules_py => rules_py}/postprocess_mcell3r.py | 0 {pymcell/rules_py => rules_py}/read_bngxml.py | 0 {pymcell/rules_py => rules_py}/read_mdl.py | 0 {pymcell/rules_py => rules_py}/small_structures.py | 0 {pymcell/rules_py => rules_py}/split_bngxml.py | 0 {pymcell/rules_py => rules_py}/write_bngxmle.py | 0 {pymcell/rules_py => rules_py}/write_mdl.py | 0 12 files changed, 3 deletions(-) rename {pymcell/rules_py => rules_py}/grammar_definition.py (100%) rename {pymcell/rules_py => rules_py}/mcell3r.py (100%) rename {pymcell/rules_py => rules_py}/mdlr2mdl.py (100%) rename {pymcell/rules_py => rules_py}/nfsim_python.py (100%) rename {pymcell/rules_py => rules_py}/postprocess_mcell3r.py (100%) rename {pymcell/rules_py => rules_py}/read_bngxml.py (100%) rename {pymcell/rules_py => rules_py}/read_mdl.py (100%) rename {pymcell/rules_py => rules_py}/small_structures.py (100%) rename {pymcell/rules_py => rules_py}/split_bngxml.py (100%) rename {pymcell/rules_py => rules_py}/write_bngxmle.py (100%) rename {pymcell/rules_py => rules_py}/write_mdl.py (100%) diff --git a/pymcell/__init__.py b/pymcell/__init__.py index 2385a49ed..7ff99f0ce 100644 --- a/pymcell/__init__.py +++ b/pymcell/__init__.py @@ -2,6 +2,3 @@ from .pymcell_helpers import * from .data_model_import import * from .pymcell_unittest import * - -from . import pymcell_examples -from . import rules_py diff --git a/pymcell/rules_py/grammar_definition.py b/rules_py/grammar_definition.py similarity index 100% rename from pymcell/rules_py/grammar_definition.py rename to rules_py/grammar_definition.py diff --git a/pymcell/rules_py/mcell3r.py b/rules_py/mcell3r.py similarity index 100% rename from pymcell/rules_py/mcell3r.py rename to rules_py/mcell3r.py diff --git a/pymcell/rules_py/mdlr2mdl.py b/rules_py/mdlr2mdl.py similarity index 100% rename from pymcell/rules_py/mdlr2mdl.py rename to rules_py/mdlr2mdl.py diff --git a/pymcell/rules_py/nfsim_python.py b/rules_py/nfsim_python.py similarity index 100% rename from pymcell/rules_py/nfsim_python.py rename to rules_py/nfsim_python.py diff --git a/pymcell/rules_py/postprocess_mcell3r.py b/rules_py/postprocess_mcell3r.py similarity index 100% rename from pymcell/rules_py/postprocess_mcell3r.py rename to rules_py/postprocess_mcell3r.py diff --git a/pymcell/rules_py/read_bngxml.py b/rules_py/read_bngxml.py similarity index 100% rename from pymcell/rules_py/read_bngxml.py rename to rules_py/read_bngxml.py diff --git a/pymcell/rules_py/read_mdl.py b/rules_py/read_mdl.py similarity index 100% rename from pymcell/rules_py/read_mdl.py rename to rules_py/read_mdl.py diff --git a/pymcell/rules_py/small_structures.py b/rules_py/small_structures.py similarity index 100% rename from pymcell/rules_py/small_structures.py rename to rules_py/small_structures.py diff --git a/pymcell/rules_py/split_bngxml.py b/rules_py/split_bngxml.py similarity index 100% rename from pymcell/rules_py/split_bngxml.py rename to rules_py/split_bngxml.py diff --git a/pymcell/rules_py/write_bngxmle.py b/rules_py/write_bngxmle.py similarity index 100% rename from pymcell/rules_py/write_bngxmle.py rename to rules_py/write_bngxmle.py diff --git a/pymcell/rules_py/write_mdl.py b/rules_py/write_mdl.py similarity index 100% rename from pymcell/rules_py/write_mdl.py rename to rules_py/write_mdl.py From caecaa686cd5754d9fb06eab8c383a3523cc92ad Mon Sep 17 00:00:00 2001 From: andreavs Date: Sat, 28 Apr 2018 11:32:50 -0700 Subject: [PATCH 17/28] seemlingly working prototype --- MANIFEST.in | 7 ++- mcell/CMakeLists.txt | 19 ++++---- mcell/src/pymcell.i | 6 ++- pymcell/__init__.py | 2 +- pymcell/data_model_import.py | 2 +- setup.py | 88 ++++-------------------------------- 6 files changed, 26 insertions(+), 98 deletions(-) diff --git a/MANIFEST.in b/MANIFEST.in index 70c13c4ed..f5b3d289b 100644 --- a/MANIFEST.in +++ b/MANIFEST.in @@ -1,11 +1,10 @@ -recursive-include src *.c *.h *.i *.py +recursive-include mcell/src *.c *.h *.i recursive-include appveyor_windows *.h recursive-include include *.h -# make sure to grad everything +# make sure to grab everything recursive-include nfsim * recursive-include nfsimCInterface * -recursive-include bionetgen +recursive-include bionetgen/bng2 * global-include CMakeLists.txt *.cmake -include *.py diff --git a/mcell/CMakeLists.txt b/mcell/CMakeLists.txt index 49d4ea080..15963e09f 100644 --- a/mcell/CMakeLists.txt +++ b/mcell/CMakeLists.txt @@ -165,18 +165,18 @@ set(SOURCE_FILES src/wall_util.c src/wall_util.h) -link_directories(${CMAKE_SOURCE_DIR}/lib) -if (UNIX) - SET(CMAKE_INSTALL_RPATH "$ORIGIN/./lib") - SET(CMAKE_BUILD_WITH_INSTALL_RPATH TRUE) -endif() +link_directories(${CMAKE_LIBRARY_OUTPUT_DIRECTORY}) +# if (UNIX) +# SET(CMAKE_INSTALL_RPATH "$ORIGIN/./lib") +# SET(CMAKE_BUILD_WITH_INSTALL_RPATH TRUE) +# endif() FIND_PACKAGE(SWIG REQUIRED) INCLUDE(${SWIG_USE_FILE}) FIND_PACKAGE(PythonLibs 3 REQUIRED) INCLUDE_DIRECTORIES(${PYTHON_INCLUDE_PATH}) -INCLUDE_DIRECTORIES("${CMAKE_CURRENT_SOURCE_DIR}/src") +# INCLUDE_DIRECTORIES("${CMAKE_CURRENT_SOURCE_DIR}/src") #SET(CMAKE_SWIG_FLAGS "-debug-typemap;-debug-tmsearch;-debug-tmused;-ltypemaps") SET(CMAKE_SWIG_FLAGS "-ltypemaps;-py3") @@ -216,7 +216,6 @@ swig_add_library(pymcell LANGUAGE python SOURCES src/pymcell.i src/mcell_viz.c src/mem_util.c src/nfsim_func.c - src/pymcell.i src/react_cond.c src/react_outc.c src/react_outc_nfsim.c @@ -240,9 +239,9 @@ swig_add_library(pymcell LANGUAGE python SOURCES src/pymcell.i src/wall_util.c ) if (APPLE) - SWIG_LINK_LIBRARIES(pymcell ${CMAKE_SOURCE_DIR}/lib/libnfsim_c.dylib ${CMAKE_SOURCE_DIR}/lib/libNFsim.dylib ${PYTHON_LIBRARIES}) + SWIG_LINK_LIBRARIES(pymcell ${CMAKE_LIBRARY_OUTPUT_DIRECTORY}/../libnfsim_c.dylib ${CMAKE_LIBRARY_OUTPUT_DIRECTORY}/../libNFsim.dylib ${PYTHON_LIBRARIES}) else() - SWIG_LINK_LIBRARIES(pymcell ${CMAKE_SOURCE_DIR}/lib/libnfsim_c.so ${CMAKE_SOURCE_DIR}/lib/libNFsim.so ${PYTHON_LIBRARIES}) + SWIG_LINK_LIBRARIES(pymcell ${CMAKE_LIBRARY_OUTPUT_DIRECTORY}/../libnfsim_c.so ${CMAKE_LIBRARY_OUTPUT_DIRECTORY}/../libNFsim.so ${PYTHON_LIBRARIES}) endif() # copy the pyMCell test scripts into place @@ -259,7 +258,7 @@ endif() file(COPY ${CMAKE_SOURCE_DIR}/../bionetgen/bng2/ DESTINATION ${CMAKE_CURRENT_BINARY_DIR}/bng2/) # build executable -link_directories(${CMAKE_SOURCE_DIR}/lib) +link_directories(${CMAKE_LIBRARY_OUTPUT_DIRECTORY}) add_executable(mcell ${SOURCE_FILES} src/mcell.c diff --git a/mcell/src/pymcell.i b/mcell/src/pymcell.i index 626b28c51..13e5f9a98 100644 --- a/mcell/src/pymcell.i +++ b/mcell/src/pymcell.i @@ -103,11 +103,13 @@ %pythonbegin %{ from ctypes import * -lib1 = cdll.LoadLibrary('../lib/libNFsim.so') -lib2 = cdll.LoadLibrary('../lib/libnfsim_c.so') +from os.path import dirname +lib1 = cdll.LoadLibrary(dirname(__file__) + '/../libNFsim.so') +lib2 = cdll.LoadLibrary(dirname(__file__) + '/../libnfsim_c.so') %} /*Add functions for user interfacing */ +// moved to separate files // %pythoncode "pymcell_helpers.py" // %pythoncode "data_model_import.py" diff --git a/pymcell/__init__.py b/pymcell/__init__.py index 7ff99f0ce..d58f432be 100644 --- a/pymcell/__init__.py +++ b/pymcell/__init__.py @@ -1,4 +1,4 @@ from .pymcell import * from .pymcell_helpers import * from .data_model_import import * -from .pymcell_unittest import * +from .pymcell_unittests import * diff --git a/pymcell/data_model_import.py b/pymcell/data_model_import.py index e174c1354..3bd2e4734 100644 --- a/pymcell/data_model_import.py +++ b/pymcell/data_model_import.py @@ -1,4 +1,4 @@ -import .pymcell_helpers as m +from . import pymcell_helpers as m import json import pickle import logging diff --git a/setup.py b/setup.py index d9f46eaa9..a107be298 100644 --- a/setup.py +++ b/setup.py @@ -51,23 +51,16 @@ def run(self): if cmake_version < '3.1.0': raise RuntimeError("CMake >= 3.1.0 is required on Windows") - # subprocess.call(['ln', '-s', self.build_lib, 'lib']) if not os.path.exists(self.build_lib): os.makedirs(self.build_lib) os.chdir('nfsimCInterface') - print(self.build_lib) - subprocess.call(['ln', '-s', os.path.join('..', self.build_lib), 'lib']) subprocess.call(['ln', '-s', os.path.join('..', 'nfsim', 'include')]) + subprocess.call(['ln', '-s', os.path.join('..', self.build_lib), 'lib']) os.chdir('..') os.chdir('mcell') - if not os.path.exists("include"): - os.makedirs("include") - subprocess.call(['ln', '-s', os.path.join('..', self.build_lib), 'lib']) - subprocess.call(['ln', '-s', os.path.join('..', '..', 'nfsim', 'include'), 'include/nfsim']) - subprocess.call(['ln', '-s', os.path.join('..', '..', 'nfsimCInterface', 'src'), 'include/nfsimCInterface']) - + # subprocess.call(['ln', '-s', os.path.join('..', self.build_lib), 'lib']) os.chdir('..') for ext in self.extensions: @@ -109,17 +102,11 @@ def build_extension(self, ext): class CustomBuild(build): def run(self): - # TODO: some of these lines can be trimmed down eventually disallow_python2() - # if not os.path.exists("build"): - # os.makedirs("build") - # shutil.copy("./appveyor_windows/config.h", "./src") - # shutil.copy("./appveyor_windows/version.h", "./src") - # shutil.copy("./src/pymcell_helpers.py", ".") - # shutil.copy("./src/data_model_import.py", ".") - + if subprocess.call(["git", "branch"], stderr=subprocess.STDOUT, stdout=open(os.devnull, 'w')) == 0: + subprocess.call(['git', 'submodule', 'init']) + subprocess.call(['git', 'submodule', 'update']) self.run_command('build_ext') - # shutil.copy("./src/pymcell.py", ".") build.run(self) class CustomSDist(sdist): @@ -127,75 +114,15 @@ def run(self): disallow_python2() sdist.run(self) -# mcell_module = CMakeExtension( -# '_pymcell', -# include_dirs=['./include'], -# libraries=['nfsim_c', 'NFsim'], -# library_dirs=['./build/lib'], -# sources=[ -# './src/argparse.c', -# './src/chkpt.c', -# './src/count_util.c', -# './src/diffuse.c', -# './src/diffuse_trimol.c', -# './src/diffuse_util.c', -# './src/dyngeom.c', -# './src/dyngeom_lex.c', -# './src/dyngeom_parse_extras.c', -# './src/dyngeom_yacc.c', -# './src/grid_util.c', -# './src/hashmap.c', -# './src/init.c', -# './src/isaac64.c', -# './src/logging.c', -# './src/mcell_dyngeom.c', -# './src/mcell_init.c', -# './src/mcell_misc.c', -# './src/mcell_objects.c', -# './src/mcell_react_out.c', -# './src/mcell_reactions.c', -# './src/mcell_release.c', -# './src/mcell_run.c', -# './src/mcell_species.c', -# './src/mcell_surfclass.c', -# './src/mcell_viz.c', -# './src/mem_util.c', -# './src/nfsim_func.c', -# './src/pymcell.i', -# './src/react_cond.c', -# './src/react_outc.c', -# './src/react_outc_nfsim.c', -# './src/react_outc_trimol.c', -# './src/react_output.c', -# './src/react_trig.c', -# './src/react_trig_nfsim.c', -# './src/react_util.c', -# './src/react_util_nfsim.c', -# './src/rng.c', -# './src/sched_util.c', -# './src/strfunc.c', -# './src/sym_table.c', -# './src/triangle_overlap.c', -# './src/util.c', -# './src/vector.c', -# './src/version_info.c', -# './src/viz_output.c', -# './src/vol_util.c', -# './src/volume_output.c', -# './src/wall_util.c', -# ], -# swig_opts=['-ltypemaps', '-py3'], -# extra_compile_args=['-O2']) - # NOTE: Might be better to rename _pymcell to just mcell, but I do not want # to break backwards compatibility. -ext_modules = [CMakeExtension('nfsimparty', sourcedir='nfsim'), +ext_modules = [CMakeExtension('nfsim', sourcedir='nfsim'), CMakeExtension('nfsimCInterface', sourcedir='nfsimCInterface'), CMakeExtension('_pymcell', sourcedir='mcell')] setup(name='pymcell', - packages=find_packages(), + packages=['pymcell'], version='0.1', author="The MCell team", description="""Python bindings to libmcell""", @@ -205,4 +132,5 @@ def run(self): ext_modules=ext_modules, license='GPL v2', cmdclass={'build_ext': CMakeBuild, 'build':CustomBuild, 'sdist': CustomSDist}, + provides=['pymcell'] ) From c76e640b1158eae7ea6d355d5570c5afd0628d35 Mon Sep 17 00:00:00 2001 From: andreavs Date: Sat, 28 Apr 2018 19:08:59 -0700 Subject: [PATCH 18/28] working prototype --- setup.py | 6 +++++- 1 file changed, 5 insertions(+), 1 deletion(-) diff --git a/setup.py b/setup.py index a107be298..95cedff4f 100644 --- a/setup.py +++ b/setup.py @@ -54,15 +54,19 @@ def run(self): if not os.path.exists(self.build_lib): os.makedirs(self.build_lib) + ext = self.extensions[0] + extdir = os.path.abspath(os.path.dirname(self.get_ext_fullpath(ext.name))) + os.chdir('nfsimCInterface') subprocess.call(['ln', '-s', os.path.join('..', 'nfsim', 'include')]) - subprocess.call(['ln', '-s', os.path.join('..', self.build_lib), 'lib']) + subprocess.call(['ln', '-s', os.path.join('..', extdir), 'lib']) os.chdir('..') os.chdir('mcell') # subprocess.call(['ln', '-s', os.path.join('..', self.build_lib), 'lib']) os.chdir('..') + for ext in self.extensions: self.build_extension(ext) From 51aa715d9338caadc86c7a2732dec78d03b382eb Mon Sep 17 00:00:00 2001 From: andreavs Date: Sat, 28 Apr 2018 19:20:33 -0700 Subject: [PATCH 19/28] fixes --- setup.py | 13 +++++-------- 1 file changed, 5 insertions(+), 8 deletions(-) diff --git a/setup.py b/setup.py index 95cedff4f..d2cd9dd62 100644 --- a/setup.py +++ b/setup.py @@ -39,7 +39,11 @@ class CMakeBuild(build_ext): def __init__(self, dist, *args, **kw): build_ext.__init__(self, dist, *args, **kw) + def run(self): + if subprocess.call(["git", "branch"], stderr=subprocess.STDOUT, stdout=open(os.devnull, 'w')) == 0: + subprocess.call(['git', 'submodule', 'init']) + subprocess.call(['git', 'submodule', 'update']) try: out = subprocess.check_output(['cmake', '--version']) except OSError: @@ -62,11 +66,6 @@ def run(self): subprocess.call(['ln', '-s', os.path.join('..', extdir), 'lib']) os.chdir('..') - os.chdir('mcell') - # subprocess.call(['ln', '-s', os.path.join('..', self.build_lib), 'lib']) - os.chdir('..') - - for ext in self.extensions: self.build_extension(ext) @@ -107,9 +106,7 @@ def build_extension(self, ext): class CustomBuild(build): def run(self): disallow_python2() - if subprocess.call(["git", "branch"], stderr=subprocess.STDOUT, stdout=open(os.devnull, 'w')) == 0: - subprocess.call(['git', 'submodule', 'init']) - subprocess.call(['git', 'submodule', 'update']) + self.run_command('build_ext') build.run(self) From e62c447b37aad545fae661ee8d3f9bc95d4ebb4a Mon Sep 17 00:00:00 2001 From: andreavs Date: Sat, 28 Apr 2018 19:33:00 -0700 Subject: [PATCH 20/28] fixes --- setup.py | 4 +--- 1 file changed, 1 insertion(+), 3 deletions(-) diff --git a/setup.py b/setup.py index d2cd9dd62..23928476b 100644 --- a/setup.py +++ b/setup.py @@ -39,11 +39,9 @@ class CMakeBuild(build_ext): def __init__(self, dist, *args, **kw): build_ext.__init__(self, dist, *args, **kw) - def run(self): if subprocess.call(["git", "branch"], stderr=subprocess.STDOUT, stdout=open(os.devnull, 'w')) == 0: - subprocess.call(['git', 'submodule', 'init']) - subprocess.call(['git', 'submodule', 'update']) + subprocess.call(['git', 'submodule', 'update', '--init']) try: out = subprocess.check_output(['cmake', '--version']) except OSError: From 8b30be2de65ca0192b8303680fba653de52deacb Mon Sep 17 00:00:00 2001 From: andreavs Date: Sat, 28 Apr 2018 20:14:06 -0700 Subject: [PATCH 21/28] fixes --- setup.py | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/setup.py b/setup.py index 23928476b..d1139da46 100644 --- a/setup.py +++ b/setup.py @@ -104,13 +104,14 @@ def build_extension(self, ext): class CustomBuild(build): def run(self): disallow_python2() - self.run_command('build_ext') build.run(self) class CustomSDist(sdist): def run(self): disallow_python2() + if subprocess.call(["git", "branch"], stderr=subprocess.STDOUT, stdout=open(os.devnull, 'w')) == 0: + subprocess.call(['git', 'submodule', 'update', '--init']) sdist.run(self) From 024a7cb6118ae73e9e2bb33081e53b5133ec99fb Mon Sep 17 00:00:00 2001 From: andreavs Date: Sat, 28 Apr 2018 20:26:28 -0700 Subject: [PATCH 22/28] fix in manifest --- MANIFEST.in | 2 +- setup.py | 1 + 2 files changed, 2 insertions(+), 1 deletion(-) diff --git a/MANIFEST.in b/MANIFEST.in index f5b3d289b..ea6e6a873 100644 --- a/MANIFEST.in +++ b/MANIFEST.in @@ -1,4 +1,4 @@ -recursive-include mcell/src *.c *.h *.i +recursive-include mcell/src * recursive-include appveyor_windows *.h recursive-include include *.h diff --git a/setup.py b/setup.py index d1139da46..a827287a8 100644 --- a/setup.py +++ b/setup.py @@ -110,6 +110,7 @@ def run(self): class CustomSDist(sdist): def run(self): disallow_python2() + # clone submodules if this is a git repo: if subprocess.call(["git", "branch"], stderr=subprocess.STDOUT, stdout=open(os.devnull, 'w')) == 0: subprocess.call(['git', 'submodule', 'update', '--init']) sdist.run(self) From 944b08203cf0c1e0452f8582d3e8625da74d1e86 Mon Sep 17 00:00:00 2001 From: andreavs Date: Sat, 28 Apr 2018 23:03:11 -0700 Subject: [PATCH 23/28] work on fix for symlink issue --- setup.py | 6 ++++-- 1 file changed, 4 insertions(+), 2 deletions(-) diff --git a/setup.py b/setup.py index a827287a8..84ec4fb8f 100644 --- a/setup.py +++ b/setup.py @@ -25,7 +25,7 @@ def disallow_python2(): if sys.version_info[0] == 2: sys.exit("Sorry, Python 2 is not supported.") -# Code for cmake extensions from (c45488d on Jun 10, 2016), with minor +# Code for cmake extensions from (c45488d on Apr 25th, 2018), with minor # modifications: # https://github.com/pybind/cmake_example/blob/master/setup.py @@ -68,7 +68,6 @@ def run(self): self.build_extension(ext) - def build_extension(self, ext): print("building", ext.name) extdir = os.path.abspath(os.path.dirname(self.get_ext_fullpath(ext.name))) @@ -101,12 +100,14 @@ def build_extension(self, ext): subprocess.check_call(['cmake', ext.sourcedir] + cmake_args, cwd=self.build_temp_lib, env=env) subprocess.check_call(['cmake', '--build', '.'] + build_args, cwd=self.build_temp_lib) + class CustomBuild(build): def run(self): disallow_python2() self.run_command('build_ext') build.run(self) + class CustomSDist(sdist): def run(self): disallow_python2() @@ -122,6 +123,7 @@ def run(self): CMakeExtension('nfsimCInterface', sourcedir='nfsimCInterface'), CMakeExtension('_pymcell', sourcedir='mcell')] + setup(name='pymcell', packages=['pymcell'], version='0.1', From 78d48bd3dee31e2a8d57cf0148697dc0266881eb Mon Sep 17 00:00:00 2001 From: andreavs Date: Sun, 29 Apr 2018 00:22:24 -0700 Subject: [PATCH 24/28] fixed issue --- setup.py | 5 ++++- 1 file changed, 4 insertions(+), 1 deletion(-) diff --git a/setup.py b/setup.py index 84ec4fb8f..0a13c0a76 100644 --- a/setup.py +++ b/setup.py @@ -67,6 +67,9 @@ def run(self): for ext in self.extensions: self.build_extension(ext) + subprocess.call(['unlink', os.path.join('nfsimCInterface', 'lib')]) + + def build_extension(self, ext): print("building", ext.name) @@ -104,7 +107,7 @@ def build_extension(self, ext): class CustomBuild(build): def run(self): disallow_python2() - self.run_command('build_ext') + # self.run_command('build_ext') build.run(self) From de18f0186530ee04590ffe2c7b5868296a3bd619 Mon Sep 17 00:00:00 2001 From: andreavs Date: Sun, 29 Apr 2018 21:07:52 -0700 Subject: [PATCH 25/28] added updates --- setup.py | 5 +++-- 1 file changed, 3 insertions(+), 2 deletions(-) diff --git a/setup.py b/setup.py index 0a13c0a76..b35cdbb97 100644 --- a/setup.py +++ b/setup.py @@ -40,6 +40,7 @@ def __init__(self, dist, *args, **kw): build_ext.__init__(self, dist, *args, **kw) def run(self): + # clone submodules if this is a git repo: if subprocess.call(["git", "branch"], stderr=subprocess.STDOUT, stdout=open(os.devnull, 'w')) == 0: subprocess.call(['git', 'submodule', 'update', '--init']) try: @@ -56,9 +57,9 @@ def run(self): if not os.path.exists(self.build_lib): os.makedirs(self.build_lib) + # Set up links for nfsimCInterface (this is clunky) ext = self.extensions[0] extdir = os.path.abspath(os.path.dirname(self.get_ext_fullpath(ext.name))) - os.chdir('nfsimCInterface') subprocess.call(['ln', '-s', os.path.join('..', 'nfsim', 'include')]) subprocess.call(['ln', '-s', os.path.join('..', extdir), 'lib']) @@ -67,6 +68,7 @@ def run(self): for ext in self.extensions: self.build_extension(ext) + # remove symlink in nfsimCInterface as this will mess up the next build subprocess.call(['unlink', os.path.join('nfsimCInterface', 'lib')]) @@ -107,7 +109,6 @@ def build_extension(self, ext): class CustomBuild(build): def run(self): disallow_python2() - # self.run_command('build_ext') build.run(self) From c8180aca536b054bdbe8b18a2e803afb752b6ad3 Mon Sep 17 00:00:00 2001 From: andreavs Date: Fri, 4 May 2018 15:34:07 -0700 Subject: [PATCH 26/28] updates --- mcell/src/pymcell.i | 1 + 1 file changed, 1 insertion(+) diff --git a/mcell/src/pymcell.i b/mcell/src/pymcell.i index 13e5f9a98..30a50991e 100644 --- a/mcell/src/pymcell.i +++ b/mcell/src/pymcell.i @@ -97,6 +97,7 @@ #include "mcell_structs.h" #include "mcell_dyngeom.h" #include "vector.h" +#include "diffuse.h" %} From 0ee52697ab82e3f9d7671da0688cd883c5960eaa Mon Sep 17 00:00:00 2001 From: andreavs Date: Tue, 4 Sep 2018 23:33:30 -0700 Subject: [PATCH 27/28] some fixes --- mcell/CMakeLists.txt | 13 ++++-- mcell/src/pymcell.i | 7 +--- requirements.py | 97 -------------------------------------------- setup.cfg | 2 - 4 files changed, 10 insertions(+), 109 deletions(-) delete mode 100644 requirements.py delete mode 100644 setup.cfg diff --git a/mcell/CMakeLists.txt b/mcell/CMakeLists.txt index 62aab5a31..6d684a105 100644 --- a/mcell/CMakeLists.txt +++ b/mcell/CMakeLists.txt @@ -50,11 +50,15 @@ ADD_FLEX_BISON_DEPENDENCY(mdlScanner mdlParser mdllex_l) # create version.h target if (NOT WIN32) + add_custom_command( + DEPENDS ${CMAKE_SOURCE_DIR}/src/version.sh + OUTPUT ${CMAKE_CURRENT_BINARY_DIR}/deps/version.h + COMMAND ${CMAKE_SOURCE_DIR}/src/version.sh > ${CMAKE_CURRENT_BINARY_DIR}/deps/version.h) + add_custom_target( - version_h - COMMAND ${CMAKE_SOURCE_DIR}/src/version.sh > ${CMAKE_CURRENT_BINARY_DIR}/deps/version.h - DEPENDS ${CMAKE_SOURCE_DIR}/src/version.sh - VERBATIM) + generateheader ALL + DEPENDS ${CMAKE_CURRENT_BINARY_DIR}/deps/version.h + ) elseif (WIN32) add_custom_target(version_h) add_custom_command(TARGET version_h COMMAND ${CMAKE_COMMAND} -E @@ -252,6 +256,7 @@ if (APPLE) else() SWIG_LINK_LIBRARIES(pymcell ${CMAKE_LIBRARY_OUTPUT_DIRECTORY}/../libnfsim_c.so ${CMAKE_LIBRARY_OUTPUT_DIRECTORY}/../libNFsim.so ${PYTHON_LIBRARIES}) endif() +endif() # copy the pyMCell test scripts into place # file(GLOB PYMCELL_EXAMPLES "${CMAKE_SOURCE_DIR}/src/pymcell_examples/*") diff --git a/mcell/src/pymcell.i b/mcell/src/pymcell.i index 132310535..fd40ad231 100644 --- a/mcell/src/pymcell.i +++ b/mcell/src/pymcell.i @@ -105,11 +105,6 @@ %pythonbegin %{ from ctypes import * -<<<<<<< HEAD:mcell/src/pymcell.i -from os.path import dirname -lib1 = cdll.LoadLibrary(dirname(__file__) + '/../libNFsim.so') -lib2 = cdll.LoadLibrary(dirname(__file__) + '/../libnfsim_c.so') -======= import sys if (sys.platform == 'linux'): extension = "so" @@ -117,9 +112,9 @@ elif (sys.platform == 'darwin'): extension = "dylib" elif (sys.platform == 'win32'): extension = "dll" +from os.path import dirname lib1 = cdll.LoadLibrary(dirname(__file__) + '/../libNFsim.{0}'.format(extension)) lib2 = cdll.LoadLibrary(dirname(__file__) + '/../libnfsim_c.{0}'.format(extension)) ->>>>>>> d0f83f69648617018f6769f7851a0ced04a4cfc8:src/pymcell.i %} /*Add functions for user interfacing */ diff --git a/requirements.py b/requirements.py deleted file mode 100644 index 3da8d9c4f..000000000 --- a/requirements.py +++ /dev/null @@ -1,97 +0,0 @@ -import subprocess -import os -import shutil -import sys - -def compile_it(): - if (sys.platform == 'win32'): - subprocess.call(['cmake', '-G', 'Ninja', '..']) - subprocess.call(['ninja']) - else: - subprocess.call(['cmake', '..']) - subprocess.call(['make']) - - -def get_extension(): - if (sys.platform == 'linux') or (sys.platform == 'linux2'): - extension = "so" - elif (sys.platform == 'darwin'): - extension = "dylib" - elif (sys.platform == 'win32'): - extension = "dll" - else: - raise Exception("Unexpected platform: {0}".format(sys.platform)) - return extension - - -def nfsim(): - os.chdir('nfsim') - - try: - os.mkdir('lib') - except OSError: - pass - os.chdir('lib') - compile_it() - os.chdir('..') - os.chdir('..') - - -def nfsim_lib(): - os.chdir('nfsimCInterface') - - try: - os.mkdir('lib') - except OSError: - pass - - os.chdir('lib') - extension = get_extension() - - if (sys.platform == 'win32'): - subprocess.call(['cmd', '/c', 'mklink', '.\libNFsim.{0}'.format(extension), os.path.join('..', '..', 'nfsim', 'lib', 'libNFsim.{0}'.format(extension))]) - os.chdir('..') - subprocess.call(['cmd', '/c', 'mklink', '/D', '.\include', os.path.join('..', 'nfsim', 'include')]) - else: - subprocess.call(['ln', '-s', os.path.join('..', '..', 'nfsim', 'lib', 'libNFsim.{0}'.format(extension))]) - os.chdir('..') - subprocess.call(['ln', '-s', os.path.join('..', 'nfsim', 'include')]) - - - try: - os.mkdir('build') - except OSError: - pass - os.chdir('build') - compile_it() - os.chdir('..') - os.chdir('..') - - -def copy_library_files(): - try: - os.mkdir('build/lib') - except OSError: - pass - os.chdir('build') - - extension = get_extension() - - # XXX: For some reason, Windows will build MCell with the files in - # ./build/lib but will fail at runtime if they aren't in the same directory - # as the executable itself (i.e. the libs must be in ./build at runtime) - if (sys.platform == 'win32'): - shutil.copy(os.path.join('..', 'nfsim', 'lib', 'libNFsim.{0}'.format(extension)), ".") - shutil.copy(os.path.join('..', 'nfsimCInterface', 'build', 'libnfsim_c.{0}'.format(extension)), ".") - - shutil.copy(os.path.join('..', 'nfsim', 'lib', 'libNFsim.{0}'.format(extension)), "lib") - shutil.copy(os.path.join('..', 'nfsimCInterface', 'build', 'libnfsim_c.{0}'.format(extension)), "lib") - - -if __name__ == "__main__": - subprocess.call(['git', 'submodule', 'init']) - subprocess.call(['git', 'submodule', 'update']) - os.chdir("..") - nfsim() - nfsim_lib() - copy_library_files() diff --git a/setup.cfg b/setup.cfg deleted file mode 100644 index b88034e41..000000000 --- a/setup.cfg +++ /dev/null @@ -1,2 +0,0 @@ -[metadata] -description-file = README.md From 66aacde45f136d442d8077faeb1f108885db2abc Mon Sep 17 00:00:00 2001 From: andreavs Date: Tue, 4 Sep 2018 23:37:19 -0700 Subject: [PATCH 28/28] more fixes --- pymcell/data_model_import.py | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/pymcell/data_model_import.py b/pymcell/data_model_import.py index 3bd2e4734..ac81f505f 100644 --- a/pymcell/data_model_import.py +++ b/pymcell/data_model_import.py @@ -129,9 +129,9 @@ def create_surface_classes_from_dm( spec = spec_dict[spec_name] sc_enums = {"TRANSPARENT": m.SC.transp , "REFLECTIVE": m.SC.reflect, "ABSORPTIVE": m.SC.absorb } surf_class_type = sc_enums[sc_prop_dm['surf_class_type']] - odict = {"'": Orient.up, ",": Orient.down, ";": Orient.mix} + odict = {"'": m.Orient.up, ",": m.Orient.down, ";": m.Orient.mix} orient = odict[sc_prop_dm['surf_class_orient']] - spec_orient = OrientedSpecies(spec, orient) + spec_orient = m.OrientedSpecies(spec, orient) sc = m.SurfaceClass(surf_class_type, spec_orient, name=sc_name) sc_dict[sc_name] = sc return sc_dict @@ -179,8 +179,8 @@ def create_release_sites_from_dm( spec = species[spec_name] quantity = int(rel_site_dm['quantity']) orient = rel_site_dm['orient'] - odict = {"'": Orient.up, ",": Orient.down, ";": Orient.mix} - spec_orient = OrientedSpecies(spec, odict[orient]) + odict = {"'": m.Orient.up, ",": m.Orient.down, ";": m.Orient.mix} + spec_orient = m.OrientedSpecies(spec, odict[orient]) # XXX: this is really clunky. reg = None for r in meshobj.regions: