Sinogram function

[BrysonHJudacullaRock]

Hello,

I hope you are having a good day.

I am currently using the phantom_00007.py file.

I am running into the error " ImportError: cannot import name 'sinogram' from 'xdesign'"?

Which library is the sinogram coming from?

Here is my packages list in the environment.

Name Version Build Channel

aom 3.6.0 hd77b12b_0
astra-toolbox 2.1.0 py38he1a4279_0 astra-toolbox
asttokens 2.4.1 pyhd8ed1ab_0 conda-forge
backcall 0.2.0 pyh9f0ad1d_0 conda-forge
blas 1.0 mkl conda-forge
blosc 1.21.3 h6c2663c_0
bottleneck 1.3.7 py38h9128911_0
brotli 1.0.9 h8ffe710_7 conda-forge
brotli-bin 1.0.9 h8ffe710_7 conda-forge
brotli-python 1.0.9 py38hd77b12b_8
bzip2 1.0.8 h8ffe710_4 conda-forge
ca-certificates 2025.8.3 h4c7d964_0 conda-forge
cached-property 1.5.2 hd8ed1ab_1 conda-forge
cached_property 1.5.2 pyha770c72_1 conda-forge
cairo 1.16.0 h85cdd14_6
certifi 2024.8.30 py38haa95532_0
cfitsio 3.470 h0af3d06_7 conda-forge
cftime 1.6.1 py38hbdcd294_0 conda-forge
charls 2.2.0 h39d44d4_0 conda-forge
charset-normalizer 2.0.4 pyhd3eb1b0_0
click 8.1.7 win_pyh7428d3b_0 conda-forge
cloudpickle 3.0.0 pyhd8ed1ab_0 conda-forge
colorama 0.4.6 py38haa95532_0
cudatoolkit 11.3.1 h59b6b97_2
cycler 0.12.1 pyhd8ed1ab_0 conda-forge
cytoolz 0.12.2 py38h2bbff1b_0
dask-core 2023.4.1 py38haa95532_0
dav1d 1.2.1 h2bbff1b_0
debugpy 1.6.7 py38hd77b12b_0
decorator 5.1.1 pyhd8ed1ab_0 conda-forge
dxchange 0.1.9 pyhd8ed1ab_0 conda-forge
dxfile 0.5 py_1 conda-forge
edffile 5.0.0 pyhd8ed1ab_1001 conda-forge
eigen 3.4.0 h2d74725_0 conda-forge
enum34 1.1.10 py38h32f6830_2 conda-forge
executing 2.0.1 pyhd8ed1ab_0 conda-forge
expat 2.6.2 h63175ca_0 conda-forge
filelock 3.16.1 pypi_0 pypi
fontconfig 2.14.1 hb33846d_3
freetype 2.10.4 h546665d_1 conda-forge
fsspec 2024.10.0 pyhff2d567_0 conda-forge
giflib 5.2.1 h8d14728_2 conda-forge
glib 2.84.2 h232b036_0
glib-tools 2.84.2 h08ed4da_0
graphite2 1.3.14 hd77b12b_1
gst-plugins-base 1.22.3 hfc3ed34_1
gstreamer 1.22.3 h1779075_1
h5py 3.11.0 py38hed405ee_0
harfbuzz 4.3.0 hb646838_2
hdf4 4.2.13 h0e5069d_1005 conda-forge
hdf5 1.12.1 h51c971a_3
icc_rt 2022.1.0 h6049295_2
icu 73.1 h6c2663c_0
idna 3.7 py38haa95532_0
imagecodecs 2023.1.23 py38h6c6a46e_0
imagecodecs-lite 2019.12.3 py38hbdcd294_5 conda-forge
imageio 2.34.2 pyh12aca89_0 conda-forge
importlib-metadata 8.0.0 pyha770c72_0 conda-forge
importlib_metadata 8.0.0 hd8ed1ab_0 conda-forge
intel-openmp 2021.4.0 pypi_0 pypi
ipykernel 6.14.0 py38h4317176_0 conda-forge
ipython 8.4.0 py38haa244fe_0 conda-forge
jedi 0.19.1 pyhd8ed1ab_0 conda-forge
jinja2 3.1.6 pypi_0 pypi
jpeg 9e h8ffe710_2 conda-forge
jupyter_client 8.6.2 pyhd8ed1ab_0 conda-forge
jupyter_core 5.7.2 py38haa244fe_0 conda-forge
kiwisolver 1.4.4 py38hd77b12b_0
krb5 1.20.1 h5b6d351_0
lcms2 2.12 h83e58a3_0
lerc 3.0 hd77b12b_0
libabseil 20240116.2 cxx17_h5da7b33_0
libaec 1.0.6 h39d44d4_0 conda-forge
libastra 2.1.0 cuda_11.3_0 astra-toolbox
libavif 0.11.1 h2bbff1b_0
libblas 3.9.0 12_win64_mkl conda-forge
libbrotlicommon 1.0.9 h8ffe710_7 conda-forge
libbrotlidec 1.0.9 h8ffe710_7 conda-forge
libbrotlienc 1.0.9 h8ffe710_7 conda-forge
libcblas 3.9.0 12_win64_mkl conda-forge
libclang 14.0.6 default_hb5a9fac_2
libclang13 14.0.6 default_h8e68704_2
libcurl 8.12.1 h9da9810_0
libdeflate 1.17 h2bbff1b_1
libexpat 2.6.2 h63175ca_0 conda-forge
libffi 3.4.4 hd77b12b_1
libglib 2.84.2 h405b238_0
libiconv 1.17 h8ffe710_0 conda-forge
liblapack 3.9.0 12_win64_mkl conda-forge
libnetcdf 4.8.1 h6685c40_4
libogg 1.3.5 h2bbff1b_1
libpng 1.6.39 h8cc25b3_0
libpq 17.4 h70ee33d_0
libprotobuf 4.25.3 hf2fb9eb_0
libsodium 1.0.18 h8d14728_1 conda-forge
libssh2 1.11.1 h2addb87_0
libtiff 4.5.1 hd77b12b_0
libvorbis 1.3.7 h0e60522_0 conda-forge
libwebp-base 1.3.2 h2bbff1b_0
libxml2 2.13.8 h866ff63_0
libzip 1.8.0 h519de47_1 conda-forge
libzopfli 1.0.3 h0e60522_0 conda-forge
locket 1.0.0 pyhd8ed1ab_0 conda-forge
lz4-c 1.9.4 h2bbff1b_1
m2w64-gcc-libgfortran 5.3.0 6 conda-forge
m2w64-gcc-libs 5.3.0 7 conda-forge
m2w64-gcc-libs-core 5.3.0 7 conda-forge
m2w64-gmp 6.1.0 2 conda-forge
m2w64-libwinpthread-git 5.0.0.4634.697f757 2 conda-forge
markupsafe 2.1.5 pypi_0 pypi
matplotlib-base 3.4.3 py38h1f000d6_2 conda-forge
matplotlib-inline 0.1.7 pyhd8ed1ab_0 conda-forge
mkl 2021.4.0 pypi_0 pypi
mkl-service 2.4.0 py38h2bbff1b_0
mkl_fft 1.3.1 py38h277e83a_0
mpmath 1.3.0 pypi_0 pypi
msys2-conda-epoch 20160418 1 conda-forge
nest-asyncio 1.6.0 pyhd8ed1ab_0 conda-forge
netcdf4 1.6.0 nompi_py38h799434e_100 conda-forge
networkx 3.1 pyhd8ed1ab_0 conda-forge
numexpr 2.8.4 py38h5b0cc5e_0
numpy 1.23.2 py38h223ccf5_0 conda-forge
opencv 4.10.0 py38hd762f8c_0
openjpeg 2.4.0 h4afccc4_2
openssl 3.0.16 h3f729d1_0
packaging 24.1 py38haa95532_0
pandas 1.5.3 py38hf11a4ad_0
parso 0.8.4 pyhd8ed1ab_0 conda-forge
partd 1.4.1 py38haa95532_0
pathlib 1.0.1 py38haa244fe_7 conda-forge
pcre2 10.42 h0ff8eda_1
pickleshare 0.7.5 py_1003 conda-forge
pillow 10.4.0 py38h827c3e9_0
pip 24.0 py38haa95532_0
pixman 0.40.0 h8ffe710_0 conda-forge
platformdirs 3.10.0 py38haa95532_0
pooch 1.7.0 py38haa95532_0
prompt-toolkit 3.0.47 pyha770c72_0 conda-forge
psutil 5.9.0 py38h2bbff1b_0
pure_eval 0.2.2 pyhd8ed1ab_0 conda-forge
py-opencv 4.10.0 haa95532_7
pygments 2.18.0 pyhd8ed1ab_0 conda-forge
pyparsing 3.1.2 pyhd8ed1ab_0 conda-forge
pysocks 1.7.1 py38haa95532_0
python 3.8.19 h1aa4202_0
python-dateutil 2.9.0 pyhd8ed1ab_0 conda-forge
python_abi 3.8 2_cp38 conda-forge
pytz 2024.1 py38haa95532_0
pywavelets 1.4.1 py38h2bbff1b_0
pywin32 305 py38h2bbff1b_0
pyyaml 6.0 py38h294d835_4 conda-forge
pyzmq 25.1.2 py38hd77b12b_0
qt-main 5.15.2 h19c9488_12
requests 2.32.2 py38haa95532_0
scikit-image 0.19.3 py38hcc40339_1 conda-forge
scipy 1.9.1 py38h91810f7_0 conda-forge
setuptools 69.5.1 py38haa95532_0
six 1.16.0 pyhd3eb1b0_1
snappy 1.1.9 h82413e6_1 conda-forge
spefile 1.6.1 pyhd3deb0d_0 conda-forge
sqlite 3.45.3 h2bbff1b_0
stack_data 0.6.2 pyhd8ed1ab_0 conda-forge
sympy 1.13.3 pypi_0 pypi
tbb 2021.13.1 pypi_0 pypi
tifffile 2023.7.10 pyhd8ed1ab_0 conda-forge
tomopy 1.11.0 py38h27188fd_101 conda-forge
tomopy-cli 0.3 pypi_0 pypi
toolz 0.12.1 pyhd8ed1ab_0 conda-forge
torch 2.3.1+cu121 pypi_0 pypi
torchaudio 2.3.1+cu121 pypi_0 pypi
torchvision 0.18.1+cu121 pypi_0 pypi
tornado 6.2 py38h294d835_0 conda-forge
tqdm 4.66.4 py38h9909e9c_0
traitlets 5.14.3 pyhd8ed1ab_0 conda-forge
typing-extensions 4.13.2 pypi_0 pypi
urllib3 2.2.2 py38haa95532_0
vc 14.2 h2eaa2aa_4
vs2015_runtime 14.29.30133 h43f2093_4
wcwidth 0.2.13 pyhd8ed1ab_0 conda-forge
wheel 0.43.0 py38haa95532_0
win_inet_pton 1.1.0 py38haa95532_0
xdesign 0.6.0 pyhd8ed1ab_0 conda-forge
xz 5.4.6 h8cc25b3_1
yaml 0.2.5 h8ffe710_2 conda-forge
zeromq 4.3.5 hd77b12b_0
zfp 1.0.0 h0e60522_2 conda-forge
zipp 3.19.2 pyhd8ed1ab_0 conda-forge
zlib 1.2.13 h8cc25b3_1
zstd 1.5.5 hd43e919_2

Thank you.

[decarlof]

the phantoms in tomobank were generated with XDesign VERSION:0.2.0.dev0. If you want to generate the very same phantoms you should use this version (where sinogram() was defined). The xdesign version information for phantom_00001.py is saved in the HDF file under

instrument_name="XDesign VERSION:0.2.0.dev0+1d67599b8f104ebded86bac98100dbf15e251a66 FUNCTION: SlantedSquares(count=16, angle=5/360*2*np.pi, gap=0.01), prop='mass_atten'"

Please look at the examples here to generate new phantoms using the latest xdesign version. If of interest, you are welcome to contribute new phantoms to tomobank.

I am sorry about the confusion, I will update the documentation adding the above at https://tomobank.readthedocs.io/en/latest/source/phantom.html