From 2f0d0bde1eb175b6d68794dbd467e11934e041eb Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Mon, 3 Nov 2025 17:12:11 +1300 Subject: [PATCH 01/24] fix(generate-velocity-model-parameters): better crustal model assumptions and point-source fixes --- .../generate_velocity_model_parameters.py | 47 +++++++++++++++---- 1 file changed, 37 insertions(+), 10 deletions(-) diff --git a/workflow/scripts/generate_velocity_model_parameters.py b/workflow/scripts/generate_velocity_model_parameters.py index 72aa068c..b54ad9b8 100644 --- a/workflow/scripts/generate_velocity_model_parameters.py +++ b/workflow/scripts/generate_velocity_model_parameters.py @@ -199,7 +199,9 @@ def total_magnitude(magnitudes: npt.NDArray[np.float64]) -> float: return mag_scaling.mom2mag(np.sum(mag_scaling.mag2mom(magnitudes))) -def pgv_from_rrup(magnitude: float, rake: float, dip: float, rrup: float) -> float: +def pgv_from_rrup( + magnitude: float, rake: float, dip: float, rrup: float, ztor: float +) -> float: """ Compute the peak ground velocity (PGV) at a given distance from a rupture. @@ -235,9 +237,20 @@ def pgv_from_rrup(magnitude: float, rake: float, dip: float, rrup: float) -> flo "vs30measured": [False], "dip": [dip], "z1pt0": [oqw.estimations.chiou_young_08_calc_z1p0(vs30)], - "ztor": [0], + # These calculations are done with a point-source + # assumption. We don't know where our test point is so + # estimating them from source geometry is impossible + # since rjb depends on polygon-distance measurements. + # We believe this is defensible for reasons: + # + # 1. At small Mw, we assume a point-source anyway so these calculations are essentially correct. + # 2. At large Mw, PGV of 0.1cm/s will occur sufficiently far from the event that a point-source approximation is reasonable. + "ztor": [ztor], "rrup": [rrup], - "rjb": [rrup], + "rjb": [np.sqrt(rrup**2 - ztor**2)], + # We want to include any hanging-wall terms in the model + # to err on the conservative side for our domains. In the + # other case, we risk shrinking our domains unnecessarily. "rx": [rrup], } ), @@ -248,7 +261,7 @@ def pgv_from_rrup(magnitude: float, rake: float, dip: float, rrup: float) -> flo @log_utils.log_call() def estimate_rrup( - magnitude: float, rake: float, dip: float, pgv_target: float + magnitude: float, rake: float, dip: float, ztor: float, pgv_target: float ) -> float: """ Estimate the rupture radius such that stations at this radius will @@ -279,7 +292,9 @@ def estimate_rrup( 60.86630588572306 """ return sp.optimize.minimize_scalar( - lambda rrup: np.abs(pgv_from_rrup(magnitude, rake, dip, rrup) - pgv_target), + lambda rrup: np.abs( + pgv_from_rrup(magnitude, rake, dip, rrup, ztor) - pgv_target + ), bounds=(0, 1000), method="bounded", ).x @@ -314,10 +329,18 @@ def find_rrup_bounding_polygon( The bounding polygon over the rrup distance of the fault in the realisation. """ + if isinstance(fault, sources.Point): + # TODO: backport this into source modelling + ztor = fault.centroid[2] - fault.width_m / 2 * np.sin(np.radians(fault.dip)) + else: + ztor = fault.top_m + ztor /= 1000.0 + dip = fault.dip rrup = estimate_rrup( magnitude, rake, - np.mean([plane.dip for plane in fault.planes]), + dip, + ztor, pgv_target, ) logger = log_utils.get_logger(__name__) @@ -435,10 +458,14 @@ def generate_velocity_model_parameters( realisation_pgv_target = pgv_target(magnitudes, velocity_model_parameters) initial_fault = source_config.source_geometries[rupture_propagation.initial_fault] - max_depth = get_max_depth( - rupture_magnitude, - initial_fault.planes[0].bottom_m / 1000, - ) + if isinstance(initial_fault, sources.Point): + # TODO: backport this into source modelling + bottom_m = initial_fault.centroid[2] + initial_fault.width_m / 2 * np.sin( + np.radians(initial_fault.dip) + ) + else: + bottom_m = initial_fault.bottom_m + max_depth = get_max_depth(rupture_magnitude, bottom_m / 1000.0) # This polygon includes all the faults corners + a 2km buffer (which must be in the simulation domain). fault_buffer_polygons = [ From 317898c1038dae5e6730f17750923d4db6346569 Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 4 Nov 2025 10:29:40 +1300 Subject: [PATCH 02/24] use rrup_interpolant instead of pgv_interpolant --- tests/test_realisation.py | 4 +- .../default_parameters/develop/defaults.yaml | 2 +- .../v24_2_2_1/defaults.yaml | 2 +- .../v24_2_2_2/defaults.yaml | 2 +- .../v24_2_2_4/defaults.yaml | 2 +- workflow/realisations.py | 7 +- workflow/schemas.py | 2 +- .../generate_velocity_model_parameters.py | 163 +++--------------- 8 files changed, 33 insertions(+), 151 deletions(-) diff --git a/tests/test_realisation.py b/tests/test_realisation.py index d21a58c1..fcb8b103 100644 --- a/tests/test_realisation.py +++ b/tests/test_realisation.py @@ -246,7 +246,7 @@ def test_velocity_model(tmp_path: Path) -> None: resolution=0.1, vs30=300.0, s_wave_velocity=3500.0, - pgv_interpolants=np.ones(shape=(2, 2), dtype=np.float32), + rrup_interpolants=np.ones(shape=(2, 2), dtype=np.float32), ) realisation_ffp = tmp_path / "realisation.json" velocity_model.write_to_realisation(realisation_ffp) @@ -261,7 +261,7 @@ def test_velocity_model(tmp_path: Path) -> None: "resolution": 0.1, "vs30": 300.0, "s_wave_velocity": 3500.0, - "pgv_interpolants": [[1, 1], [1, 1]], + "rrup_interpolants": [[1, 1], [1, 1]], } } diff --git a/workflow/default_parameters/develop/defaults.yaml b/workflow/default_parameters/develop/defaults.yaml index 920a0be1..d29126ed 100644 --- a/workflow/default_parameters/develop/defaults.yaml +++ b/workflow/default_parameters/develop/defaults.yaml @@ -120,7 +120,7 @@ velocity_model: topo_type: "SQUASHED_TAPERED" vs30: 500.0 s_wave_velocity: 3500.0 - pgv_interpolants: [[3.5, 1.0], [8., 1.0]] + rrup_interpolants: [[]] velocity_model_1d: model: - thickness: 0.0500 diff --git a/workflow/default_parameters/v24_2_2_1/defaults.yaml b/workflow/default_parameters/v24_2_2_1/defaults.yaml index dabc1c22..c3fa2410 100644 --- a/workflow/default_parameters/v24_2_2_1/defaults.yaml +++ b/workflow/default_parameters/v24_2_2_1/defaults.yaml @@ -120,7 +120,7 @@ velocity_model: topo_type: "SQUASHED_TAPERED" vs30: 500.0 s_wave_velocity: 3500.0 - pgv_interpolants: [[3.5, 1.0], [8., 1.0]] + rrup_interpolants: [[]] velocity_model_1d: model: - thickness: 0.0500 diff --git a/workflow/default_parameters/v24_2_2_2/defaults.yaml b/workflow/default_parameters/v24_2_2_2/defaults.yaml index c5075ff1..8c709650 100644 --- a/workflow/default_parameters/v24_2_2_2/defaults.yaml +++ b/workflow/default_parameters/v24_2_2_2/defaults.yaml @@ -120,7 +120,7 @@ velocity_model: topo_type: "SQUASHED_TAPERED" vs30: 500.0 s_wave_velocity: 3500.0 - pgv_interpolants: [[3.5, 1.0], [8., 1.0]] + rrup_interpolants: [[]] bb: flo: 0.5 dt: 0.01 diff --git a/workflow/default_parameters/v24_2_2_4/defaults.yaml b/workflow/default_parameters/v24_2_2_4/defaults.yaml index 5a252c97..8af0b65a 100644 --- a/workflow/default_parameters/v24_2_2_4/defaults.yaml +++ b/workflow/default_parameters/v24_2_2_4/defaults.yaml @@ -120,7 +120,7 @@ velocity_model: topo_type: "SQUASHED_TAPERED" vs30: 500.0 s_wave_velocity: 3500.0 - pgv_interpolants: [[3.5, 1.0], [8., 1.0]] + rrup_interpolants: [[]] velocity_model_1d: model: - thickness: 0.0500 diff --git a/workflow/realisations.py b/workflow/realisations.py index a9d1f1c6..719c0de7 100644 --- a/workflow/realisations.py +++ b/workflow/realisations.py @@ -367,7 +367,6 @@ class SRFConfig(RealisationConfiguration): point_source_params: schemas.PointSourceParams | None """Parameters for point source approximation, if applicable.""" - def to_dict(self) -> dict[str, Any]: """ Convert the object to a dictionary representation. @@ -590,8 +589,8 @@ class VelocityModelParameters(RealisationConfiguration): """The reference vs30 value for duration estimation.""" s_wave_velocity: float """The s-wave velocity.""" - pgv_interpolants: npt.NDArray[np.float32] - """Target PGV values at specific magnitudes, used to estimate domain size.""" + rrup_interpolants: npt.NDArray[np.float32] + """Target RRup values at specific magnitudes, used to estimate domain size.""" def to_dict(self) -> dict: """ @@ -603,7 +602,7 @@ def to_dict(self) -> dict: Dictionary representation of the object. """ _dict = dataclasses.asdict(self) - _dict["pgv_interpolants"] = _dict["pgv_interpolants"].tolist() + _dict["rrup_interpolants"] = _dict["rrup_interpolants"].tolist() return _dict diff --git a/workflow/schemas.py b/workflow/schemas.py index 19da5b9f..7e80fdcd 100644 --- a/workflow/schemas.py +++ b/workflow/schemas.py @@ -476,7 +476,7 @@ def _corners_to_array(corners_spec: list[dict[str, float]]) -> np.ndarray: ), Literal("vs30", "VS30 value"): And(NUMBER, _is_positive), Literal("s_wave_velocity", "S-wave velocity"): And(NUMBER, _is_positive), - Literal("pgv_interpolants", "PGV interpolants to estimate domain size"): And( + Literal("rrup_interpolants", "RRup interpolants to estimate domain size"): And( [[And(NUMBER, _is_positive)]], Use(np.array) ), } diff --git a/workflow/scripts/generate_velocity_model_parameters.py b/workflow/scripts/generate_velocity_model_parameters.py index b54ad9b8..024f6a3a 100644 --- a/workflow/scripts/generate_velocity_model_parameters.py +++ b/workflow/scripts/generate_velocity_model_parameters.py @@ -32,7 +32,6 @@ import numpy as np import numpy.typing as npt import pandas as pd -import scipy as sp import shapely import typer from shapely import Polygon @@ -199,134 +198,52 @@ def total_magnitude(magnitudes: npt.NDArray[np.float64]) -> float: return mag_scaling.mom2mag(np.sum(mag_scaling.mag2mom(magnitudes))) -def pgv_from_rrup( - magnitude: float, rake: float, dip: float, rrup: float, ztor: float -) -> float: - """ - Compute the peak ground velocity (PGV) at a given distance from a rupture. - - Parameters - ---------- - magnitude : float - The magnitude of the rupture. - rake : float - The rake angle of the rupture. - dip : float - The dip angle of the rupture. - rrup : float - The distance from the rupture (in km). - - Returns - ------- - float - The peak ground velocity (cm/s) at the given distance from the rupture. - """ - # import here rather than at the module level because openquake is slow to import - import oq_wrapper as oqw - - vs30 = 500 # default Vs30 value - return np.exp( - oqw.run_gmm( - oqw.constants.GMM.CY_14, - oqw.constants.TectType.ACTIVE_SHALLOW, - pd.DataFrame( - { - "mag": [magnitude], - "rake": [rake], - "vs30": [vs30], - "vs30measured": [False], - "dip": [dip], - "z1pt0": [oqw.estimations.chiou_young_08_calc_z1p0(vs30)], - # These calculations are done with a point-source - # assumption. We don't know where our test point is so - # estimating them from source geometry is impossible - # since rjb depends on polygon-distance measurements. - # We believe this is defensible for reasons: - # - # 1. At small Mw, we assume a point-source anyway so these calculations are essentially correct. - # 2. At large Mw, PGV of 0.1cm/s will occur sufficiently far from the event that a point-source approximation is reasonable. - "ztor": [ztor], - "rrup": [rrup], - "rjb": [np.sqrt(rrup**2 - ztor**2)], - # We want to include any hanging-wall terms in the model - # to err on the conservative side for our domains. In the - # other case, we risk shrinking our domains unnecessarily. - "rx": [rrup], - } - ), - "PGV", - )["PGV_mean"].iloc[0] - ) - - @log_utils.log_call() -def estimate_rrup( - magnitude: float, rake: float, dip: float, ztor: float, pgv_target: float +def estimate_r_surface( + rrup_interpolants: npt.NDArray[np.float32], magnitude: float, ztor: float ) -> float: """ - Estimate the rupture radius such that stations at this radius will - experience the target PGV. + Estimate an appropriate rupture radius for a rupture. Parameters ---------- magnitude : float The magnitude of the rupture. - rake : float - The rake angle of the rupture. - dip : float - The dip angle of the rupture. - pgv_target : float - The target PGV value (cm/s). Returns ------- float - The estimated rupture radius (in km). - - Examples - -------- - >>> # Estimate the rupture radius for a 7.5 magnitude earthquake - >>> # with a rake of 90 degrees, a dip of 45 degrees, and a target - >>> # PGV of 10 cm/s. - >>> estimate_rrup(7.5, 90, 45, 10) - 60.86630588572306 + The estimated rupture radius (in km). """ - return sp.optimize.minimize_scalar( - lambda rrup: np.abs( - pgv_from_rrup(magnitude, rake, dip, rrup, ztor) - pgv_target - ), - bounds=(0, 1000), - method="bounded", - ).x + rrup = float(np.interp(magnitude, rrup_interpolants[0], rrup_interpolants[1])) + r_surface = np.sqrt(rrup**2 - ztor**2) + return r_surface -def find_rrup_bounding_polygon( +def find_r_surface_bounding_polygon( fault: sources.IsSource, magnitude: float, - rake: float, - pgv_target: float, + rrup_interpolants: npt.NDArray[np.floating], ) -> Polygon: - """Find the bounding polygon for the rrup distance of a fault. + """Find the bounding polygon for the r_surface distance of a fault. - The bounding polygon is computed by estimating rrup from the PGV - target, and then applying an rrup-width buffer to the fault - geometries. + The bounding polygon is computed by estimating rrup from the magnitude, + computing r_surface from the geometry and rrup, and then applying an + r_surface-width buffer to the fault geometries. Parameters ---------- fault : sources.IsSource The fault geometry. + rrup_interpolants : array of floats + Interpolant nodes mapping magnitude to rrup. magnitude : float The magnitude of the rupture. - rake : float - The rake angle of the rupture. - pgv_target : float - The target PGV value (cm/s). Returns ------- Polygon - The bounding polygon over the rrup distance of the fault in the realisation. + The bounding polygon over the r_surface distance of the fault in the realisation. """ if isinstance(fault, sources.Point): @@ -335,18 +252,15 @@ def find_rrup_bounding_polygon( else: ztor = fault.top_m ztor /= 1000.0 - dip = fault.dip - rrup = estimate_rrup( + r_surface = estimate_r_surface( + rrup_interpolants, magnitude, - rake, - dip, ztor, - pgv_target, ) logger = log_utils.get_logger(__name__) - logger.debug("computed rrup", rrups=rrup) + logger.debug("computed r_surface", r_surface=r_surface) - return shapely.buffer(fault.geometry, rrup * 1000) + return shapely.buffer(fault.geometry, r_surface * 1000) def dict_zip(*dicts: list[dict], strict: bool = True) -> dict: @@ -384,37 +298,6 @@ def dict_zip(*dicts: list[dict], strict: bool = True) -> dict: return result -def pgv_target( - magnitudes: Magnitudes, - velocity_model_parameters: VelocityModelParameters, -) -> float: - """Compute the PGV target for the realisation. - - Parameters - ---------- - magnitudes : Magnitudes - The magnitudes object. - velocity_model_parameters : VelocityModelParameters - The velocity model parameters containing PGV interpolants. - - Returns - ------- - float - The PGV target for the realisation. - """ - total_magnitude = mag_scaling.mom2mag( - sum( - mag_scaling.mag2mom(magnitude) - for magnitude in magnitudes.magnitudes.values() - ) - ) - return np.interp( - total_magnitude, - velocity_model_parameters.pgv_interpolants[:, 0], - velocity_model_parameters.pgv_interpolants[:, 1], - ) - - @cli.from_docstring(app) @log_utils.log_call() def generate_velocity_model_parameters( @@ -455,7 +338,6 @@ def generate_velocity_model_parameters( magnitudes = Magnitudes.read_from_realisation(realisation_ffp) rakes = Rakes.read_from_realisation(realisation_ffp) rupture_magnitude = total_magnitude(np.array(list(magnitudes.magnitudes.values()))) - realisation_pgv_target = pgv_target(magnitudes, velocity_model_parameters) initial_fault = source_config.source_geometries[rupture_propagation.initial_fault] if isinstance(initial_fault, sources.Point): @@ -477,11 +359,12 @@ def generate_velocity_model_parameters( # corner in the source geometries. # These may be in the domain where they are over land. rrup_bounding_polygons = [ - find_rrup_bounding_polygon(*args, pgv_target=realisation_pgv_target) + find_r_surface_bounding_polygon( + *args, rrup_interpolants=velocity_model_parameters.rrup_interpolants + ) for args in dict_zip( source_config.source_geometries, magnitudes.magnitudes, - rakes.rakes, ).values() ] From 0b91660e7daf7c8c8da715680b1efca1fb4b5d91 Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 09:53:32 +1300 Subject: [PATCH 03/24] refactor(generate_velocity_model_parameters): extract domain computation logic to pure function - Move domain and duration computation into new generate_domain function - Add generate_domain_from_realisation as CLI entrypoint for file-based workflow - Improve separation of concerns and enable easier testing of domain logic --- .../generate_velocity_model_parameters.py | 103 ++++++++++++------ 1 file changed, 70 insertions(+), 33 deletions(-) diff --git a/workflow/scripts/generate_velocity_model_parameters.py b/workflow/scripts/generate_velocity_model_parameters.py index 790240f1..4cf794cd 100644 --- a/workflow/scripts/generate_velocity_model_parameters.py +++ b/workflow/scripts/generate_velocity_model_parameters.py @@ -426,45 +426,38 @@ def pgv_target( ) -@cli.from_docstring(app) -@log_utils.log_call() -def generate_velocity_model_parameters( - realisation_ffp: Annotated[Path, typer.Argument()], -) -> None: - """Generate velocity model parameters for a given realisation file. - - This function reads the source and rupture propagation information and computes: - - 1. The size of the simulation domain, - 2. The simulation duration. - - Both of these values are written to the realisation using `VelocityModelParameters`. +def generate_domain( + source_config: SourceConfig, + rupture_propagation: RupturePropagationConfig, + magnitudes: Magnitudes, + rakes: Rakes, + velocity_model_parameters: VelocityModelParameters, +) -> DomainParameters: + """ + Computes simulation domain spatial extent and temporal duration. Parameters ---------- - realisation_ffp : Path - The path to the realisation file from which to read configurations and to which - the generated velocity model parameters will be written. + source_config : SourceConfig + Configuration containing the geometries for all faults involved in + the realisation. + rupture_propagation : RupturePropagationConfig + Configuration defining the propagation characteristics, including the + identification of the initial fault. + magnitudes : Magnitudes + The magnitudes associated with each source in the realisation. + rakes : Rakes + The rake angles for the source geometries. + velocity_model_parameters : VelocityModelParameters + Parameters defining the velocity model, including Vs30, S-wave + velocity, and the duration scaling multiplier. Returns ------- - None - The function does not return any value. It writes the computed parameters to - the specified realisation file. + DomainParameters + An object containing the computed model domain (bounding box), + the maximum simulation depth, and the estimated simulation duration. """ - metadata = RealisationMetadata.read_from_realisation(realisation_ffp) - source_config = SourceConfig.read_from_realisation(realisation_ffp) - velocity_model_parameters = ( - VelocityModelParameters.read_from_realisation_or_defaults( - realisation_ffp, metadata.defaults_version - ) - ) - - rupture_propagation = RupturePropagationConfig.read_from_realisation( - realisation_ffp - ) - magnitudes = Magnitudes.read_from_realisation(realisation_ffp) - rakes = Rakes.read_from_realisation(realisation_ffp) rupture_magnitude = total_magnitude(np.array(list(magnitudes.magnitudes.values()))) realisation_pgv_target = pgv_target(magnitudes, velocity_model_parameters) @@ -483,7 +476,6 @@ def generate_velocity_model_parameters( shapely.buffer(fault.geometry, 2000) for fault in source_config.source_geometries.values() ] - rakes = Rakes.read_from_realisation(realisation_ffp) # This polygon includes all areas within rrup distance of any # corner in the source geometries. # These may be in the domain where they are over land. @@ -521,5 +513,50 @@ def generate_velocity_model_parameters( depth=max_depth, duration=sim_duration, ) + return domain_parameters + + +@cli.from_docstring(app) +@log_utils.log_call() +def generate_domain_from_realisation( + realisation_ffp: Annotated[Path, typer.Argument()], +) -> None: + """Generate velocity model parameters for a given realisation file. + + This function reads the source and rupture propagation information and computes: + + 1. The size of the simulation domain, + 2. The simulation duration. + + Both of these values are written to the realisation using `VelocityModelParameters`. + + Parameters + ---------- + realisation_ffp : Path + The path to the realisation file from which to read configurations and to which + the generated velocity model parameters will be written. + + Returns + ------- + None + The function does not return any value. It writes the computed parameters to + the specified realisation file. + """ + metadata = RealisationMetadata.read_from_realisation(realisation_ffp) + source_config = SourceConfig.read_from_realisation(realisation_ffp) + velocity_model_parameters = ( + VelocityModelParameters.read_from_realisation_or_defaults( + realisation_ffp, metadata.defaults_version + ) + ) + + rupture_propagation = RupturePropagationConfig.read_from_realisation( + realisation_ffp + ) + magnitudes = Magnitudes.read_from_realisation(realisation_ffp) + rakes = Rakes.read_from_realisation(realisation_ffp) + domain_parameters = generate_domain( + source_config, rupture_propagation, magnitudes, rakes, velocity_model_parameters + ) domain_parameters.write_to_realisation(realisation_ffp) realisations.append_log_entry(realisation_ffp) From f2c1323132890d331caa3206df7411e4d82699f7 Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 09:55:22 +1300 Subject: [PATCH 04/24] refactor(scripts): rename generate_velocity_model_parameters to generate_domain --- pyproject.toml | 2 +- ...generate_velocity_model_parameters.py => generate_domain.py} | 0 2 files changed, 1 insertion(+), 1 deletion(-) rename workflow/scripts/{generate_velocity_model_parameters.py => generate_domain.py} (100%) diff --git a/pyproject.toml b/pyproject.toml index 07f1a298..a885b2a7 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -59,7 +59,7 @@ pep621_dev_dependency_groups = ["test", "dev"] nshm2022-to-realisation = "workflow.scripts.nshm2022_to_realisation:app" gcmt-to-realisation = "workflow.scripts.gcmt_to_realisation:app" realisation-to-srf = "workflow.scripts.realisation_to_srf:app" -generate-velocity-model-parameters = "workflow.scripts.generate_velocity_model_parameters:app" +generate-domain = "workflow.scripts.generate_domain:app" generate-velocity-model = "workflow.scripts.generate_velocity_model:app" generate-station-coordinates = "workflow.scripts.generate_station_coordinates:app" generate-model-coordinates = "workflow.scripts.generate_model_coordinates:app" diff --git a/workflow/scripts/generate_velocity_model_parameters.py b/workflow/scripts/generate_domain.py similarity index 100% rename from workflow/scripts/generate_velocity_model_parameters.py rename to workflow/scripts/generate_domain.py From a9ba16b2e6051febdfb35127d44c96d9b253fd1a Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 13:42:28 +1300 Subject: [PATCH 05/24] refactor(generate_domain): refactor stage for better testing --- pyproject.toml | 13 +- tests/test_utils.py | 62 +++ workflow/scripts/generate_domain.py | 610 ++++++++++++++++++---------- workflow/utils.py | 73 ++++ 4 files changed, 538 insertions(+), 220 deletions(-) diff --git a/pyproject.toml b/pyproject.toml index a885b2a7..dd27f3ca 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -17,38 +17,37 @@ dependencies = [ "oq_wrapper>=2025.12.3", "qcore-utils>=2025.12.1", "source_modelling>=2025.12.1", - # Data Formats "geopandas", "pandas[parquet, hdf5]", "pyyaml", "xarray[io]", - # Workflow Planner "jinja2", "networkx", "printree", "pyvis", - # Numerics "numexpr", "numpy", "scipy", "shapely", - # CLI "tqdm", "typer", - # Misc. "requests", # For gcmt-to-realisation "schema", # For loading realisations "structlog", # Logging. "psutil", # To get the CPU affinity for jobs + ] [project.optional-dependencies] -test = ["pytest"] +test = [ + "pytest>=6.0.0", # required for the tool.pytest section + "hypothesis[numpy]>=6.0.0", +] types = ["pandas-stubs", "types-geopandas", "types-requests", "scipy-stubs"] dev = ["ruff", "deptry", "ty", "numpydoc"] @@ -84,6 +83,8 @@ workflow = "workflow" [tool.setuptools_scm] +[tool.pytest] +markers = ["slow: mark test as slow."] [tool.ruff.lint] extend-select = [ diff --git a/tests/test_utils.py b/tests/test_utils.py index 19819ed8..63b14304 100644 --- a/tests/test_utils.py +++ b/tests/test_utils.py @@ -45,6 +45,7 @@ def test_raises_when_no_cpu_info() -> None: utils.get_available_cores() +@pytest.mark.slow def test_read_nz_coastline() -> None: gdf = utils.read_nz_coastline() assert isinstance(gdf, gpd.GeoDataFrame) @@ -80,3 +81,64 @@ def test_get_nz_outline_polygon_selects_two_largest() -> None: expected_union = shapely.transform(expected_union, lambda x: x[:, ::-1]) # Check the result is equal to the union of the two largest polygons assert shapely.area(shapely.symmetric_difference(result, expected_union)) < 1e-4 + + +def test_dict_zip_basic_two_dicts() -> None: + """Test standard zipping of two dictionaries with matching keys.""" + d1 = {"a": 1, "b": 2} + d2 = {"a": "apple", "b": "banana"} + + expected = {"a": (1, "apple"), "b": (2, "banana")} + assert utils.dict_zip(d1, d2) == expected + + +def test_dict_zip_three_dicts() -> None: + """Test standard zipping of three dictionaries.""" + d1 = {"a": 1} + d2 = {"a": 2} + d3 = {"a": 3} + + assert utils.dict_zip(d1, d2, d3) == {"a": (1, 2, 3)} + + +def test_dict_zip_strict_mismatch_raises_error() -> None: + """Test that strict=True raises ValueError when keys don't match exactly.""" + d1 = {"a": 1, "b": 2} + d2 = {"a": 1} # Missing 'b' + + with pytest.raises(ValueError, match="Keys in dictionaries are not all the same"): + utils.dict_zip(d1, d2, strict=True) + + +def test_dict_zip_non_strict_intersection() -> None: + """Test that strict=False returns the intersection of keys.""" + d1 = {"a": 1, "b": 2, "c": 3} + d2 = {"a": 10, "b": 20, "d": 40} + + # Only 'a' and 'b' are in both + result = utils.dict_zip(d1, d2, strict=False) + assert set(result.keys()) == {"a", "b"} + assert result["a"] == (1, 10) + assert result["b"] == (2, 20) + + +def test_dict_zip_empty_input() -> None: + """Test behaviour with no dictionaries provided.""" + assert utils.dict_zip() == {} + + +def test_dict_zip_single_dict() -> None: + """Test behaviour with a single dictionary.""" + d1 = {"a": 1, "b": 2} + assert utils.dict_zip(d1) == {"a": (1,), "b": (2,)} + + +def test_dict_zip_identical_keys_different_order() -> None: + """Test that key order in input doesn't cause strict mode to fail.""" + d1 = {"a": 1, "b": 2} + d2 = {"b": 20, "a": 10} + + # Should not raise ValueError even though insertion order differs + result = utils.dict_zip(d1, d2, strict=True) + assert result["a"] == (1, 10) + assert result["b"] == (2, 20) diff --git a/workflow/scripts/generate_domain.py b/workflow/scripts/generate_domain.py index 4cf794cd..5f81d7eb 100644 --- a/workflow/scripts/generate_domain.py +++ b/workflow/scripts/generate_domain.py @@ -26,21 +26,19 @@ See the output of `generate-velocity-model-parameters --help` or `workflow.scripts.generate_velocity_model_parameters`. """ -from collections.abc import Mapping +from collections.abc import Iterable +from dataclasses import dataclass from pathlib import Path -from typing import Annotated, Any, TypeVar +from typing import Annotated import numpy as np -import numpy.typing as npt import pandas as pd import scipy as sp import shapely import typer -from shapely import Polygon -from qcore import cli -from qcore.uncertainties import mag_scaling -from source_modelling import sources +from qcore import cli, geo +from source_modelling import moment, sources from velocity_modelling import bounding_box from velocity_modelling.bounding_box import BoundingBox from workflow import log_utils, realisations, utils @@ -57,101 +55,241 @@ app = typer.Typer() -@log_utils.log_call(exclude_args=["faults"]) -def estimate_simulation_duration( - bounding_box: BoundingBox, - magnitude: float, - faults: list[sources.IsSource], - rakes: npt.NDArray[np.float64], - ds_multiplier: float, - vs30: float, - s_wave_velocity: float, +def get_significant_duration( + magnitude: float, distance: float, vs30: float, rake: float, z1pt0: float ) -> float: - """Estimate the simulation duration required for a realisation in a given domain. - - The simulation distance is the length of time it - takes the S-waves to reach and pass the edge of the domain from - the centre of the fault(s). + """Estimate significant duration using Afshari-Stewart (2016). Parameters ---------- - bounding_box : BoundingBox - The bounding box representing the simulation domain. magnitude : float - The magnitude of the earthquake rupture. - faults : list of sources.IsSource - A list of fault objects defining the fault geometries. - rakes : np.ndarray - An array of rake angles for the faults. - ds_multiplier : float - Multiplier for the wavelength of the s-wave to adjust simulation duration. + The magnitude of the rupture. + distance : float + The distance to estimate Ds595 for. vs30 : float - Average shear-wave velocity in the top 30 meters of soil (in m/s). - s_wave_velocity : float - Shear-wave velocity (in m/s) used to compute the travel time. + The Vs30 value at the site. + rake : float + The rake parameter. + z1pt0 : float + The Z1.0 estimated at the site. Returns ------- float - The estimated simulation duration time (in seconds). + The estimated Ds595 of the rupture (in seconds). """ - # compute the largest distance between the fault geometry and the domain boundary, that is - # - # max_{x \in F_g} (min_{y \in D} d(x, y)) - # - # where F_g is the fault geometry, and D is the domain boundary. - largest_distance = ( - shapely.hausdorff_distance( - shapely.union_all([fault.geometry for fault in faults]), - bounding_box.polygon, - ) - / 1000 - ) - - s_wave_arrival_time = (largest_distance * 1000) / s_wave_velocity - - # import here rather than at the module level because openquake is slow to import import oq_wrapper as oqw - avg_rake = np.mean(rakes) - - oq_dataframe = pd.DataFrame.from_dict( + # Create the input context for the GMM + ctx = pd.DataFrame( { "vs30": [vs30], - "z1pt0": [oqw.estimations.chiou_young_08_calc_z1p0(vs30)], - "rrup": [largest_distance], + "z1pt0": [z1pt0], + "rrup": [distance], "mag": [magnitude], - "rake": [avg_rake], + "rake": [rake], } ) - ds = np.exp( - oqw.run_gmm( - oqw.constants.GMM.AS_16, - oqw.constants.TectType.ACTIVE_SHALLOW, - oq_dataframe, - "Ds595", - )["Ds595_mean"].iloc[0] + # Execute and transform from log space + results = oqw.run_gmm( + oqw.constants.GMM.AS_16, + oqw.constants.TectType.ACTIVE_SHALLOW, + ctx, + "Ds595", + ) + + return np.exp(results["Ds595_mean"].iloc[0]) + + +def boundary_distance( + domain: BoundingBox, sources: Iterable[sources.IsSource] +) -> float: + r"""Compute the distance from source to boundary. + + The largest distance between the fault geometry and the domain + boundary is the Hausdorff distance, that is max_{x \in F_g} + (min_{y \in D} d(x, y)) where F_g is the fault geometry, and D is + the domain boundary. + + Parameters + ---------- + domain : BoundingBox + The domain bounding box. + sources : Iterable[sources.IsSource] + The sources to compute the boundary distance for. + + + Returns + ------- + float + The hausdorff distance between the sources and the boundary. + + """ + source_geometry = shapely.union_all([source.geometry for source in sources]) + bounding_box_geometry = domain.polygon + return float(shapely.hausdorff_distance(source_geometry, bounding_box_geometry)) + + +def total_magnitude(magnitudes: Iterable[float]) -> float: + """ + Compute the total magnitude from an array of individual magnitudes. + + Parameters + ---------- + magnitudes : np.ndarray + An array of magnitudes. + + Returns + ------- + float + The total magnitude, computed from the summed moment of the input magnitudes. + """ + total_moment = sum( + moment.magnitude_to_moment(magnitude) for magnitude in magnitudes + ) + return moment.moment_to_magnitude(total_moment) + + +@dataclass +class RuptureContext: + """Rupture context container class.""" + + magnitude: float + """Rupture magnitude.""" + rake: float + """Rupture rake.""" + vs30: float + """Rupture vs30.""" + z1pt0: float + """Rupture Z1.0.""" + s_wave_velocity: float + """Rupture s-wave velocity.""" + ds_multiplier: float + """Rupture Ds multiplier.""" + + +def rupture_context_from( + magnitudes: Magnitudes, + rakes: Rakes, + velocity_model_parameters: VelocityModelParameters, +) -> RuptureContext: + """Create a rupture context from a rupture. + + + + Parameters + ---------- + magnitudes : Magnitudes + The magnitudes of the rupture faults. + rakes : Rakes + The rakes in the rupture faults. + velocity_model_parameters : VelocityModelParameters + The velocity model parameters. Only use s_wave_velocity and + ds_multiplier. + + + Returns + ------- + RuptureContext + The rupture context computed from the source information and + velocity model parameters. + """ + import oq_wrapper as oqw + + magnitude = total_magnitude(magnitudes.magnitudes.values()) + rake = average_rake(rakes, magnitudes) + + z1pt0 = float( + oqw.estimations.chiou_young_08_calc_z1p0(velocity_model_parameters.vs30) ) - log_utils.get_logger(__name__).debug( - "Computing simulation duration with parameters", - vs30=vs30, - largest_distance=largest_distance, + s_wave_velocity = velocity_model_parameters.s_wave_velocity + ds_multiplier = velocity_model_parameters.ds_multiplier + + return RuptureContext( + magnitude=magnitude, + rake=rake, + vs30=velocity_model_parameters.vs30, + z1pt0=z1pt0, s_wave_velocity=s_wave_velocity, - s_wave_arrival_time=s_wave_arrival_time, ds_multiplier=ds_multiplier, - magnitude=magnitude, - rakes=rakes, - ds=ds, - avg_rake=avg_rake, ) - return s_wave_arrival_time + ds_multiplier * ds +def average_rake(rakes: Rakes, magnitude: Magnitudes) -> float: + """Find moment-weighted average rupture rake. + + Parameters + ---------- + rakes : Rakes + The rakes to average. + magnitude : Magnitudes + The magnitudes to weight rakes by. -def get_max_depth(magnitude: float, hypocentre_depth: float) -> int: + Returns + ------- + float + The moment-weighted average rake. + """ + moments = { + k: moment.magnitude_to_moment(magnitude) + for k, magnitude in magnitude.magnitudes.items() + } + max_moment = max(moments.values()) + # re-normalise for debugging purposes and to maybe improve + # floating-point accuracy in the avg wbearing function. + moments = {k: moment / max_moment for k, moment in moments.items()} + + weighted_rakes = list(utils.dict_zip(rakes.rakes, moments).values()) + return geo.avg_wbearing(weighted_rakes) # type: ignore[invalid-argument-type] + + +def estimate_simulation_duration( + rupture_context: RuptureContext, + bounding_box: BoundingBox, + faults: Iterable[sources.IsSource], +) -> float: + """Estimate the simulation duration required for a realisation in a given domain. + + The simulation distance is the length of time it + takes the S-waves to reach and pass the edge of the domain from + the centre of the fault(s). + + Parameters + ---------- + rupture_context : RuptureContext + The rupture context. + bounding_box : BoundingBox + The domain to estimate boundary distances for. + faults : Iterable[sources.IsSource] + The faults to estimate boundary distances for. + + Returns + ------- + float + The estimated simulation duration time (in seconds). + """ + largest_distance = boundary_distance(bounding_box, faults) + + significant_duration = get_significant_duration( + distance=largest_distance, + magnitude=rupture_context.magnitude, + vs30=rupture_context.vs30, + rake=rupture_context.rake, + z1pt0=rupture_context.z1pt0, + ) + + s_wave_arrival_time = largest_distance / rupture_context.s_wave_velocity + total_duration = s_wave_arrival_time + ( + significant_duration * rupture_context.ds_multiplier + ) + + return total_duration + + +def simulation_max_depth(magnitude: float, hypocentre_depth: float) -> float: """Estimate the maximum depth to simulate for a rupture. Parameters @@ -179,27 +317,10 @@ def get_max_depth(magnitude: float, hypocentre_depth: float) -> int: (0.5 * np.power(10, (0.55 * magnitude - 1.2)) / hypocentre_depth), 0.3 ) ), - 0, + ndigits=0, # like default rounding behaviour but returns a float. ) -def total_magnitude(magnitudes: npt.NDArray[np.float64]) -> float: - """ - Compute the total magnitude from an array of individual magnitudes. - - Parameters - ---------- - magnitudes : np.ndarray - An array of magnitudes. - - Returns - ------- - float - The total magnitude, computed from the summed moment of the input magnitudes. - """ - return mag_scaling.mom2mag(np.sum(mag_scaling.mag2mom(magnitudes))) - - def pgv_from_rrup( magnitude: float, rake: float, dip: float, rrup: float, ztor: float ) -> float: @@ -228,42 +349,43 @@ def pgv_from_rrup( import oq_wrapper as oqw vs30 = 500 # default Vs30 value + rupture_df = pd.DataFrame( + { + "mag": [magnitude], + "rake": [rake], + "vs30": [vs30], + "vs30measured": [False], + "dip": [dip], + "z1pt0": [oqw.estimations.chiou_young_08_calc_z1p0(vs30)], + # These calculations are done with a point-source + # assumption. We don't know where our test point is so + # estimating them from source geometry is impossible + # since rjb depends on polygon-distance measurements. + # We believe this is defensible for reasons: + # + # 1. At small Mw, we assume a point-source anyway so these calculations are essentially correct. + # 2. At large Mw, PGV of 0.1cm/s will occur sufficiently far from the event that a point-source approximation is reasonable. + "ztor": [ztor], + "rrup": [rrup], + "rjb": [np.sqrt(np.maximum(0, rrup**2 - ztor**2))], + # We want to include any hanging-wall terms in the model + # to err on the conservative side for our domains. In the + # other case, we risk shrinking our domains unnecessarily. + "rx": [rrup], + } + ) + return np.exp( oqw.run_gmm( oqw.constants.GMM.CY_14, oqw.constants.TectType.ACTIVE_SHALLOW, - pd.DataFrame( - { - "mag": [magnitude], - "rake": [rake], - "vs30": [vs30], - "vs30measured": [False], - "dip": [dip], - "z1pt0": [oqw.estimations.chiou_young_08_calc_z1p0(vs30)], - # These calculations are done with a point-source - # assumption. We don't know where our test point is so - # estimating them from source geometry is impossible - # since rjb depends on polygon-distance measurements. - # We believe this is defensible for reasons: - # - # 1. At small Mw, we assume a point-source anyway so these calculations are essentially correct. - # 2. At large Mw, PGV of 0.1cm/s will occur sufficiently far from the event that a point-source approximation is reasonable. - "ztor": [ztor], - "rrup": [rrup], - "rjb": [np.sqrt(np.maximum(0, rrup**2 - ztor**2))], - # We want to include any hanging-wall terms in the model - # to err on the conservative side for our domains. In the - # other case, we risk shrinking our domains unnecessarily. - "rx": [rrup], - } - ), + rupture_df, "PGV", )["PGV_mean"].iloc[0] ) -@log_utils.log_call() -def estimate_rrup( +def estimate_rrup_from_pgv( magnitude: float, rake: float, dip: float, ztor: float, pgv_target: float ) -> float: """ @@ -307,17 +429,15 @@ def estimate_rrup( ) -def find_rrup_bounding_polygon( +def find_rrup( fault: sources.IsSource, magnitude: float, rake: float, pgv_target: float, -) -> Polygon: - """Find the bounding polygon for the rrup distance of a fault. +) -> float: + """Find the rrup distance of a fault. - The bounding polygon is computed by estimating rrup from the PGV - target, and then applying an rrup-width buffer to the fault - geometries. + The rrup is estimated from the PGV target. Parameters ---------- @@ -332,8 +452,8 @@ def find_rrup_bounding_polygon( Returns ------- - Polygon - The bounding polygon over the rrup distance of the fault in the realisation. + float + The rrup distance of the fault in the realisation. """ if isinstance(fault, sources.Point): @@ -342,55 +462,48 @@ def find_rrup_bounding_polygon( else: ztor = fault.top_m ztor /= 1000.0 - rrup = estimate_rrup( + + rrup = estimate_rrup_from_pgv( magnitude, rake, fault.dip, + ztor, pgv_target, ) - logger = log_utils.get_logger(__name__) - logger.debug("computed rrup", rrups=rrup) - return shapely.buffer(fault.geometry, rrup * 1000) + return rrup * 1000 -K = TypeVar("K") - - -def dict_zip(*dicts: Mapping[K, Any], strict: bool = True) -> dict[K, tuple[Any, ...]]: - """ - Takes the product of one or more dictionaries. +def find_rrups( + source_config: SourceConfig, + magnitudes: Magnitudes, + rakes: Rakes, + pgv_target: float, +) -> dict[str, float]: + """Find rrups for all sources. Parameters ---------- - *dicts : list of dict - Variable number of dictionaries. - strict : bool, default False - If True, raise an error if the keys in `dicts` are not all the same. + source_config : SourceConfig + The sources to find rrups for. + magnitudes : Magnitudes + The magnitudes of the rupture on each source. + rakes : Rakes + The rake for each source. + pgv_target : float + The PGV target threshold Returns ------- - dict - A dictionary where each value is a tuple of the corresponding values from the input dictionaries. - - Raises - ------ - ValueError - If strict is True and the keys in the dictionaries are not all the same. + dict[str, float] + A key-value mapping of source name to rrup. """ - if not dicts: - return {} - - keys: set[K] = set(dicts[0].keys()) - - if strict and any(set(d) != keys for d in dicts[1:]): - raise ValueError("Keys in dictionaries are not all the same.") - else: - for dict in dicts[1:]: - keys = keys.intersection(dict.keys()) - - result = {key: tuple(d[key] for d in dicts) for key in list(keys)} - return result + return { + fault_name: find_rrup(fault, magnitude, rake, pgv_target) + for fault_name, (fault, magnitude, rake) in utils.dict_zip( + source_config.source_geometries, magnitudes.magnitudes, rakes.rakes + ).items() + } def pgv_target( @@ -411,21 +524,128 @@ def pgv_target( float The PGV target for the realisation. """ - total_magnitude = mag_scaling.mom2mag( - sum( - mag_scaling.mag2mom(magnitude) - for magnitude in magnitudes.magnitudes.values() - ) - ) + magnitude = total_magnitude(np.array(list(magnitudes.magnitudes.values()))) return float( np.interp( - total_magnitude, + magnitude, velocity_model_parameters.pgv_interpolants[:, 0], velocity_model_parameters.pgv_interpolants[:, 1], ) ) +def source_max_depth(faults: Iterable[sources.IsSource]) -> float: + """Find the max depth of the rupture sources. + + Parameters + ---------- + faults : Iterable[sources.IsSource] + The faults to find depths for. + + Returns + ------- + float + The maximum source depth of the rupture. + """ + depths: list[float] = [] + + for fault in faults: + if isinstance(fault, sources.Point): + # TODO: backport this into source modelling + bottom_m = fault.centroid[2] + fault.width_m / 2 * np.sin( + np.radians(fault.dip) + ) + else: + bottom_m = fault.bottom_m + depths.append(bottom_m) + + return max(depths) + + +def estimate_domain( + source_config: SourceConfig, + rrups: dict[str, float], + nz_outline: shapely.Geometry, +) -> BoundingBox: + """Estimate a domain for a rupture. + + Parameters + ---------- + source_config : SourceConfig + The sources in the rupture. + rrups : dict[str, float] + The rrups for each source. + nz_outline : Geometry + The NZ outline polygon. + + Returns + ------- + BoundingBox + The smallest domain containing the sources that encompasses + all areas with PGV estimated near the PGV target. + """ + # This polygon includes all the faults corners + a 2km buffer (which must be in the simulation domain). + + fault_buffer_polygons = [ + shapely.buffer(fault.geometry, 2000) + for fault in source_config.source_geometries.values() + ] + + rrup_bounding_polygons = [ + shapely.buffer(fault.geometry, rrup) + for fault, rrup in utils.dict_zip( + source_config.source_geometries, rrups + ).values() + ] + + # The domain is the minimum area bounding box containing all of + # the fault corners, and all points on land within rrup distance + # of a fault corner. + model_domain = bounding_box.minimum_area_bounding_box_for_polygons_masked( + must_include=fault_buffer_polygons, + may_include=rrup_bounding_polygons, + mask=nz_outline, # type: ignore[invalid-argument-type] + ) + return model_domain + + +def domain_max_depth( + source_config: SourceConfig, + rupture_propagation_config: RupturePropagationConfig, + magnitudes: Magnitudes, +) -> float: + """Estimate the maximum reasonable simulation depth. + + Parameters + ---------- + source_config : SourceConfig + The faults in the rupture. + rupture_propagation_config : RupturePropagationConfig + The rupture propagation information. + magnitudes : Magnitudes + The magnitudes of each rupture. + + Returns + ------- + float + The estimated maximum reasonable simulation depth. + """ + initial_fault = source_config.source_geometries[ + rupture_propagation_config.initial_fault + ] + hypocentre = initial_fault.fault_coordinates_to_wgs_depth_coordinates( + rupture_propagation_config.hypocentre + ) + hypocentre_depth = hypocentre[-1] + magnitude = total_magnitude(magnitudes.magnitudes.values()) + + return max( + source_max_depth(source_config.source_geometries.values()) + + 10.0, # plus 10km for the buffer. + simulation_max_depth(magnitude, hypocentre_depth), + ) + + def generate_domain( source_config: SourceConfig, rupture_propagation: RupturePropagationConfig, @@ -458,59 +678,21 @@ def generate_domain( An object containing the computed model domain (bounding box), the maximum simulation depth, and the estimated simulation duration. """ - rupture_magnitude = total_magnitude(np.array(list(magnitudes.magnitudes.values()))) - realisation_pgv_target = pgv_target(magnitudes, velocity_model_parameters) - - initial_fault = source_config.source_geometries[rupture_propagation.initial_fault] - if isinstance(initial_fault, sources.Point): - # TODO: backport this into source modelling - bottom_m = initial_fault.centroid[2] + initial_fault.width_m / 2 * np.sin( - np.radians(initial_fault.dip) - ) - else: - bottom_m = initial_fault.bottom_m - max_depth = get_max_depth(rupture_magnitude, bottom_m / 1000.0) - - # This polygon includes all the faults corners + a 2km buffer (which must be in the simulation domain). - fault_buffer_polygons = [ - shapely.buffer(fault.geometry, 2000) - for fault in source_config.source_geometries.values() - ] - # This polygon includes all areas within rrup distance of any - # corner in the source geometries. - # These may be in the domain where they are over land. - rrup_bounding_polygons = [ - # The type error about existing assignment seems to be a bug. - find_rrup_bounding_polygon(*args, pgv_target=realisation_pgv_target) # type: ignore - for args in dict_zip( - source_config.source_geometries, - magnitudes.magnitudes, - rakes.rakes, - ).values() - ] - # The domain is the minimum area bounding box containing all of - # the fault corners, and all points on land within rrup distance - # of a fault corner. - model_domain = bounding_box.minimum_area_bounding_box_for_polygons_masked( - must_include=fault_buffer_polygons, - may_include=rrup_bounding_polygons, - mask=utils.get_nz_outline_polygon(), # type: ignore - ) + rupture_context = rupture_context_from(magnitudes, rakes, velocity_model_parameters) + realisation_pgv_target = pgv_target(magnitudes, velocity_model_parameters) + rrups = find_rrups(source_config, magnitudes, rakes, realisation_pgv_target) + nz_outline = utils.get_nz_outline_polygon() + model_domain = estimate_domain(source_config, rrups, nz_outline) sim_duration = estimate_simulation_duration( - model_domain, - rupture_magnitude, - list(source_config.source_geometries.values()), - np.fromiter(rakes.rakes.values(), float), - velocity_model_parameters.ds_multiplier, - velocity_model_parameters.vs30, - velocity_model_parameters.s_wave_velocity, + rupture_context, model_domain, source_config.source_geometries.values() ) + depth = domain_max_depth(source_config, rupture_propagation, magnitudes) domain_parameters = DomainParameters( domain=model_domain, - depth=max_depth, + depth=depth, duration=sim_duration, ) return domain_parameters diff --git a/workflow/utils.py b/workflow/utils.py index 0b919845..3b146363 100644 --- a/workflow/utils.py +++ b/workflow/utils.py @@ -3,6 +3,8 @@ import os import tempfile import urllib.request +from collections.abc import Mapping +from typing import Any, TypeVar, overload import geopandas as gpd import numpy as np @@ -101,3 +103,74 @@ def get_available_cores() -> int: return cpu_count else: raise RuntimeError("Cannot determine CPU count.") + + +K = TypeVar("K") +V1 = TypeVar("V1") +V2 = TypeVar("V2") +V3 = TypeVar("V3") + + +# These overloads provide better type inference in the common case +@overload +def dict_zip( + __d1: Mapping[K, V1], *, strict: bool = ... +) -> dict[K, tuple[V1]]: ... # numpydoc ignore=GL08 + + +@overload +def dict_zip( + __d1: Mapping[K, V1], __d2: Mapping[K, V2], *, strict: bool = ... +) -> dict[K, tuple[V1, V2]]: ... # numpydoc ignore=GL08 + + +@overload +def dict_zip( + __d1: Mapping[K, V1], + __d2: Mapping[K, V2], + __d3: Mapping[K, V3], + *, + strict: bool = True, +) -> dict[K, tuple[V1, V2, V3]]: ... # numpydoc ignore=GL08 + + +@overload +def dict_zip( + *dicts: Mapping[K, Any], strict: bool = ... +) -> dict[K, tuple[Any, ...]]: ... # numpydoc ignore=GL08 + + +def dict_zip(*dicts: Mapping[K, Any], strict: bool = True) -> dict[K, tuple[Any, ...]]: + """ + Takes the product of one or more dictionaries. + + Parameters + ---------- + *dicts : list of dict + Variable number of dictionaries. + strict : bool, default False + If True, raise an error if the keys in `dicts` are not all the same. + + Returns + ------- + dict + A dictionary where each value is a tuple of the corresponding values from the input dictionaries. + + Raises + ------ + ValueError + If strict is True and the keys in the dictionaries are not all the same. + """ + if not dicts: + return {} + + keys: set[K] = set(dicts[0].keys()) + + if strict and any(set(d) != keys for d in dicts[1:]): + raise ValueError("Keys in dictionaries are not all the same.") + else: + for dict in dicts[1:]: + keys = keys.intersection(dict.keys()) + + result = {key: tuple(d[key] for d in dicts) for key in list(keys)} + return result From 7551ff90ba897600ccf86debc77b17f117d2c81a Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 13:51:47 +1300 Subject: [PATCH 06/24] deps: hard pin numba >= 0.63.0 for now --- pyproject.toml | 1 + 1 file changed, 1 insertion(+) diff --git a/pyproject.toml b/pyproject.toml index dd27f3ca..4455e323 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -29,6 +29,7 @@ dependencies = [ "pyvis", # Numerics "numexpr", + "numba>=0.63.0" "numpy", "scipy", "shapely", From 3061291de29b01788f86601b2a0f9ff59f4e5629 Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 13:52:25 +1300 Subject: [PATCH 07/24] fix: pyproject missing comma --- pyproject.toml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/pyproject.toml b/pyproject.toml index 4455e323..fce3f6ee 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -29,7 +29,7 @@ dependencies = [ "pyvis", # Numerics "numexpr", - "numba>=0.63.0" + "numba>=0.63.0", "numpy", "scipy", "shapely", From 3590cb22b21d27187c575e43366fb05c4db10024 Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 14:02:45 +1300 Subject: [PATCH 08/24] tests(cli): refactor to not require explicitly listing all modules --- tests/test_cli.py | 105 ++++++++++++++++++++++------------------------ 1 file changed, 51 insertions(+), 54 deletions(-) diff --git a/tests/test_cli.py b/tests/test_cli.py index 066f8956..19d51e62 100644 --- a/tests/test_cli.py +++ b/tests/test_cli.py @@ -1,62 +1,59 @@ -from collections.abc import Callable +import importlib +import pkgutil +from types import ModuleType -import pytest +from pytest import Metafunc from typer import Typer from typer.testing import CliRunner -from workflow.scripts import ( - bb_sim, - check_domain, - check_srf, - copy_velocity_model_parameters, - create_e3d_par, - gcmt_auto_simulate, - gcmt_to_realisation, - generate_rupture_propagation, - generate_station_coordinates, - generate_stoch, - generate_velocity_model, - generate_velocity_model_parameters, - hf_sim, - im_calc, - import_realisation, - lf_to_xarray, - nshm2022_to_realisation, - plan_workflow, - realisation_to_srf, -) - - -@pytest.mark.parametrize( - "script", - [ - bb_sim, - check_domain, - check_srf, - copy_velocity_model_parameters, - create_e3d_par, - gcmt_auto_simulate, - gcmt_to_realisation, - generate_rupture_propagation, - generate_station_coordinates, - generate_stoch, - generate_velocity_model, - generate_velocity_model_parameters, - lf_to_xarray, - hf_sim, - im_calc, - import_realisation, - nshm2022_to_realisation, - plan_workflow, - realisation_to_srf, - ], -) -def test_invocation_of_script(script: Callable) -> None: - """Basic check that the scripts can be invoked.""" +import workflow.scripts as scripts_package + +EXCLUDE_MODULES = {"merge_ts_loop"} + + +def collect_script_modules() -> list[ModuleType]: + """ + Dynamically discovers all modules within the workflow.scripts package. + """ + modules = [] + # Iterates through all modules in the package directory + for loader, module_name, is_pkg in pkgutil.iter_modules(scripts_package.__path__): + if module_name in EXCLUDE_MODULES: + continue + + # Construct full module path (e.g., workflow.scripts.bb_sim) + full_module_name = f"{scripts_package.__name__}.{module_name}" + module = importlib.import_module(full_module_name) + modules.append(module) + return modules + + +def pytest_generate_tests(metafunc: Metafunc) -> None: + """ + Generate tests dynamically based on discovered modules. + """ + if "script_module" in metafunc.fixturenames: + found_modules = collect_script_modules() + # Create readable IDs from the module names (e.g., 'bb_sim') + ids = [m.__name__.split(".")[-1] for m in found_modules] + metafunc.parametrize("script_module", found_modules, ids=ids) + + +def test_invocation_of_script(script_module: ModuleType) -> None: + """ + Test that each discovered module has a Typer app and responds to --help. + """ runner = CliRunner() - # The following satisifies the type checker. - app = getattr(script, "app", None) - assert isinstance(app, Typer) + + assert hasattr(script_module, "app"), ( + f"Module {script_module.__name__} is missing the 'app' attribute." + ) + + app = getattr(script_module, "app") + + assert isinstance(app, Typer), ( + f"'app' in {script_module.__name__} should be a Typer instance, but got {type(app)}." + ) result = runner.invoke(app, ["--help"]) assert result.exit_code == 0 From b21b022de1f61b1ad8be3881cb1946c3b37b7a97 Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 14:06:12 +1300 Subject: [PATCH 09/24] fix(generate_domain): unit convetions Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> Co-authored-by: gemini-code-assist[bot] <176961590+gemini-code-assist[bot]@users.noreply.github.com> --- workflow/scripts/generate_domain.py | 24 ++++++++++++------------ 1 file changed, 12 insertions(+), 12 deletions(-) diff --git a/workflow/scripts/generate_domain.py b/workflow/scripts/generate_domain.py index 5f81d7eb..dbd60ba7 100644 --- a/workflow/scripts/generate_domain.py +++ b/workflow/scripts/generate_domain.py @@ -15,15 +15,15 @@ Environment ----------- -Can be run in the cybershake container. Can also be run from your own computer using the `generate-velocity-model-parameters` command which is installed after running `pip install workflow@git+https://github.com/ucgmsim/workflow`. +Can be run in the cybershake container. Can also be run from your own computer using the `generate-domain` command which is installed after running `pip install workflow@git+https://github.com/ucgmsim/workflow`. Usage ----- -`generate-velocity-model-parameters [OPTIONS] REALISATION_FFP` +`generate-domain [OPTIONS] REALISATION_FFP` For More Help ------------- -See the output of `generate-velocity-model-parameters --help` or `workflow.scripts.generate_velocity_model_parameters`. +See the output of `generate-domain --help` or `workflow.scripts.generate_domain`. """ from collections.abc import Iterable @@ -65,7 +65,7 @@ def get_significant_duration( magnitude : float The magnitude of the rupture. distance : float - The distance to estimate Ds595 for. + The rupture distance (rrup) in kilometers to estimate Ds595 for. vs30 : float The Vs30 value at the site. rake : float @@ -124,12 +124,12 @@ def boundary_distance( Returns ------- float - The hausdorff distance between the sources and the boundary. + The Hausdorff distance between the sources and the boundary (in meters). """ source_geometry = shapely.union_all([source.geometry for source in sources]) bounding_box_geometry = domain.polygon - return float(shapely.hausdorff_distance(source_geometry, bounding_box_geometry)) + return shapely.hausdorff_distance(source_geometry, bounding_box_geometry) def total_magnitude(magnitudes: Iterable[float]) -> float: @@ -138,7 +138,7 @@ def total_magnitude(magnitudes: Iterable[float]) -> float: Parameters ---------- - magnitudes : np.ndarray + magnitudes : Iterable[float] An array of magnitudes. Returns @@ -413,9 +413,9 @@ def estimate_rrup_from_pgv( Examples -------- >>> # Estimate the rupture radius for a 7.5 magnitude earthquake - >>> # with a rake of 90 degrees, a dip of 45 degrees, and a target - >>> # PGV of 10 cm/s. - >>> estimate_rrup(7.5, 90, 45, 10) + >>> # with a rake of 90 degrees, a dip of 45 degrees, a depth to + >>> # the top of rupture (ztor) of 5 km, and a target PGV of 10 cm/s. + >>> estimate_rrup_from_pgv(7.5, 90, 45, 5.0, 10) 60.86630588572306 """ return float( @@ -545,7 +545,7 @@ def source_max_depth(faults: Iterable[sources.IsSource]) -> float: Returns ------- float - The maximum source depth of the rupture. + The maximum source depth of the rupture, in meters. """ depths: list[float] = [] @@ -628,7 +628,7 @@ def domain_max_depth( Returns ------- float - The estimated maximum reasonable simulation depth. + The estimated maximum reasonable simulation depth, in kilometers. """ initial_fault = source_config.source_geometries[ rupture_propagation_config.initial_fault From 0d7f483e5eb33ee526c1bb9d2b55b0b34ce3179a Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 14:07:16 +1300 Subject: [PATCH 10/24] refactor(generate_domain): fix parameter name and usage in average_rake --- workflow/scripts/generate_domain.py | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/workflow/scripts/generate_domain.py b/workflow/scripts/generate_domain.py index 5f81d7eb..849f2a46 100644 --- a/workflow/scripts/generate_domain.py +++ b/workflow/scripts/generate_domain.py @@ -218,14 +218,14 @@ def rupture_context_from( ) -def average_rake(rakes: Rakes, magnitude: Magnitudes) -> float: +def average_rake(rakes: Rakes, magnitudes: Magnitudes) -> float: """Find moment-weighted average rupture rake. Parameters ---------- rakes : Rakes The rakes to average. - magnitude : Magnitudes + magnitudes : Magnitudes The magnitudes to weight rakes by. Returns @@ -235,7 +235,7 @@ def average_rake(rakes: Rakes, magnitude: Magnitudes) -> float: """ moments = { k: moment.magnitude_to_moment(magnitude) - for k, magnitude in magnitude.magnitudes.items() + for k, magnitude in magnitudes.magnitudes.items() } max_moment = max(moments.values()) # re-normalise for debugging purposes and to maybe improve From befe590068e2acdc7d518ed1033e62f112eba875 Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 14:11:22 +1300 Subject: [PATCH 11/24] fix(utils): minor type and documentation typos Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> --- workflow/utils.py | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/workflow/utils.py b/workflow/utils.py index 3b146363..6dd00f5c 100644 --- a/workflow/utils.py +++ b/workflow/utils.py @@ -130,7 +130,7 @@ def dict_zip( __d2: Mapping[K, V2], __d3: Mapping[K, V3], *, - strict: bool = True, + strict: bool = ..., ) -> dict[K, tuple[V1, V2, V3]]: ... # numpydoc ignore=GL08 @@ -148,7 +148,7 @@ def dict_zip(*dicts: Mapping[K, Any], strict: bool = True) -> dict[K, tuple[Any, ---------- *dicts : list of dict Variable number of dictionaries. - strict : bool, default False + strict : bool, default True If True, raise an error if the keys in `dicts` are not all the same. Returns @@ -169,8 +169,8 @@ def dict_zip(*dicts: Mapping[K, Any], strict: bool = True) -> dict[K, tuple[Any, if strict and any(set(d) != keys for d in dicts[1:]): raise ValueError("Keys in dictionaries are not all the same.") else: - for dict in dicts[1:]: - keys = keys.intersection(dict.keys()) + for d in dicts[1:]: + keys = keys.intersection(d.keys()) result = {key: tuple(d[key] for d in dicts) for key in list(keys)} return result From bc1257541903a6bd860e4fbc7e042cfc16821ed4 Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 14:12:46 +1300 Subject: [PATCH 12/24] fix(generate_domain): catch some more unit conversions --- workflow/scripts/generate_domain.py | 10 ++++------ 1 file changed, 4 insertions(+), 6 deletions(-) diff --git a/workflow/scripts/generate_domain.py b/workflow/scripts/generate_domain.py index e0c62a1f..721d0eff 100644 --- a/workflow/scripts/generate_domain.py +++ b/workflow/scripts/generate_domain.py @@ -120,16 +120,14 @@ def boundary_distance( sources : Iterable[sources.IsSource] The sources to compute the boundary distance for. - Returns ------- float The Hausdorff distance between the sources and the boundary (in meters). - """ source_geometry = shapely.union_all([source.geometry for source in sources]) bounding_box_geometry = domain.polygon - return shapely.hausdorff_distance(source_geometry, bounding_box_geometry) + return float(shapely.hausdorff_distance(source_geometry, bounding_box_geometry)) def total_magnitude(magnitudes: Iterable[float]) -> float: @@ -274,7 +272,7 @@ def estimate_simulation_duration( largest_distance = boundary_distance(bounding_box, faults) significant_duration = get_significant_duration( - distance=largest_distance, + distance=largest_distance / 1000.0, magnitude=rupture_context.magnitude, vs30=rupture_context.vs30, rake=rupture_context.rake, @@ -524,7 +522,7 @@ def pgv_target( float The PGV target for the realisation. """ - magnitude = total_magnitude(np.array(list(magnitudes.magnitudes.values()))) + magnitude = total_magnitude(magnitudes.magnitudes.values()) return float( np.interp( magnitude, @@ -641,7 +639,7 @@ def domain_max_depth( return max( source_max_depth(source_config.source_geometries.values()) - + 10.0, # plus 10km for the buffer. + + 10.0 * 1000.0, # plus 10km for the buffer. simulation_max_depth(magnitude, hypocentre_depth), ) From 4de6bafdff71e379c8773bd347332bfccfaf5a38 Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 14:58:40 +1300 Subject: [PATCH 13/24] tests(generate_domain): add missing tests --- tests/test_generate_domain.py | 117 ++++++++++++++++++++++++++++++++++ 1 file changed, 117 insertions(+) create mode 100644 tests/test_generate_domain.py diff --git a/tests/test_generate_domain.py b/tests/test_generate_domain.py new file mode 100644 index 00000000..0bedab5b --- /dev/null +++ b/tests/test_generate_domain.py @@ -0,0 +1,117 @@ +from types import SimpleNamespace + +import numpy as np +import pytest +import shapely +from hypothesis import given +from hypothesis import strategies as st + +from source_modelling import sources +from workflow.realisations import ( + Magnitudes, + Rakes, + RupturePropagationConfig, + SourceConfig, + VelocityModelParameters, +) +from workflow.scripts import generate_domain + + +# Slow because of openquake import +@pytest.mark.slow +def test_significant_duration_calculation() -> None: + """Basic integration test for OQW, tests that the interface works as we expect still.""" + ds595 = generate_domain.get_significant_duration( + magnitude=6.5, distance=100.0, vs30=500.0, rake=180.0, z1pt0=5.0 + ) + assert isinstance(ds595, float) # Should not be lying about the type + assert np.isfinite(ds595), "Ds595 is invalid" + # Check that ds595 is not in log-space or similar + assert ds595 > 0, "Ds595 should be positive" + assert ds595 < 1000, "Ds595 unrealistically high" + # Combined with type checking this should be enough to catch most of these problems. + + +def test_simulation_max_depth_increases_with_mw() -> None: + depth_mw5p0 = generate_domain.simulation_max_depth(magnitude=5.0, bottom_depth=10.0) + depth_mw7p0 = generate_domain.simulation_max_depth(magnitude=6.0, bottom_depth=10.0) + depth_mw9p0 = generate_domain.simulation_max_depth(magnitude=9.0, bottom_depth=10.0) + assert depth_mw5p0 < depth_mw7p0 < depth_mw9p0, ( + "Depths do not increase with magnitude" + ) + + +@given( + magnitude=st.floats(min_value=3.5, max_value=9.0), + depth=st.floats(min_value=1.0, max_value=250), +) +def test_simulation_max_depth_more_than_bottom_depth( + magnitude: float, depth: float +) -> None: + simulation_depth = generate_domain.simulation_max_depth(magnitude, depth) + assert np.isfinite(simulation_depth), "Invalid simulation depth" + assert depth <= simulation_depth <= 350, "Sensible simulation depths are applied" + + +def test_estimate_domain_contains_fault_geometry() -> None: + fault_coords = [(100000, 100000), (110000, 100000)] + fault_geom = shapely.LineString(fault_coords) + + mock_fault = SimpleNamespace(geometry=fault_geom) + source_config = SimpleNamespace(source_geometries={"fault_a": mock_fault}) + + rrups = {"fault_a": 5000.0} + + nz_outline = shapely.box(0, 0, 500000, 500000) + + result_domain = generate_domain.estimate_domain( + source_config=source_config, # type: ignore[invalid-argument-type] + rrups=rrups, + nz_outline=nz_outline, + ) + + assert result_domain.polygon.contains(fault_geom), ( + f"Domain polygon should contain the original fault geometry.\n" + f"Fault bounds: {fault_geom.bounds}\n" + f"Domain bounds: {result_domain.polygon.bounds}" + ) + + +# Slow because of openquake import +@pytest.mark.slow +def test_generate_domain() -> None: + """Basic E2E test to check that domain generation works without crashing or producing a silly domain.""" + source = sources.Point( + np.array([-43.0, -172.0, 10000.0]), + length_m=1000, + width_m=1000, + strike=90.0, + dip=45.0, + dip_dir=180.0, + ) + source_config = SourceConfig(dict(source=source)) + rupture_propagation_config = RupturePropagationConfig( + hypocentre=np.array([0.5, 0.5]), + rupture_causality_tree=dict(source=None), + jump_points={}, + ) + magnitudes = Magnitudes(dict(source=6.0)) + rakes = Rakes(dict(source=180.0)) + + velocity_model_parameters = VelocityModelParameters( + min_vs=500.0, + version="2.09", + topo_type="BULLDOZED", + ds_multiplier=1.2, + vs30=500.0, + s_wave_velocity=3500, + rrup_interpolants=np.array([[5.0, 8.0], [50.0, 50.0]]), + ) + domain_parameters = generate_domain.generate_domain( + source_config, + rupture_propagation_config, + magnitudes, + rakes, + velocity_model_parameters, + ) + assert shapely.contains(domain_parameters.domain.polygon, source.geometry) From 548d56cfbe530edf2c2db4a22c4d49f253df6e4f Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 15:19:10 +1300 Subject: [PATCH 14/24] refactor(defaults): use Felipe's default rrup interpolants --- .../default_parameters/develop/defaults.yaml | 66 ++++++++++++++++++- .../v24_2_2_1/defaults.yaml | 66 ++++++++++++++++++- .../v24_2_2_2/defaults.yaml | 66 ++++++++++++++++++- .../v24_2_2_4/defaults.yaml | 66 ++++++++++++++++++- 4 files changed, 260 insertions(+), 4 deletions(-) diff --git a/workflow/default_parameters/develop/defaults.yaml b/workflow/default_parameters/develop/defaults.yaml index a2364e5b..36ffef5c 100644 --- a/workflow/default_parameters/develop/defaults.yaml +++ b/workflow/default_parameters/develop/defaults.yaml @@ -118,7 +118,71 @@ velocity_model: topo_type: "SQUASHED_TAPERED" vs30: 500.0 s_wave_velocity: 3500.0 - rrup_interpolants: [[]] + rrup_interpolants: + [ + [ + 3.5, + 3.6, + 3.7, + 3.8, + 3.9, + 4., + 4.1, + 4.2, + 4.3, + 4.4, + 4.5, + 4.6, + 4.7, + 4.8, + 4.9, + 5., + 5.1, + 5.2, + 5.3, + 5.4, + 5.5, + 5.6, + 5.7, + 5.8, + 6., + 6.5, + 7., + 7.5, + 8., + ], + [ + 96.001584, + 95.96318337, + 98., + 102., + 108.02690269, + 114.86856676, + 123.44523863, + 128.68959965, + 134.58683383, + 145.68111725, + 157.68992642, + 170.68864766, + 188.45405921, + 192.22314039, + 203.98873437, + 216.47447683, + 233.19667576, + 248.66112894, + 258.19003824, + 268.72840715, + 280.03281854, + 297.1730673, + 300., + 300., + 300., + 300., + 300., + 300., + 300., + ], + ] velocity_model_1d: model: - thickness: 0.0500 diff --git a/workflow/default_parameters/v24_2_2_1/defaults.yaml b/workflow/default_parameters/v24_2_2_1/defaults.yaml index bb343774..46b4a06f 100644 --- a/workflow/default_parameters/v24_2_2_1/defaults.yaml +++ b/workflow/default_parameters/v24_2_2_1/defaults.yaml @@ -118,7 +118,71 @@ velocity_model: topo_type: "SQUASHED_TAPERED" vs30: 500.0 s_wave_velocity: 3500.0 - rrup_interpolants: [[]] + rrup_interpolants: + [ + [ + 3.5, + 3.6, + 3.7, + 3.8, + 3.9, + 4., + 4.1, + 4.2, + 4.3, + 4.4, + 4.5, + 4.6, + 4.7, + 4.8, + 4.9, + 5., + 5.1, + 5.2, + 5.3, + 5.4, + 5.5, + 5.6, + 5.7, + 5.8, + 6., + 6.5, + 7., + 7.5, + 8., + ], + [ + 96.001584, + 95.96318337, + 98., + 102., + 108.02690269, + 114.86856676, + 123.44523863, + 128.68959965, + 134.58683383, + 145.68111725, + 157.68992642, + 170.68864766, + 188.45405921, + 192.22314039, + 203.98873437, + 216.47447683, + 233.19667576, + 248.66112894, + 258.19003824, + 268.72840715, + 280.03281854, + 297.1730673, + 300., + 300., + 300., + 300., + 300., + 300., + 300., + ], + ] velocity_model_1d: model: - thickness: 0.0500 diff --git a/workflow/default_parameters/v24_2_2_2/defaults.yaml b/workflow/default_parameters/v24_2_2_2/defaults.yaml index a9ba9906..193dac78 100644 --- a/workflow/default_parameters/v24_2_2_2/defaults.yaml +++ b/workflow/default_parameters/v24_2_2_2/defaults.yaml @@ -118,7 +118,71 @@ velocity_model: topo_type: "SQUASHED_TAPERED" vs30: 500.0 s_wave_velocity: 3500.0 - rrup_interpolants: [[]] + rrup_interpolants: + [ + [ + 3.5, + 3.6, + 3.7, + 3.8, + 3.9, + 4., + 4.1, + 4.2, + 4.3, + 4.4, + 4.5, + 4.6, + 4.7, + 4.8, + 4.9, + 5., + 5.1, + 5.2, + 5.3, + 5.4, + 5.5, + 5.6, + 5.7, + 5.8, + 6., + 6.5, + 7., + 7.5, + 8., + ], + [ + 96.001584, + 95.96318337, + 98., + 102., + 108.02690269, + 114.86856676, + 123.44523863, + 128.68959965, + 134.58683383, + 145.68111725, + 157.68992642, + 170.68864766, + 188.45405921, + 192.22314039, + 203.98873437, + 216.47447683, + 233.19667576, + 248.66112894, + 258.19003824, + 268.72840715, + 280.03281854, + 297.1730673, + 300., + 300., + 300., + 300., + 300., + 300., + 300., + ], + ] bb: flo: 0.5 fmidbot: 0.5 diff --git a/workflow/default_parameters/v24_2_2_4/defaults.yaml b/workflow/default_parameters/v24_2_2_4/defaults.yaml index a2364e5b..36ffef5c 100644 --- a/workflow/default_parameters/v24_2_2_4/defaults.yaml +++ b/workflow/default_parameters/v24_2_2_4/defaults.yaml @@ -118,7 +118,71 @@ velocity_model: topo_type: "SQUASHED_TAPERED" vs30: 500.0 s_wave_velocity: 3500.0 - rrup_interpolants: [[]] + rrup_interpolants: + [ + [ + 3.5, + 3.6, + 3.7, + 3.8, + 3.9, + 4., + 4.1, + 4.2, + 4.3, + 4.4, + 4.5, + 4.6, + 4.7, + 4.8, + 4.9, + 5., + 5.1, + 5.2, + 5.3, + 5.4, + 5.5, + 5.6, + 5.7, + 5.8, + 6., + 6.5, + 7., + 7.5, + 8., + ], + [ + 96.001584, + 95.96318337, + 98., + 102., + 108.02690269, + 114.86856676, + 123.44523863, + 128.68959965, + 134.58683383, + 145.68111725, + 157.68992642, + 170.68864766, + 188.45405921, + 192.22314039, + 203.98873437, + 216.47447683, + 233.19667576, + 248.66112894, + 258.19003824, + 268.72840715, + 280.03281854, + 297.1730673, + 300., + 300., + 300., + 300., + 300., + 300., + 300., + ], + ] velocity_model_1d: model: - thickness: 0.0500 From 6fc75833ee0d38b8cb5c1e1e63a3166ceb218b94 Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 15:26:02 +1300 Subject: [PATCH 15/24] docs(generate_domain): update domain docstring Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> --- workflow/scripts/generate_domain.py | 9 +++++---- 1 file changed, 5 insertions(+), 4 deletions(-) diff --git a/workflow/scripts/generate_domain.py b/workflow/scripts/generate_domain.py index 4aa1b8c7..fa8b2327 100644 --- a/workflow/scripts/generate_domain.py +++ b/workflow/scripts/generate_domain.py @@ -557,20 +557,21 @@ def generate_domain( def generate_domain_from_realisation( realisation_ffp: Annotated[Path, typer.Argument()], ) -> None: - """Generate velocity model parameters for a given realisation file. + """Generate domain parameters for a given realisation file. - This function reads the source and rupture propagation information and computes: + This function reads the source, rupture propagation, and velocity model + information and computes: 1. The size of the simulation domain, 2. The simulation duration. - Both of these values are written to the realisation using `VelocityModelParameters`. + Both of these values are written to the realisation using `DomainParameters`. Parameters ---------- realisation_ffp : Path The path to the realisation file from which to read configurations and to which - the generated velocity model parameters will be written. + the generated domain parameters will be written. Returns ------- From 474f534b19dfb4988e9bae104292ea3aa199e3af Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 15:26:39 +1300 Subject: [PATCH 16/24] fix(generate_domain): PR comments --- tests/test_generate_domain.py | 7 ------- workflow/scripts/generate_domain.py | 18 +++++------------- 2 files changed, 5 insertions(+), 20 deletions(-) diff --git a/tests/test_generate_domain.py b/tests/test_generate_domain.py index 0bedab5b..2598f365 100644 --- a/tests/test_generate_domain.py +++ b/tests/test_generate_domain.py @@ -10,7 +10,6 @@ from workflow.realisations import ( Magnitudes, Rakes, - RupturePropagationConfig, SourceConfig, VelocityModelParameters, ) @@ -90,11 +89,6 @@ def test_generate_domain() -> None: dip_dir=180.0, ) source_config = SourceConfig(dict(source=source)) - rupture_propagation_config = RupturePropagationConfig( - hypocentre=np.array([0.5, 0.5]), - rupture_causality_tree=dict(source=None), - jump_points={}, - ) magnitudes = Magnitudes(dict(source=6.0)) rakes = Rakes(dict(source=180.0)) @@ -109,7 +103,6 @@ def test_generate_domain() -> None: ) domain_parameters = generate_domain.generate_domain( source_config, - rupture_propagation_config, magnitudes, rakes, velocity_model_parameters, diff --git a/workflow/scripts/generate_domain.py b/workflow/scripts/generate_domain.py index 4aa1b8c7..14459122 100644 --- a/workflow/scripts/generate_domain.py +++ b/workflow/scripts/generate_domain.py @@ -47,7 +47,6 @@ Magnitudes, Rakes, RealisationMetadata, - RupturePropagationConfig, SourceConfig, VelocityModelParameters, ) @@ -337,7 +336,7 @@ def estimate_r_surface( Returns ------- float - The estimated rupture radius (in km). + The estimated rupture radius (in metres). """ rrup = float(np.interp(magnitude, rrup_interpolants[0], rrup_interpolants[1])) @@ -359,7 +358,7 @@ def fault_top(fault: sources.IsSource) -> float: Returns ------- float - The top-depth of the rupture. + The top-depth of the rupture in km. """ if isinstance(fault, sources.Point): # TODO: backport this into source modelling @@ -493,15 +492,14 @@ def domain_max_depth( float The estimated maximum reasonable simulation depth, in kilometers. """ - max_depth = source_max_depth(source_config.source_geometries.values()) + max_depth_km = source_max_depth(source_config.source_geometries.values()) / 1000 magnitude = total_magnitude(magnitudes.magnitudes.values()) - return simulation_max_depth(magnitude, max_depth) + return simulation_max_depth(magnitude, max_depth_km) def generate_domain( source_config: SourceConfig, - rupture_propagation: RupturePropagationConfig, magnitudes: Magnitudes, rakes: Rakes, velocity_model_parameters: VelocityModelParameters, @@ -514,9 +512,6 @@ def generate_domain( source_config : SourceConfig Configuration containing the geometries for all faults involved in the realisation. - rupture_propagation : RupturePropagationConfig - Configuration defining the propagation characteristics, including the - identification of the initial fault. magnitudes : Magnitudes The magnitudes associated with each source in the realisation. rakes : Rakes @@ -586,13 +581,10 @@ def generate_domain_from_realisation( ) ) - rupture_propagation = RupturePropagationConfig.read_from_realisation( - realisation_ffp - ) magnitudes = Magnitudes.read_from_realisation(realisation_ffp) rakes = Rakes.read_from_realisation(realisation_ffp) domain_parameters = generate_domain( - source_config, rupture_propagation, magnitudes, rakes, velocity_model_parameters + source_config, magnitudes, rakes, velocity_model_parameters ) domain_parameters.write_to_realisation(realisation_ffp) realisations.append_log_entry(realisation_ffp) From ae7d13cc3432a0fc8f1c002a44f257274295fe57 Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 15:39:26 +1300 Subject: [PATCH 17/24] fix: PR suggestions Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> --- workflow/scripts/generate_domain.py | 19 +++++++++++-------- workflow/utils.py | 2 +- 2 files changed, 12 insertions(+), 9 deletions(-) diff --git a/workflow/scripts/generate_domain.py b/workflow/scripts/generate_domain.py index 5b54a726..3bdcdcec 100644 --- a/workflow/scripts/generate_domain.py +++ b/workflow/scripts/generate_domain.py @@ -250,7 +250,7 @@ def estimate_simulation_duration( ) -> float: """Estimate the simulation duration required for a realisation in a given domain. - The simulation distance is the length of time it + The simulation duration is the length of time it takes the S-waves to reach and pass the edge of the domain from the centre of the fault(s). @@ -294,7 +294,7 @@ def simulation_max_depth(magnitude: float, bottom_depth: float) -> float: magnitude : float The magnitude of the rupture. bottom_depth : float - bottom depth (in km). + Bottom depth (in km). Returns ------- @@ -327,21 +327,24 @@ def estimate_r_surface( Parameters ---------- rrup_interpolants : array of floats - The rrup function of magnitude. + A 2D array where the first row contains magnitude values and the second + row contains the corresponding rrup values (in km). magnitude : float The magnitude of the rupture. ztor : float - The distance to top-depth. + The depth to the top of the rupture plane (in km). Returns ------- float - The estimated rupture radius (in metres). + The estimated horizontal surface distance (in metres). """ rrup = float(np.interp(magnitude, rrup_interpolants[0], rrup_interpolants[1])) if rrup < ztor: - raise ValueError(f"Rupture depth {ztor=} is higher than estimated {rrup=}.") + raise ValueError( + f"Top-of-rupture depth {ztor=} is greater than estimated rrup {rrup=}." + ) r_surface = np.sqrt(rrup**2 - ztor**2) return r_surface * 1000 @@ -446,8 +449,8 @@ def estimate_domain( Returns ------- BoundingBox - The smallest domain containing the sources that encompasses - all areas with PGV estimated near the PGV target. + The smallest domain containing the sources and areas within + the estimated surface distance for the given magnitudes. """ # This polygon includes all the faults corners + a 2km buffer (which must be in the simulation domain). diff --git a/workflow/utils.py b/workflow/utils.py index 6dd00f5c..3e3c627b 100644 --- a/workflow/utils.py +++ b/workflow/utils.py @@ -168,7 +168,7 @@ def dict_zip(*dicts: Mapping[K, Any], strict: bool = True) -> dict[K, tuple[Any, if strict and any(set(d) != keys for d in dicts[1:]): raise ValueError("Keys in dictionaries are not all the same.") - else: + elif not strict: for d in dicts[1:]: keys = keys.intersection(d.keys()) From 774ddf2e073ccf3bcda14c168783fb09e6c82dbc Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Tue, 6 Jan 2026 15:39:36 +1300 Subject: [PATCH 18/24] docs(generate_domain): correct estimate_r_surface documentation --- workflow/scripts/generate_domain.py | 3 +-- 1 file changed, 1 insertion(+), 2 deletions(-) diff --git a/workflow/scripts/generate_domain.py b/workflow/scripts/generate_domain.py index 5b54a726..10403cd4 100644 --- a/workflow/scripts/generate_domain.py +++ b/workflow/scripts/generate_domain.py @@ -321,8 +321,7 @@ def simulation_max_depth(magnitude: float, bottom_depth: float) -> float: def estimate_r_surface( rrup_interpolants: npt.NDArray[np.floating], magnitude: float, ztor: float ) -> float: - """ - Estimate an appropriate rupture radius for a rupture. + """Estimate the horizontal surface distance from a rupture. 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6 Jan 2026 16:20:12 +1300 Subject: [PATCH 20/24] docs(generate_domain): remove blank lines --- workflow/scripts/generate_domain.py | 3 --- 1 file changed, 3 deletions(-) diff --git a/workflow/scripts/generate_domain.py b/workflow/scripts/generate_domain.py index 54430e1e..d7750392 100644 --- a/workflow/scripts/generate_domain.py +++ b/workflow/scripts/generate_domain.py @@ -174,8 +174,6 @@ def rupture_context_from( ) -> RuptureContext: """Create a rupture context from a rupture. - - Parameters ---------- magnitudes : Magnitudes @@ -186,7 +184,6 @@ def rupture_context_from( The velocity model parameters. Only use s_wave_velocity and ds_multiplier. - Returns ------- RuptureContext From 4c445bd46078a75d39bf8646e5a465827efa2ba8 Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Fri, 16 Jan 2026 10:42:44 +1300 Subject: [PATCH 21/24] docs(generate-domain): update docs for max depth estimation --- workflow/scripts/generate_domain.py | 15 ++++++++++++++- 1 file changed, 14 insertions(+), 1 deletion(-) diff --git a/workflow/scripts/generate_domain.py b/workflow/scripts/generate_domain.py index d7750392..5db511c7 100644 --- a/workflow/scripts/generate_domain.py +++ b/workflow/scripts/generate_domain.py @@ -286,6 +286,18 @@ def estimate_simulation_duration( def simulation_max_depth(magnitude: float, bottom_depth: float) -> float: """Estimate the maximum depth to simulate for a rupture. + This function estimates the max depth of the domain by ensuring + the z-extent is deep enough so the bottom does not interfere with + waves initially radiating downwards from the earthquake before + returning to the surface. Its design is, + + 1. The bottom depth of the rupture plus + 2. a flat 10km buffer and, + 3. a magnitude dependent power term that accounts for the fact + that waves refract deeper from larger magnitude earthquakes, but + 4. accounting for the fact that deeper earthquakes for the same + magnitude result in weaker shaking at the surface. + Parameters ---------- magnitude : float @@ -300,7 +312,8 @@ def simulation_max_depth(magnitude: float, bottom_depth: float) -> float: References ---------- - See the "Custom Models Used in VM Params" wiki page for an explanation of this function. + Robin's slack message that describes the max depth estimation: + https://uceqeng.slack.com/archives/C06L1MRUQF8/p1718865771998809?thread_ts=1718846081.570789&cid=C06L1MRUQF8. """ return round( 10 From 28005882f4528dbdf1552e05eda04c0f7d7de2d2 Mon Sep 17 00:00:00 2001 From: Jake Faulkner Date: Fri, 16 Jan 2026 10:48:25 +1300 Subject: [PATCH 22/24] refactor(generate-domain): add fault buffer zone parameter --- tests/test_generate_domain.py | 2 ++ tests/test_realisation.py | 2 ++ workflow/default_parameters/develop/defaults.yaml | 1 + workflow/default_parameters/v24_2_2_1/defaults.yaml | 1 + workflow/default_parameters/v24_2_2_2/defaults.yaml | 1 + workflow/default_parameters/v24_2_2_4/defaults.yaml | 1 + workflow/realisations.py | 2 ++ workflow/schemas.py | 9 ++++++--- workflow/scripts/generate_domain.py | 10 ++++++++-- 9 files changed, 24 insertions(+), 5 deletions(-) diff --git a/tests/test_generate_domain.py b/tests/test_generate_domain.py index 2598f365..54c29677 100644 --- a/tests/test_generate_domain.py +++ b/tests/test_generate_domain.py @@ -67,6 +67,7 @@ def test_estimate_domain_contains_fault_geometry() -> None: source_config=source_config, # type: ignore[invalid-argument-type] rrups=rrups, nz_outline=nz_outline, + fault_buffer=2000.0, ) assert result_domain.polygon.contains(fault_geom), ( @@ -98,6 +99,7 @@ def test_generate_domain() -> None: topo_type="BULLDOZED", ds_multiplier=1.2, vs30=500.0, + fault_buffer=2000, s_wave_velocity=3500, rrup_interpolants=np.array([[5.0, 8.0], [50.0, 50.0]]), ) diff --git a/tests/test_realisation.py b/tests/test_realisation.py index d9f64e09..db8b3f9f 100644 --- a/tests/test_realisation.py +++ b/tests/test_realisation.py @@ -221,6 +221,7 @@ def test_velocity_model(tmp_path: Path) -> None: topo_type="SQUASHED_TAPERED", ds_multiplier=1.2, vs30=300.0, + fault_buffer=2000.0, s_wave_velocity=3500.0, rrup_interpolants=np.ones(shape=(2, 2), dtype=np.float32), ) @@ -234,6 +235,7 @@ def test_velocity_model(tmp_path: Path) -> None: "topo_type": "SQUASHED_TAPERED", "ds_multiplier": 1.2, "vs30": 300.0, + "fault_buffer": 2000.0, "s_wave_velocity": 3500.0, "rrup_interpolants": [[1, 1], [1, 1]], } diff --git a/workflow/default_parameters/develop/defaults.yaml b/workflow/default_parameters/develop/defaults.yaml index 36ffef5c..19604c2a 100644 --- a/workflow/default_parameters/develop/defaults.yaml +++ b/workflow/default_parameters/develop/defaults.yaml @@ -117,6 +117,7 @@ velocity_model: version: "2.07" topo_type: "SQUASHED_TAPERED" vs30: 500.0 + fault_buffer: 2000.0 s_wave_velocity: 3500.0 rrup_interpolants: [ diff --git a/workflow/default_parameters/v24_2_2_1/defaults.yaml b/workflow/default_parameters/v24_2_2_1/defaults.yaml index 46b4a06f..a02b4e10 100644 --- a/workflow/default_parameters/v24_2_2_1/defaults.yaml +++ b/workflow/default_parameters/v24_2_2_1/defaults.yaml @@ -118,6 +118,7 @@ velocity_model: topo_type: "SQUASHED_TAPERED" vs30: 500.0 s_wave_velocity: 3500.0 + fault_buffer: 2000.0 rrup_interpolants: [ [ diff --git a/workflow/default_parameters/v24_2_2_2/defaults.yaml b/workflow/default_parameters/v24_2_2_2/defaults.yaml index 193dac78..ba8346e7 100644 --- a/workflow/default_parameters/v24_2_2_2/defaults.yaml +++ b/workflow/default_parameters/v24_2_2_2/defaults.yaml @@ -117,6 +117,7 @@ velocity_model: version: "2.07" topo_type: "SQUASHED_TAPERED" vs30: 500.0 + fault_buffer: 2000.0 s_wave_velocity: 3500.0 rrup_interpolants: [ diff --git a/workflow/default_parameters/v24_2_2_4/defaults.yaml b/workflow/default_parameters/v24_2_2_4/defaults.yaml index 36ffef5c..19604c2a 100644 --- a/workflow/default_parameters/v24_2_2_4/defaults.yaml +++ b/workflow/default_parameters/v24_2_2_4/defaults.yaml @@ -117,6 +117,7 @@ velocity_model: version: "2.07" topo_type: "SQUASHED_TAPERED" vs30: 500.0 + fault_buffer: 2000.0 s_wave_velocity: 3500.0 rrup_interpolants: [ diff --git a/workflow/realisations.py b/workflow/realisations.py index 42fcaf06..a08ed20f 100644 --- a/workflow/realisations.py +++ b/workflow/realisations.py @@ -615,6 +615,8 @@ class VelocityModelParameters(RealisationConfiguration): """The s-wave velocity.""" rrup_interpolants: npt.NDArray[np.float32] """Target RRup values at specific magnitudes, used to estimate domain size.""" + fault_buffer: float + """Buffer width (km) around sources in rupture. Domain edge is guaranteed not be within this distance from any source.""" def to_dict(self) -> dict: """ diff --git a/workflow/schemas.py b/workflow/schemas.py index 4da0454e..857960e3 100644 --- a/workflow/schemas.py +++ b/workflow/schemas.py @@ -379,9 +379,9 @@ def _corners_to_array(corners_spec: list[dict[str, float]]) -> np.ndarray: Literal("genslip_version", description="The version of genslip to use"): Or( "5.4.2" ), - Literal("resolution", description="The resolution of the SRF discretisation."): And( - NUMBER, _is_positive - ), + Literal( + "resolution", description="The resolution of the SRF discretisation." + ): And(NUMBER, _is_positive), Optional( Literal( "point_source_params", @@ -463,6 +463,9 @@ def _corners_to_array(corners_spec: list[dict[str, float]]) -> np.ndarray: Literal("rrup_interpolants", "RRup interpolants to estimate domain size"): And( [[And(NUMBER, _is_positive)]], Use(np.array) ), + Literal("fault_buffer", "Buffer width (km) around sources in rupture."): And( + NUMBER, _is_positive + ), } ) diff --git a/workflow/scripts/generate_domain.py b/workflow/scripts/generate_domain.py index 5db511c7..7e980314 100644 --- a/workflow/scripts/generate_domain.py +++ b/workflow/scripts/generate_domain.py @@ -443,6 +443,7 @@ def estimate_domain( source_config: SourceConfig, rrups: dict[str, float], nz_outline: shapely.Geometry, + fault_buffer: float, ) -> BoundingBox: """Estimate a domain for a rupture. @@ -454,6 +455,9 @@ def estimate_domain( The rrups for each source. nz_outline : Geometry The NZ outline polygon. + fault_buffer : float + Buffer width (km) around sources in rupture. Domain edge is + guaranteed not be within this distance from any source. 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a/workflow/scripts/generate_domain.py b/workflow/scripts/generate_domain.py index 7e980314..e52dc1b6 100644 --- a/workflow/scripts/generate_domain.py +++ b/workflow/scripts/generate_domain.py @@ -465,8 +465,9 @@ def estimate_domain( The smallest domain containing the sources and areas within the estimated surface distance for the given magnitudes. """ - # This polygon includes all the faults corners + a 2km buffer (which must be in the simulation domain). - + # This polygon includes all the faults corners + a variable + # (default 2km) fault buffer. This polygon must be included in the + # domain. fault_buffer_polygons = [ shapely.buffer(fault.geometry, fault_buffer * 1000.0) for fault in source_config.source_geometries.values()