scipy 1.16.2__cp312-cp312-win_arm64.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- scipy/__config__.py +161 -0
- scipy/__init__.py +150 -0
- scipy/_cyutility.cp312-win_arm64.lib +0 -0
- scipy/_cyutility.cp312-win_arm64.pyd +0 -0
- scipy/_distributor_init.py +18 -0
- scipy/_lib/__init__.py +14 -0
- scipy/_lib/_array_api.py +931 -0
- scipy/_lib/_array_api_compat_vendor.py +9 -0
- scipy/_lib/_array_api_no_0d.py +103 -0
- scipy/_lib/_bunch.py +229 -0
- scipy/_lib/_ccallback.py +251 -0
- scipy/_lib/_ccallback_c.cp312-win_arm64.lib +0 -0
- scipy/_lib/_ccallback_c.cp312-win_arm64.pyd +0 -0
- scipy/_lib/_disjoint_set.py +254 -0
- scipy/_lib/_docscrape.py +761 -0
- scipy/_lib/_elementwise_iterative_method.py +346 -0
- scipy/_lib/_fpumode.cp312-win_arm64.lib +0 -0
- scipy/_lib/_fpumode.cp312-win_arm64.pyd +0 -0
- scipy/_lib/_gcutils.py +105 -0
- scipy/_lib/_pep440.py +487 -0
- scipy/_lib/_sparse.py +41 -0
- scipy/_lib/_test_ccallback.cp312-win_arm64.lib +0 -0
- scipy/_lib/_test_ccallback.cp312-win_arm64.pyd +0 -0
- scipy/_lib/_test_deprecation_call.cp312-win_arm64.lib +0 -0
- scipy/_lib/_test_deprecation_call.cp312-win_arm64.pyd +0 -0
- scipy/_lib/_test_deprecation_def.cp312-win_arm64.lib +0 -0
- scipy/_lib/_test_deprecation_def.cp312-win_arm64.pyd +0 -0
- scipy/_lib/_testutils.py +373 -0
- scipy/_lib/_threadsafety.py +58 -0
- scipy/_lib/_tmpdirs.py +86 -0
- scipy/_lib/_uarray/LICENSE +29 -0
- scipy/_lib/_uarray/__init__.py +116 -0
- scipy/_lib/_uarray/_backend.py +707 -0
- scipy/_lib/_uarray/_uarray.cp312-win_arm64.lib +0 -0
- scipy/_lib/_uarray/_uarray.cp312-win_arm64.pyd +0 -0
- scipy/_lib/_util.py +1283 -0
- scipy/_lib/array_api_compat/__init__.py +22 -0
- scipy/_lib/array_api_compat/_internal.py +59 -0
- scipy/_lib/array_api_compat/common/__init__.py +1 -0
- scipy/_lib/array_api_compat/common/_aliases.py +727 -0
- scipy/_lib/array_api_compat/common/_fft.py +213 -0
- scipy/_lib/array_api_compat/common/_helpers.py +1058 -0
- scipy/_lib/array_api_compat/common/_linalg.py +232 -0
- scipy/_lib/array_api_compat/common/_typing.py +192 -0
- scipy/_lib/array_api_compat/cupy/__init__.py +13 -0
- scipy/_lib/array_api_compat/cupy/_aliases.py +156 -0
- scipy/_lib/array_api_compat/cupy/_info.py +336 -0
- scipy/_lib/array_api_compat/cupy/_typing.py +31 -0
- scipy/_lib/array_api_compat/cupy/fft.py +36 -0
- scipy/_lib/array_api_compat/cupy/linalg.py +49 -0
- scipy/_lib/array_api_compat/dask/__init__.py +0 -0
- scipy/_lib/array_api_compat/dask/array/__init__.py +12 -0
- scipy/_lib/array_api_compat/dask/array/_aliases.py +376 -0
- scipy/_lib/array_api_compat/dask/array/_info.py +416 -0
- scipy/_lib/array_api_compat/dask/array/fft.py +21 -0
- scipy/_lib/array_api_compat/dask/array/linalg.py +72 -0
- scipy/_lib/array_api_compat/numpy/__init__.py +28 -0
- scipy/_lib/array_api_compat/numpy/_aliases.py +190 -0
- scipy/_lib/array_api_compat/numpy/_info.py +366 -0
- scipy/_lib/array_api_compat/numpy/_typing.py +30 -0
- scipy/_lib/array_api_compat/numpy/fft.py +35 -0
- scipy/_lib/array_api_compat/numpy/linalg.py +143 -0
- scipy/_lib/array_api_compat/torch/__init__.py +22 -0
- scipy/_lib/array_api_compat/torch/_aliases.py +855 -0
- scipy/_lib/array_api_compat/torch/_info.py +369 -0
- scipy/_lib/array_api_compat/torch/_typing.py +3 -0
- scipy/_lib/array_api_compat/torch/fft.py +85 -0
- scipy/_lib/array_api_compat/torch/linalg.py +121 -0
- scipy/_lib/array_api_extra/__init__.py +38 -0
- scipy/_lib/array_api_extra/_delegation.py +171 -0
- scipy/_lib/array_api_extra/_lib/__init__.py +1 -0
- scipy/_lib/array_api_extra/_lib/_at.py +463 -0
- scipy/_lib/array_api_extra/_lib/_backends.py +46 -0
- scipy/_lib/array_api_extra/_lib/_funcs.py +937 -0
- scipy/_lib/array_api_extra/_lib/_lazy.py +357 -0
- scipy/_lib/array_api_extra/_lib/_testing.py +278 -0
- scipy/_lib/array_api_extra/_lib/_utils/__init__.py +1 -0
- scipy/_lib/array_api_extra/_lib/_utils/_compat.py +74 -0
- scipy/_lib/array_api_extra/_lib/_utils/_compat.pyi +45 -0
- scipy/_lib/array_api_extra/_lib/_utils/_helpers.py +559 -0
- scipy/_lib/array_api_extra/_lib/_utils/_typing.py +10 -0
- scipy/_lib/array_api_extra/_lib/_utils/_typing.pyi +105 -0
- scipy/_lib/array_api_extra/testing.py +359 -0
- scipy/_lib/cobyqa/__init__.py +20 -0
- scipy/_lib/cobyqa/framework.py +1240 -0
- scipy/_lib/cobyqa/main.py +1506 -0
- scipy/_lib/cobyqa/models.py +1529 -0
- scipy/_lib/cobyqa/problem.py +1296 -0
- scipy/_lib/cobyqa/settings.py +132 -0
- scipy/_lib/cobyqa/subsolvers/__init__.py +14 -0
- scipy/_lib/cobyqa/subsolvers/geometry.py +387 -0
- scipy/_lib/cobyqa/subsolvers/optim.py +1203 -0
- scipy/_lib/cobyqa/utils/__init__.py +18 -0
- scipy/_lib/cobyqa/utils/exceptions.py +22 -0
- scipy/_lib/cobyqa/utils/math.py +77 -0
- scipy/_lib/cobyqa/utils/versions.py +67 -0
- scipy/_lib/decorator.py +399 -0
- scipy/_lib/deprecation.py +274 -0
- scipy/_lib/doccer.py +366 -0
- scipy/_lib/messagestream.cp312-win_arm64.lib +0 -0
- scipy/_lib/messagestream.cp312-win_arm64.pyd +0 -0
- scipy/_lib/pyprima/__init__.py +212 -0
- scipy/_lib/pyprima/cobyla/__init__.py +0 -0
- scipy/_lib/pyprima/cobyla/cobyla.py +559 -0
- scipy/_lib/pyprima/cobyla/cobylb.py +714 -0
- scipy/_lib/pyprima/cobyla/geometry.py +226 -0
- scipy/_lib/pyprima/cobyla/initialize.py +215 -0
- scipy/_lib/pyprima/cobyla/trustregion.py +492 -0
- scipy/_lib/pyprima/cobyla/update.py +289 -0
- scipy/_lib/pyprima/common/__init__.py +0 -0
- scipy/_lib/pyprima/common/_bounds.py +34 -0
- scipy/_lib/pyprima/common/_linear_constraints.py +46 -0
- scipy/_lib/pyprima/common/_nonlinear_constraints.py +54 -0
- scipy/_lib/pyprima/common/_project.py +173 -0
- scipy/_lib/pyprima/common/checkbreak.py +93 -0
- scipy/_lib/pyprima/common/consts.py +47 -0
- scipy/_lib/pyprima/common/evaluate.py +99 -0
- scipy/_lib/pyprima/common/history.py +38 -0
- scipy/_lib/pyprima/common/infos.py +30 -0
- scipy/_lib/pyprima/common/linalg.py +435 -0
- scipy/_lib/pyprima/common/message.py +290 -0
- scipy/_lib/pyprima/common/powalg.py +131 -0
- scipy/_lib/pyprima/common/preproc.py +277 -0
- scipy/_lib/pyprima/common/present.py +5 -0
- scipy/_lib/pyprima/common/ratio.py +54 -0
- scipy/_lib/pyprima/common/redrho.py +47 -0
- scipy/_lib/pyprima/common/selectx.py +296 -0
- scipy/_lib/tests/__init__.py +0 -0
- scipy/_lib/tests/test__gcutils.py +110 -0
- scipy/_lib/tests/test__pep440.py +67 -0
- scipy/_lib/tests/test__testutils.py +32 -0
- scipy/_lib/tests/test__threadsafety.py +51 -0
- scipy/_lib/tests/test__util.py +641 -0
- scipy/_lib/tests/test_array_api.py +322 -0
- scipy/_lib/tests/test_bunch.py +169 -0
- scipy/_lib/tests/test_ccallback.py +196 -0
- scipy/_lib/tests/test_config.py +45 -0
- scipy/_lib/tests/test_deprecation.py +10 -0
- scipy/_lib/tests/test_doccer.py +143 -0
- scipy/_lib/tests/test_import_cycles.py +18 -0
- scipy/_lib/tests/test_public_api.py +482 -0
- scipy/_lib/tests/test_scipy_version.py +28 -0
- scipy/_lib/tests/test_tmpdirs.py +48 -0
- scipy/_lib/tests/test_warnings.py +137 -0
- scipy/_lib/uarray.py +31 -0
- scipy/cluster/__init__.py +31 -0
- scipy/cluster/_hierarchy.cp312-win_arm64.lib +0 -0
- scipy/cluster/_hierarchy.cp312-win_arm64.pyd +0 -0
- scipy/cluster/_optimal_leaf_ordering.cp312-win_arm64.lib +0 -0
- scipy/cluster/_optimal_leaf_ordering.cp312-win_arm64.pyd +0 -0
- scipy/cluster/_vq.cp312-win_arm64.lib +0 -0
- scipy/cluster/_vq.cp312-win_arm64.pyd +0 -0
- scipy/cluster/hierarchy.py +4348 -0
- scipy/cluster/tests/__init__.py +0 -0
- scipy/cluster/tests/hierarchy_test_data.py +145 -0
- scipy/cluster/tests/test_disjoint_set.py +202 -0
- scipy/cluster/tests/test_hierarchy.py +1238 -0
- scipy/cluster/tests/test_vq.py +434 -0
- scipy/cluster/vq.py +832 -0
- scipy/conftest.py +683 -0
- scipy/constants/__init__.py +358 -0
- scipy/constants/_codata.py +2266 -0
- scipy/constants/_constants.py +369 -0
- scipy/constants/codata.py +21 -0
- scipy/constants/constants.py +53 -0
- scipy/constants/tests/__init__.py +0 -0
- scipy/constants/tests/test_codata.py +78 -0
- scipy/constants/tests/test_constants.py +83 -0
- scipy/datasets/__init__.py +90 -0
- scipy/datasets/_download_all.py +71 -0
- scipy/datasets/_fetchers.py +225 -0
- scipy/datasets/_registry.py +26 -0
- scipy/datasets/_utils.py +81 -0
- scipy/datasets/tests/__init__.py +0 -0
- scipy/datasets/tests/test_data.py +128 -0
- scipy/differentiate/__init__.py +27 -0
- scipy/differentiate/_differentiate.py +1129 -0
- scipy/differentiate/tests/__init__.py +0 -0
- scipy/differentiate/tests/test_differentiate.py +694 -0
- scipy/fft/__init__.py +114 -0
- scipy/fft/_backend.py +196 -0
- scipy/fft/_basic.py +1650 -0
- scipy/fft/_basic_backend.py +197 -0
- scipy/fft/_debug_backends.py +22 -0
- scipy/fft/_fftlog.py +223 -0
- scipy/fft/_fftlog_backend.py +200 -0
- scipy/fft/_helper.py +348 -0
- scipy/fft/_pocketfft/LICENSE.md +25 -0
- scipy/fft/_pocketfft/__init__.py +9 -0
- scipy/fft/_pocketfft/basic.py +251 -0
- scipy/fft/_pocketfft/helper.py +249 -0
- scipy/fft/_pocketfft/pypocketfft.cp312-win_arm64.lib +0 -0
- scipy/fft/_pocketfft/pypocketfft.cp312-win_arm64.pyd +0 -0
- scipy/fft/_pocketfft/realtransforms.py +109 -0
- scipy/fft/_pocketfft/tests/__init__.py +0 -0
- scipy/fft/_pocketfft/tests/test_basic.py +1011 -0
- scipy/fft/_pocketfft/tests/test_real_transforms.py +505 -0
- scipy/fft/_realtransforms.py +706 -0
- scipy/fft/_realtransforms_backend.py +63 -0
- scipy/fft/tests/__init__.py +0 -0
- scipy/fft/tests/mock_backend.py +96 -0
- scipy/fft/tests/test_backend.py +98 -0
- scipy/fft/tests/test_basic.py +504 -0
- scipy/fft/tests/test_fftlog.py +215 -0
- scipy/fft/tests/test_helper.py +558 -0
- scipy/fft/tests/test_multithreading.py +84 -0
- scipy/fft/tests/test_real_transforms.py +247 -0
- scipy/fftpack/__init__.py +103 -0
- scipy/fftpack/_basic.py +428 -0
- scipy/fftpack/_helper.py +115 -0
- scipy/fftpack/_pseudo_diffs.py +554 -0
- scipy/fftpack/_realtransforms.py +598 -0
- scipy/fftpack/basic.py +20 -0
- scipy/fftpack/convolve.cp312-win_arm64.lib +0 -0
- scipy/fftpack/convolve.cp312-win_arm64.pyd +0 -0
- scipy/fftpack/helper.py +19 -0
- scipy/fftpack/pseudo_diffs.py +22 -0
- scipy/fftpack/realtransforms.py +19 -0
- scipy/fftpack/tests/__init__.py +0 -0
- scipy/fftpack/tests/fftw_double_ref.npz +0 -0
- scipy/fftpack/tests/fftw_longdouble_ref.npz +0 -0
- scipy/fftpack/tests/fftw_single_ref.npz +0 -0
- scipy/fftpack/tests/test.npz +0 -0
- scipy/fftpack/tests/test_basic.py +877 -0
- scipy/fftpack/tests/test_helper.py +54 -0
- scipy/fftpack/tests/test_import.py +33 -0
- scipy/fftpack/tests/test_pseudo_diffs.py +388 -0
- scipy/fftpack/tests/test_real_transforms.py +836 -0
- scipy/integrate/__init__.py +122 -0
- scipy/integrate/_bvp.py +1160 -0
- scipy/integrate/_cubature.py +729 -0
- scipy/integrate/_dop.cp312-win_arm64.lib +0 -0
- scipy/integrate/_dop.cp312-win_arm64.pyd +0 -0
- scipy/integrate/_ivp/__init__.py +8 -0
- scipy/integrate/_ivp/base.py +290 -0
- scipy/integrate/_ivp/bdf.py +478 -0
- scipy/integrate/_ivp/common.py +451 -0
- scipy/integrate/_ivp/dop853_coefficients.py +193 -0
- scipy/integrate/_ivp/ivp.py +755 -0
- scipy/integrate/_ivp/lsoda.py +224 -0
- scipy/integrate/_ivp/radau.py +572 -0
- scipy/integrate/_ivp/rk.py +601 -0
- scipy/integrate/_ivp/tests/__init__.py +0 -0
- scipy/integrate/_ivp/tests/test_ivp.py +1287 -0
- scipy/integrate/_ivp/tests/test_rk.py +37 -0
- scipy/integrate/_lebedev.py +5450 -0
- scipy/integrate/_lsoda.cp312-win_arm64.lib +0 -0
- scipy/integrate/_lsoda.cp312-win_arm64.pyd +0 -0
- scipy/integrate/_ode.py +1395 -0
- scipy/integrate/_odepack.cp312-win_arm64.lib +0 -0
- scipy/integrate/_odepack.cp312-win_arm64.pyd +0 -0
- scipy/integrate/_odepack_py.py +273 -0
- scipy/integrate/_quad_vec.py +674 -0
- scipy/integrate/_quadpack.cp312-win_arm64.lib +0 -0
- scipy/integrate/_quadpack.cp312-win_arm64.pyd +0 -0
- scipy/integrate/_quadpack_py.py +1283 -0
- scipy/integrate/_quadrature.py +1336 -0
- scipy/integrate/_rules/__init__.py +12 -0
- scipy/integrate/_rules/_base.py +518 -0
- scipy/integrate/_rules/_gauss_kronrod.py +202 -0
- scipy/integrate/_rules/_gauss_legendre.py +62 -0
- scipy/integrate/_rules/_genz_malik.py +210 -0
- scipy/integrate/_tanhsinh.py +1385 -0
- scipy/integrate/_test_multivariate.cp312-win_arm64.lib +0 -0
- scipy/integrate/_test_multivariate.cp312-win_arm64.pyd +0 -0
- scipy/integrate/_test_odeint_banded.cp312-win_arm64.lib +0 -0
- scipy/integrate/_test_odeint_banded.cp312-win_arm64.pyd +0 -0
- scipy/integrate/_vode.cp312-win_arm64.lib +0 -0
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- scipy/integrate/lsoda.py +15 -0
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- scipy/integrate/quadpack.py +23 -0
- scipy/integrate/tests/__init__.py +0 -0
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- scipy/integrate/tests/test_banded_ode_solvers.py +305 -0
- scipy/integrate/tests/test_bvp.py +714 -0
- scipy/integrate/tests/test_cubature.py +1375 -0
- scipy/integrate/tests/test_integrate.py +840 -0
- scipy/integrate/tests/test_odeint_jac.py +74 -0
- scipy/integrate/tests/test_quadpack.py +680 -0
- scipy/integrate/tests/test_quadrature.py +730 -0
- scipy/integrate/tests/test_tanhsinh.py +1171 -0
- scipy/integrate/vode.py +15 -0
- scipy/interpolate/__init__.py +228 -0
- scipy/interpolate/_bary_rational.py +715 -0
- scipy/interpolate/_bsplines.py +2469 -0
- scipy/interpolate/_cubic.py +973 -0
- scipy/interpolate/_dfitpack.cp312-win_arm64.lib +0 -0
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- scipy/io/_fast_matrix_market/__init__.py +600 -0
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- scipy/stats/_rcont/__init__.py +4 -0
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- scipy/stats/_rcont/rcont.cp312-win_arm64.pyd +0 -0
- scipy/stats/_relative_risk.py +263 -0
- scipy/stats/_resampling.py +2352 -0
- scipy/stats/_result_classes.py +40 -0
- scipy/stats/_sampling.py +1314 -0
- scipy/stats/_sensitivity_analysis.py +713 -0
- scipy/stats/_sobol.cp312-win_arm64.lib +0 -0
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- scipy/stats/_sobol.pyi +54 -0
- scipy/stats/_sobol_direction_numbers.npz +0 -0
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- scipy/stats/_unuran/unuran_wrapper.pyi +179 -0
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- scipy/stats/_warnings_errors.py +38 -0
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- scipy/stats/tests/data/nist_anova/SiRstv.dat +85 -0
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import os
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import copy
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import numpy as np
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from numpy.testing import (assert_equal, assert_almost_equal,
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assert_, assert_allclose, assert_array_equal)
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import pytest
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from pytest import raises as assert_raises
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import scipy.spatial._qhull as qhull
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from scipy.spatial import cKDTree as KDTree # type: ignore[attr-defined]
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from scipy.spatial import Voronoi
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import itertools
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a = list(map(tpl, a))
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pathological_data_1 = np.array([
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[-3.14,-3.14], [-3.14,-2.36], [-3.14,-1.57], [-3.14,-0.79],
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[-3.14,0.0], [-3.14,0.79], [-3.14,1.57], [-3.14,2.36],
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[-3.14,3.14], [-2.36,-3.14], [-2.36,-2.36], [-2.36,-1.57],
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[-2.36,-0.79], [-2.36,0.0], [-2.36,0.79], [-2.36,1.57],
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[-2.36,2.36], [-2.36,3.14], [-1.57,-0.79], [-1.57,0.79],
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[-1.57,-1.57], [-1.57,0.0], [-1.57,1.57], [-1.57,-3.14],
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[-1.57,-2.36], [-1.57,2.36], [-1.57,3.14], [-0.79,-1.57],
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[-0.79,1.57], [-0.79,-3.14], [-0.79,-2.36], [-0.79,-0.79],
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[-0.79,0.0], [-0.79,0.79], [-0.79,2.36], [-0.79,3.14],
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[0.0,-3.14], [0.0,-2.36], [0.0,-1.57], [0.0,-0.79], [0.0,0.0],
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[0.0,0.79], [0.0,1.57], [0.0,2.36], [0.0,3.14], [0.79,-3.14],
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[0.79,-2.36], [0.79,-0.79], [0.79,0.0], [0.79,0.79],
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[0.79,2.36], [0.79,3.14], [0.79,-1.57], [0.79,1.57],
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[1.57,-3.14], [1.57,-2.36], [1.57,2.36], [1.57,3.14],
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[1.57,-1.57], [1.57,0.0], [1.57,1.57], [1.57,-0.79],
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[1.57,0.79], [2.36,-3.14], [2.36,-2.36], [2.36,-1.57],
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[2.36,-0.79], [2.36,0.0], [2.36,0.79], [2.36,1.57],
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[2.36,2.36], [2.36,3.14], [3.14,-3.14], [3.14,-2.36],
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[3.14,-1.57], [3.14,-0.79], [3.14,0.0], [3.14,0.79],
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[3.14,1.57], [3.14,2.36], [3.14,3.14],
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])
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pathological_data_2 = np.array([
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[0, -1], [0, 0], [0, 1],
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[1, -1 - np.finfo(np.float64).eps], [1, 0], [1, 1],
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])
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bug_2850_chunks = [np.random.rand(10, 2),
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np.array([[0,0], [0,1], [1,0], [1,1]]) # add corners
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]
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# same with some additional chunks
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bug_2850_chunks_2 = (bug_2850_chunks +
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[np.random.rand(10, 2),
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0.25 + np.array([[0,0], [0,1], [1,0], [1,1]])])
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DATASETS = {
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'some-points': np.asarray(points),
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'random-2d': np.random.rand(30, 2),
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'random-3d': np.random.rand(30, 3),
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'random-4d': np.random.rand(30, 4),
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'random-5d': np.random.rand(30, 5),
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'random-6d': np.random.rand(10, 6),
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'random-7d': np.random.rand(10, 7),
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'random-8d': np.random.rand(10, 8),
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'pathological-1': pathological_data_1,
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'pathological-2': pathological_data_2
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}
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INCREMENTAL_DATASETS = {
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'bug-2850': (bug_2850_chunks, None),
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'bug-2850-2': (bug_2850_chunks_2, None),
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}
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def _add_inc_data(name, chunksize):
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"""
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Generate incremental datasets from basic data sets
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"""
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points = DATASETS[name]
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ndim = points.shape[1]
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opts = None
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nmin = ndim + 2
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if name == 'some-points':
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# since Qz is not allowed, use QJ
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opts = 'QJ Pp'
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elif name == 'pathological-1':
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# include enough points so that we get different x-coordinates
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nmin = 12
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chunks = [points[:nmin]]
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for j in range(nmin, len(points), chunksize):
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chunks.append(points[j:j+chunksize])
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new_name = f"{name}-chunk-{chunksize}"
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assert new_name not in INCREMENTAL_DATASETS
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INCREMENTAL_DATASETS[new_name] = (chunks, opts)
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for name in DATASETS:
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for chunksize in 1, 4, 16:
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_add_inc_data(name, chunksize)
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class Test_Qhull:
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def test_swapping(self):
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# Check that Qhull state swapping works
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x = qhull._Qhull(b'v',
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np.array([[0,0],[0,1],[1,0],[1,1.],[0.5,0.5]]),
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b'Qz')
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xd = copy.deepcopy(x.get_voronoi_diagram())
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+
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+
y = qhull._Qhull(b'v',
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+
np.array([[0,0],[0,1],[1,0],[1,2.]]),
|
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+
b'Qz')
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+
yd = copy.deepcopy(y.get_voronoi_diagram())
|
137
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+
|
138
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+
xd2 = copy.deepcopy(x.get_voronoi_diagram())
|
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+
x.close()
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+
yd2 = copy.deepcopy(y.get_voronoi_diagram())
|
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+
y.close()
|
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|
+
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+
assert_raises(RuntimeError, x.get_voronoi_diagram)
|
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+
assert_raises(RuntimeError, y.get_voronoi_diagram)
|
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+
|
146
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+
assert_allclose(xd[0], xd2[0])
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+
assert_unordered_tuple_list_equal(xd[1], xd2[1], tpl=sorted_tuple)
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148
|
+
assert_unordered_tuple_list_equal(xd[2], xd2[2], tpl=sorted_tuple)
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+
assert_unordered_tuple_list_equal(xd[3], xd2[3], tpl=sorted_tuple)
|
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|
+
assert_array_equal(xd[4], xd2[4])
|
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+
|
152
|
+
assert_allclose(yd[0], yd2[0])
|
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+
assert_unordered_tuple_list_equal(yd[1], yd2[1], tpl=sorted_tuple)
|
154
|
+
assert_unordered_tuple_list_equal(yd[2], yd2[2], tpl=sorted_tuple)
|
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|
+
assert_unordered_tuple_list_equal(yd[3], yd2[3], tpl=sorted_tuple)
|
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+
assert_array_equal(yd[4], yd2[4])
|
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+
|
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|
+
x.close()
|
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+
assert_raises(RuntimeError, x.get_voronoi_diagram)
|
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+
y.close()
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+
assert_raises(RuntimeError, y.get_voronoi_diagram)
|
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+
|
163
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+
def test_issue_8051(self):
|
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+
points = np.array(
|
165
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+
[[0, 0], [0, 1], [0, 2], [1, 0], [1, 1], [1, 2],[2, 0], [2, 1], [2, 2]]
|
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|
+
)
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+
Voronoi(points)
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+
|
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+
|
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+
class TestUtilities:
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+
"""
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+
Check that utility functions work.
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+
|
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+
"""
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+
|
176
|
+
def test_find_simplex(self):
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+
# Simple check that simplex finding works
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178
|
+
points = np.array([(0,0), (0,1), (1,1), (1,0)], dtype=np.float64)
|
179
|
+
tri = qhull.Delaunay(points)
|
180
|
+
|
181
|
+
# +---+
|
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|
+
# |\ 0|
|
183
|
+
# | \ |
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|
+
# |1 \|
|
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|
+
# +---+
|
186
|
+
|
187
|
+
assert_equal(tri.simplices, [[1, 3, 2], [3, 1, 0]])
|
188
|
+
|
189
|
+
for p in [(0.25, 0.25, 1),
|
190
|
+
(0.75, 0.75, 0),
|
191
|
+
(0.3, 0.2, 1)]:
|
192
|
+
i = tri.find_simplex(p[:2])
|
193
|
+
assert_equal(i, p[2], err_msg=f'{p!r}')
|
194
|
+
j = qhull.tsearch(tri, p[:2])
|
195
|
+
assert_equal(i, j)
|
196
|
+
|
197
|
+
def test_plane_distance(self):
|
198
|
+
# Compare plane distance from hyperplane equations obtained from Qhull
|
199
|
+
# to manually computed plane equations
|
200
|
+
x = np.array([(0,0), (1, 1), (1, 0), (0.99189033, 0.37674127),
|
201
|
+
(0.99440079, 0.45182168)], dtype=np.float64)
|
202
|
+
p = np.array([0.99966555, 0.15685619], dtype=np.float64)
|
203
|
+
|
204
|
+
tri = qhull.Delaunay(x)
|
205
|
+
|
206
|
+
z = tri.lift_points(x)
|
207
|
+
pz = tri.lift_points(p)
|
208
|
+
|
209
|
+
dist = tri.plane_distance(p)
|
210
|
+
|
211
|
+
for j, v in enumerate(tri.simplices):
|
212
|
+
x1 = z[v[0]]
|
213
|
+
x2 = z[v[1]]
|
214
|
+
x3 = z[v[2]]
|
215
|
+
|
216
|
+
n = np.cross(x1 - x3, x2 - x3)
|
217
|
+
n /= np.sqrt(np.dot(n, n))
|
218
|
+
n *= -np.sign(n[2])
|
219
|
+
|
220
|
+
d = np.dot(n, pz - x3)
|
221
|
+
|
222
|
+
assert_almost_equal(dist[j], d)
|
223
|
+
|
224
|
+
def test_convex_hull(self):
|
225
|
+
# Simple check that the convex hull seems to works
|
226
|
+
points = np.array([(0,0), (0,1), (1,1), (1,0)], dtype=np.float64)
|
227
|
+
tri = qhull.Delaunay(points)
|
228
|
+
|
229
|
+
# +---+
|
230
|
+
# |\ 0|
|
231
|
+
# | \ |
|
232
|
+
# |1 \|
|
233
|
+
# +---+
|
234
|
+
|
235
|
+
assert_equal(tri.convex_hull, [[3, 2], [1, 2], [1, 0], [3, 0]])
|
236
|
+
|
237
|
+
def test_volume_area(self):
|
238
|
+
#Basic check that we get back the correct volume and area for a cube
|
239
|
+
points = np.array([(0, 0, 0), (0, 1, 0), (1, 0, 0), (1, 1, 0),
|
240
|
+
(0, 0, 1), (0, 1, 1), (1, 0, 1), (1, 1, 1)])
|
241
|
+
hull = qhull.ConvexHull(points)
|
242
|
+
|
243
|
+
assert_allclose(hull.volume, 1., rtol=1e-14,
|
244
|
+
err_msg="Volume of cube is incorrect")
|
245
|
+
assert_allclose(hull.area, 6., rtol=1e-14,
|
246
|
+
err_msg="Area of cube is incorrect")
|
247
|
+
|
248
|
+
def test_random_volume_area(self):
|
249
|
+
#Test that the results for a random 10-point convex are
|
250
|
+
#coherent with the output of qconvex Qt s FA
|
251
|
+
points = np.array([(0.362568364506, 0.472712355305, 0.347003084477),
|
252
|
+
(0.733731893414, 0.634480295684, 0.950513180209),
|
253
|
+
(0.511239955611, 0.876839441267, 0.418047827863),
|
254
|
+
(0.0765906233393, 0.527373281342, 0.6509863541),
|
255
|
+
(0.146694972056, 0.596725793348, 0.894860986685),
|
256
|
+
(0.513808585741, 0.069576205858, 0.530890338876),
|
257
|
+
(0.512343805118, 0.663537132612, 0.037689295973),
|
258
|
+
(0.47282965018, 0.462176697655, 0.14061843691),
|
259
|
+
(0.240584597123, 0.778660020591, 0.722913476339),
|
260
|
+
(0.951271745935, 0.967000673944, 0.890661319684)])
|
261
|
+
|
262
|
+
hull = qhull.ConvexHull(points)
|
263
|
+
assert_allclose(hull.volume, 0.14562013, rtol=1e-07,
|
264
|
+
err_msg="Volume of random polyhedron is incorrect")
|
265
|
+
assert_allclose(hull.area, 1.6670425, rtol=1e-07,
|
266
|
+
err_msg="Area of random polyhedron is incorrect")
|
267
|
+
|
268
|
+
def test_incremental_volume_area_random_input(self):
|
269
|
+
"""Test that incremental mode gives the same volume/area as
|
270
|
+
non-incremental mode and incremental mode with restart"""
|
271
|
+
nr_points = 20
|
272
|
+
dim = 3
|
273
|
+
points = np.random.random((nr_points, dim))
|
274
|
+
inc_hull = qhull.ConvexHull(points[:dim+1, :], incremental=True)
|
275
|
+
inc_restart_hull = qhull.ConvexHull(points[:dim+1, :], incremental=True)
|
276
|
+
for i in range(dim+1, nr_points):
|
277
|
+
hull = qhull.ConvexHull(points[:i+1, :])
|
278
|
+
inc_hull.add_points(points[i:i+1, :])
|
279
|
+
inc_restart_hull.add_points(points[i:i+1, :], restart=True)
|
280
|
+
assert_allclose(hull.volume, inc_hull.volume, rtol=1e-7)
|
281
|
+
assert_allclose(hull.volume, inc_restart_hull.volume, rtol=1e-7)
|
282
|
+
assert_allclose(hull.area, inc_hull.area, rtol=1e-7)
|
283
|
+
assert_allclose(hull.area, inc_restart_hull.area, rtol=1e-7)
|
284
|
+
|
285
|
+
def _check_barycentric_transforms(self, tri, err_msg="",
|
286
|
+
unit_cube=False,
|
287
|
+
unit_cube_tol=0):
|
288
|
+
"""Check that a triangulation has reasonable barycentric transforms"""
|
289
|
+
vertices = tri.points[tri.simplices]
|
290
|
+
sc = 1/(tri.ndim + 1.0)
|
291
|
+
centroids = vertices.sum(axis=1) * sc
|
292
|
+
|
293
|
+
# Either: (i) the simplex has a `nan` barycentric transform,
|
294
|
+
# or, (ii) the centroid is in the simplex
|
295
|
+
|
296
|
+
def barycentric_transform(tr, x):
|
297
|
+
r = tr[:,-1,:]
|
298
|
+
Tinv = tr[:,:-1,:]
|
299
|
+
return np.einsum('ijk,ik->ij', Tinv, x - r)
|
300
|
+
|
301
|
+
eps = np.finfo(float).eps
|
302
|
+
|
303
|
+
c = barycentric_transform(tri.transform, centroids)
|
304
|
+
with np.errstate(invalid="ignore"):
|
305
|
+
ok = np.isnan(c).all(axis=1) | (abs(c - sc)/sc < 0.1).all(axis=1)
|
306
|
+
|
307
|
+
assert_(ok.all(), f"{err_msg} {np.nonzero(~ok)}")
|
308
|
+
|
309
|
+
# Invalid simplices must be (nearly) zero volume
|
310
|
+
q = vertices[:,:-1,:] - vertices[:,-1,None,:]
|
311
|
+
volume = np.array([np.linalg.det(q[k,:,:])
|
312
|
+
for k in range(tri.nsimplex)])
|
313
|
+
ok = np.isfinite(tri.transform[:,0,0]) | (volume < np.sqrt(eps))
|
314
|
+
assert_(ok.all(), f"{err_msg} {np.nonzero(~ok)}")
|
315
|
+
|
316
|
+
# Also, find_simplex for the centroid should end up in some
|
317
|
+
# simplex for the non-degenerate cases
|
318
|
+
j = tri.find_simplex(centroids)
|
319
|
+
ok = (j != -1) | np.isnan(tri.transform[:,0,0])
|
320
|
+
assert_(ok.all(), f"{err_msg} {np.nonzero(~ok)}")
|
321
|
+
|
322
|
+
if unit_cube:
|
323
|
+
# If in unit cube, no interior point should be marked out of hull
|
324
|
+
at_boundary = (centroids <= unit_cube_tol).any(axis=1)
|
325
|
+
at_boundary |= (centroids >= 1 - unit_cube_tol).any(axis=1)
|
326
|
+
|
327
|
+
ok = (j != -1) | at_boundary
|
328
|
+
assert_(ok.all(), f"{err_msg} {np.nonzero(~ok)}")
|
329
|
+
|
330
|
+
@pytest.mark.fail_slow(10)
|
331
|
+
def test_degenerate_barycentric_transforms(self):
|
332
|
+
# The triangulation should not produce invalid barycentric
|
333
|
+
# transforms that stump the simplex finding
|
334
|
+
data = np.load(os.path.join(os.path.dirname(__file__), 'data',
|
335
|
+
'degenerate_pointset.npz'))
|
336
|
+
points = data['c']
|
337
|
+
data.close()
|
338
|
+
|
339
|
+
tri = qhull.Delaunay(points)
|
340
|
+
|
341
|
+
# Check that there are not too many invalid simplices
|
342
|
+
bad_count = np.isnan(tri.transform[:,0,0]).sum()
|
343
|
+
assert_(bad_count < 23, bad_count)
|
344
|
+
|
345
|
+
# Check the transforms
|
346
|
+
self._check_barycentric_transforms(tri)
|
347
|
+
|
348
|
+
@pytest.mark.slow
|
349
|
+
@pytest.mark.fail_slow(20)
|
350
|
+
# OK per https://github.com/scipy/scipy/pull/20487#discussion_r1572684869
|
351
|
+
def test_more_barycentric_transforms(self):
|
352
|
+
# Triangulate some "nasty" grids
|
353
|
+
|
354
|
+
eps = np.finfo(float).eps
|
355
|
+
|
356
|
+
npoints = {2: 70, 3: 11, 4: 5, 5: 3}
|
357
|
+
|
358
|
+
for ndim in range(2, 6):
|
359
|
+
# Generate an uniform grid in n-d unit cube
|
360
|
+
x = np.linspace(0, 1, npoints[ndim])
|
361
|
+
grid = np.c_[
|
362
|
+
list(map(np.ravel, np.broadcast_arrays(*np.ix_(*([x]*ndim)))))
|
363
|
+
].T
|
364
|
+
|
365
|
+
err_msg = f"ndim={ndim}"
|
366
|
+
|
367
|
+
# Check using regular grid
|
368
|
+
tri = qhull.Delaunay(grid)
|
369
|
+
self._check_barycentric_transforms(tri, err_msg=err_msg,
|
370
|
+
unit_cube=True)
|
371
|
+
|
372
|
+
# Check with eps-perturbations
|
373
|
+
np.random.seed(1234)
|
374
|
+
m = (np.random.rand(grid.shape[0]) < 0.2)
|
375
|
+
grid[m,:] += 2*eps*(np.random.rand(*grid[m,:].shape) - 0.5)
|
376
|
+
|
377
|
+
tri = qhull.Delaunay(grid)
|
378
|
+
self._check_barycentric_transforms(tri, err_msg=err_msg,
|
379
|
+
unit_cube=True,
|
380
|
+
unit_cube_tol=2*eps)
|
381
|
+
|
382
|
+
# Check with duplicated data
|
383
|
+
tri = qhull.Delaunay(np.r_[grid, grid])
|
384
|
+
self._check_barycentric_transforms(tri, err_msg=err_msg,
|
385
|
+
unit_cube=True,
|
386
|
+
unit_cube_tol=2*eps)
|
387
|
+
|
388
|
+
|
389
|
+
class TestVertexNeighborVertices:
|
390
|
+
def _check(self, tri):
|
391
|
+
expected = [set() for j in range(tri.points.shape[0])]
|
392
|
+
for s in tri.simplices:
|
393
|
+
for a in s:
|
394
|
+
for b in s:
|
395
|
+
if a != b:
|
396
|
+
expected[a].add(b)
|
397
|
+
|
398
|
+
indptr, indices = tri.vertex_neighbor_vertices
|
399
|
+
|
400
|
+
got = [set(map(int, indices[indptr[j]:indptr[j+1]]))
|
401
|
+
for j in range(tri.points.shape[0])]
|
402
|
+
|
403
|
+
assert_equal(got, expected, err_msg=f"{got!r} != {expected!r}")
|
404
|
+
|
405
|
+
def test_triangle(self):
|
406
|
+
points = np.array([(0,0), (0,1), (1,0)], dtype=np.float64)
|
407
|
+
tri = qhull.Delaunay(points)
|
408
|
+
self._check(tri)
|
409
|
+
|
410
|
+
def test_rectangle(self):
|
411
|
+
points = np.array([(0,0), (0,1), (1,1), (1,0)], dtype=np.float64)
|
412
|
+
tri = qhull.Delaunay(points)
|
413
|
+
self._check(tri)
|
414
|
+
|
415
|
+
def test_complicated(self):
|
416
|
+
points = np.array([(0,0), (0,1), (1,1), (1,0),
|
417
|
+
(0.5, 0.5), (0.9, 0.5)], dtype=np.float64)
|
418
|
+
tri = qhull.Delaunay(points)
|
419
|
+
self._check(tri)
|
420
|
+
|
421
|
+
|
422
|
+
class TestDelaunay:
|
423
|
+
"""
|
424
|
+
Check that triangulation works.
|
425
|
+
|
426
|
+
"""
|
427
|
+
def test_masked_array_fails(self):
|
428
|
+
masked_array = np.ma.masked_all(1)
|
429
|
+
assert_raises(ValueError, qhull.Delaunay, masked_array)
|
430
|
+
|
431
|
+
# Shouldn't be inherently unsafe; retry with cpython 3.14 once traceback
|
432
|
+
# thread safety issues are fixed (also goes for other test with same name
|
433
|
+
# further down)
|
434
|
+
@pytest.mark.thread_unsafe
|
435
|
+
def test_array_with_nans_fails(self):
|
436
|
+
points_with_nan = np.array([(0,0), (0,1), (1,1), (1,np.nan)], dtype=np.float64)
|
437
|
+
assert_raises(ValueError, qhull.Delaunay, points_with_nan)
|
438
|
+
|
439
|
+
def test_nd_simplex(self):
|
440
|
+
# simple smoke test: triangulate a n-dimensional simplex
|
441
|
+
for nd in range(2, 8):
|
442
|
+
points = np.zeros((nd+1, nd))
|
443
|
+
for j in range(nd):
|
444
|
+
points[j,j] = 1.0
|
445
|
+
points[-1,:] = 1.0
|
446
|
+
|
447
|
+
tri = qhull.Delaunay(points)
|
448
|
+
|
449
|
+
tri.simplices.sort()
|
450
|
+
|
451
|
+
assert_equal(tri.simplices, np.arange(nd+1, dtype=int)[None, :])
|
452
|
+
assert_equal(tri.neighbors, -1 + np.zeros((nd+1), dtype=int)[None,:])
|
453
|
+
|
454
|
+
def test_2d_square(self):
|
455
|
+
# simple smoke test: 2d square
|
456
|
+
points = np.array([(0,0), (0,1), (1,1), (1,0)], dtype=np.float64)
|
457
|
+
tri = qhull.Delaunay(points)
|
458
|
+
|
459
|
+
assert_equal(tri.simplices, [[1, 3, 2], [3, 1, 0]])
|
460
|
+
assert_equal(tri.neighbors, [[-1, -1, 1], [-1, -1, 0]])
|
461
|
+
|
462
|
+
def test_duplicate_points(self):
|
463
|
+
x = np.array([0, 1, 0, 1], dtype=np.float64)
|
464
|
+
y = np.array([0, 0, 1, 1], dtype=np.float64)
|
465
|
+
|
466
|
+
xp = np.r_[x, x]
|
467
|
+
yp = np.r_[y, y]
|
468
|
+
|
469
|
+
# shouldn't fail on duplicate points
|
470
|
+
qhull.Delaunay(np.c_[x, y])
|
471
|
+
qhull.Delaunay(np.c_[xp, yp])
|
472
|
+
|
473
|
+
def test_pathological(self):
|
474
|
+
# both should succeed
|
475
|
+
points = DATASETS['pathological-1']
|
476
|
+
tri = qhull.Delaunay(points)
|
477
|
+
assert_equal(tri.points[tri.simplices].max(), points.max())
|
478
|
+
assert_equal(tri.points[tri.simplices].min(), points.min())
|
479
|
+
|
480
|
+
points = DATASETS['pathological-2']
|
481
|
+
tri = qhull.Delaunay(points)
|
482
|
+
assert_equal(tri.points[tri.simplices].max(), points.max())
|
483
|
+
assert_equal(tri.points[tri.simplices].min(), points.min())
|
484
|
+
|
485
|
+
def test_joggle(self):
|
486
|
+
# Check that the option QJ indeed guarantees that all input points
|
487
|
+
# occur as vertices of the triangulation
|
488
|
+
|
489
|
+
points = np.random.rand(10, 2)
|
490
|
+
points = np.r_[points, points] # duplicate input data
|
491
|
+
|
492
|
+
tri = qhull.Delaunay(points, qhull_options="QJ Qbb Pp")
|
493
|
+
assert_array_equal(np.unique(tri.simplices.ravel()),
|
494
|
+
np.arange(len(points)))
|
495
|
+
|
496
|
+
def test_coplanar(self):
|
497
|
+
# Check that the coplanar point output option indeed works
|
498
|
+
points = np.random.rand(10, 2)
|
499
|
+
points = np.r_[points, points] # duplicate input data
|
500
|
+
|
501
|
+
tri = qhull.Delaunay(points)
|
502
|
+
|
503
|
+
assert_(len(np.unique(tri.simplices.ravel())) == len(points)//2)
|
504
|
+
assert_(len(tri.coplanar) == len(points)//2)
|
505
|
+
|
506
|
+
assert_(len(np.unique(tri.coplanar[:,2])) == len(points)//2)
|
507
|
+
|
508
|
+
assert_(np.all(tri.vertex_to_simplex >= 0))
|
509
|
+
|
510
|
+
def test_furthest_site(self):
|
511
|
+
points = [(0, 0), (0, 1), (1, 0), (0.5, 0.5), (1.1, 1.1)]
|
512
|
+
tri = qhull.Delaunay(points, furthest_site=True)
|
513
|
+
|
514
|
+
expected = np.array([(1, 4, 0), (4, 2, 0)]) # from Qhull
|
515
|
+
assert_array_equal(tri.simplices, expected)
|
516
|
+
|
517
|
+
@pytest.mark.parametrize("name", sorted(INCREMENTAL_DATASETS))
|
518
|
+
def test_incremental(self, name):
|
519
|
+
# Test incremental construction of the triangulation
|
520
|
+
|
521
|
+
chunks, opts = INCREMENTAL_DATASETS[name]
|
522
|
+
points = np.concatenate(chunks, axis=0)
|
523
|
+
|
524
|
+
obj = qhull.Delaunay(chunks[0], incremental=True,
|
525
|
+
qhull_options=opts)
|
526
|
+
for chunk in chunks[1:]:
|
527
|
+
obj.add_points(chunk)
|
528
|
+
|
529
|
+
obj2 = qhull.Delaunay(points)
|
530
|
+
|
531
|
+
obj3 = qhull.Delaunay(chunks[0], incremental=True,
|
532
|
+
qhull_options=opts)
|
533
|
+
if len(chunks) > 1:
|
534
|
+
obj3.add_points(np.concatenate(chunks[1:], axis=0),
|
535
|
+
restart=True)
|
536
|
+
|
537
|
+
# Check that the incremental mode agrees with upfront mode
|
538
|
+
if name.startswith('pathological'):
|
539
|
+
# XXX: These produce valid but different triangulations.
|
540
|
+
# They look OK when plotted, but how to check them?
|
541
|
+
|
542
|
+
assert_array_equal(np.unique(obj.simplices.ravel()),
|
543
|
+
np.arange(points.shape[0]))
|
544
|
+
assert_array_equal(np.unique(obj2.simplices.ravel()),
|
545
|
+
np.arange(points.shape[0]))
|
546
|
+
else:
|
547
|
+
assert_unordered_tuple_list_equal(obj.simplices, obj2.simplices,
|
548
|
+
tpl=sorted_tuple)
|
549
|
+
|
550
|
+
assert_unordered_tuple_list_equal(obj2.simplices, obj3.simplices,
|
551
|
+
tpl=sorted_tuple)
|
552
|
+
|
553
|
+
|
554
|
+
def assert_hulls_equal(points, facets_1, facets_2):
|
555
|
+
# Check that two convex hulls constructed from the same point set
|
556
|
+
# are equal
|
557
|
+
|
558
|
+
facets_1 = set(map(sorted_tuple, facets_1))
|
559
|
+
facets_2 = set(map(sorted_tuple, facets_2))
|
560
|
+
|
561
|
+
if facets_1 != facets_2 and points.shape[1] == 2:
|
562
|
+
# The direct check fails for the pathological cases
|
563
|
+
# --- then the convex hull from Delaunay differs (due
|
564
|
+
# to rounding error etc.) from the hull computed
|
565
|
+
# otherwise, by the question whether (tricoplanar)
|
566
|
+
# points that lie almost exactly on the hull are
|
567
|
+
# included as vertices of the hull or not.
|
568
|
+
#
|
569
|
+
# So we check the result, and accept it if the Delaunay
|
570
|
+
# hull line segments are a subset of the usual hull.
|
571
|
+
|
572
|
+
eps = 1000 * np.finfo(float).eps
|
573
|
+
|
574
|
+
for a, b in facets_1:
|
575
|
+
for ap, bp in facets_2:
|
576
|
+
t = points[bp] - points[ap]
|
577
|
+
t /= np.linalg.norm(t) # tangent
|
578
|
+
n = np.array([-t[1], t[0]]) # normal
|
579
|
+
|
580
|
+
# check that the two line segments are parallel
|
581
|
+
# to the same line
|
582
|
+
c1 = np.dot(n, points[b] - points[ap])
|
583
|
+
c2 = np.dot(n, points[a] - points[ap])
|
584
|
+
if not np.allclose(np.dot(c1, n), 0):
|
585
|
+
continue
|
586
|
+
if not np.allclose(np.dot(c2, n), 0):
|
587
|
+
continue
|
588
|
+
|
589
|
+
# Check that the segment (a, b) is contained in (ap, bp)
|
590
|
+
c1 = np.dot(t, points[a] - points[ap])
|
591
|
+
c2 = np.dot(t, points[b] - points[ap])
|
592
|
+
c3 = np.dot(t, points[bp] - points[ap])
|
593
|
+
if c1 < -eps or c1 > c3 + eps:
|
594
|
+
continue
|
595
|
+
if c2 < -eps or c2 > c3 + eps:
|
596
|
+
continue
|
597
|
+
|
598
|
+
# OK:
|
599
|
+
break
|
600
|
+
else:
|
601
|
+
raise AssertionError("comparison fails")
|
602
|
+
|
603
|
+
# it was OK
|
604
|
+
return
|
605
|
+
|
606
|
+
assert_equal(facets_1, facets_2)
|
607
|
+
|
608
|
+
|
609
|
+
class TestConvexHull:
|
610
|
+
def test_masked_array_fails(self):
|
611
|
+
masked_array = np.ma.masked_all(1)
|
612
|
+
assert_raises(ValueError, qhull.ConvexHull, masked_array)
|
613
|
+
|
614
|
+
@pytest.mark.thread_unsafe
|
615
|
+
def test_array_with_nans_fails(self):
|
616
|
+
points_with_nan = np.array([(0,0), (1,1), (2,np.nan)], dtype=np.float64)
|
617
|
+
assert_raises(ValueError, qhull.ConvexHull, points_with_nan)
|
618
|
+
|
619
|
+
@pytest.mark.parametrize("name", sorted(DATASETS))
|
620
|
+
def test_hull_consistency_tri(self, name):
|
621
|
+
# Check that a convex hull returned by qhull in ndim
|
622
|
+
# and the hull constructed from ndim delaunay agree
|
623
|
+
points = DATASETS[name]
|
624
|
+
|
625
|
+
tri = qhull.Delaunay(points)
|
626
|
+
hull = qhull.ConvexHull(points)
|
627
|
+
|
628
|
+
assert_hulls_equal(points, tri.convex_hull, hull.simplices)
|
629
|
+
|
630
|
+
# Check that the hull extremes are as expected
|
631
|
+
if points.shape[1] == 2:
|
632
|
+
assert_equal(np.unique(hull.simplices), np.sort(hull.vertices))
|
633
|
+
else:
|
634
|
+
assert_equal(np.unique(hull.simplices), hull.vertices)
|
635
|
+
|
636
|
+
@pytest.mark.parametrize("name", sorted(INCREMENTAL_DATASETS))
|
637
|
+
def test_incremental(self, name):
|
638
|
+
# Test incremental construction of the convex hull
|
639
|
+
chunks, _ = INCREMENTAL_DATASETS[name]
|
640
|
+
points = np.concatenate(chunks, axis=0)
|
641
|
+
|
642
|
+
obj = qhull.ConvexHull(chunks[0], incremental=True)
|
643
|
+
for chunk in chunks[1:]:
|
644
|
+
obj.add_points(chunk)
|
645
|
+
|
646
|
+
obj2 = qhull.ConvexHull(points)
|
647
|
+
|
648
|
+
obj3 = qhull.ConvexHull(chunks[0], incremental=True)
|
649
|
+
if len(chunks) > 1:
|
650
|
+
obj3.add_points(np.concatenate(chunks[1:], axis=0),
|
651
|
+
restart=True)
|
652
|
+
|
653
|
+
# Check that the incremental mode agrees with upfront mode
|
654
|
+
assert_hulls_equal(points, obj.simplices, obj2.simplices)
|
655
|
+
assert_hulls_equal(points, obj.simplices, obj3.simplices)
|
656
|
+
|
657
|
+
def test_vertices_2d(self):
|
658
|
+
# The vertices should be in counterclockwise order in 2-D
|
659
|
+
np.random.seed(1234)
|
660
|
+
points = np.random.rand(30, 2)
|
661
|
+
|
662
|
+
hull = qhull.ConvexHull(points)
|
663
|
+
assert_equal(np.unique(hull.simplices), np.sort(hull.vertices))
|
664
|
+
|
665
|
+
# Check counterclockwiseness
|
666
|
+
x, y = hull.points[hull.vertices].T
|
667
|
+
angle = np.arctan2(y - y.mean(), x - x.mean())
|
668
|
+
assert_(np.all(np.diff(np.unwrap(angle)) > 0))
|
669
|
+
|
670
|
+
def test_volume_area(self):
|
671
|
+
# Basic check that we get back the correct volume and area for a cube
|
672
|
+
points = np.array([(0, 0, 0), (0, 1, 0), (1, 0, 0), (1, 1, 0),
|
673
|
+
(0, 0, 1), (0, 1, 1), (1, 0, 1), (1, 1, 1)])
|
674
|
+
tri = qhull.ConvexHull(points)
|
675
|
+
|
676
|
+
assert_allclose(tri.volume, 1., rtol=1e-14)
|
677
|
+
assert_allclose(tri.area, 6., rtol=1e-14)
|
678
|
+
|
679
|
+
@pytest.mark.parametrize("incremental", [False, True])
|
680
|
+
def test_good2d(self, incremental):
|
681
|
+
# Make sure the QGn option gives the correct value of "good".
|
682
|
+
points = np.array([[0.2, 0.2],
|
683
|
+
[0.2, 0.4],
|
684
|
+
[0.4, 0.4],
|
685
|
+
[0.4, 0.2],
|
686
|
+
[0.3, 0.6]])
|
687
|
+
hull = qhull.ConvexHull(points=points,
|
688
|
+
incremental=incremental,
|
689
|
+
qhull_options='QG4')
|
690
|
+
expected = np.array([False, True, False, False], dtype=bool)
|
691
|
+
actual = hull.good
|
692
|
+
assert_equal(actual, expected)
|
693
|
+
|
694
|
+
@pytest.mark.parametrize("visibility", [
|
695
|
+
"QG4", # visible=True
|
696
|
+
"QG-4", # visible=False
|
697
|
+
])
|
698
|
+
@pytest.mark.parametrize("new_gen, expected", [
|
699
|
+
# add generator that places QG4 inside hull
|
700
|
+
# so all facets are invisible
|
701
|
+
(np.array([[0.3, 0.7]]),
|
702
|
+
np.array([False, False, False, False, False], dtype=bool)),
|
703
|
+
# adding a generator on the opposite side of the square
|
704
|
+
# should preserve the single visible facet & add one invisible
|
705
|
+
# facet
|
706
|
+
(np.array([[0.3, -0.7]]),
|
707
|
+
np.array([False, True, False, False, False], dtype=bool)),
|
708
|
+
# split the visible facet on top of the square into two
|
709
|
+
# visible facets, with visibility at the end of the array
|
710
|
+
# because add_points concatenates
|
711
|
+
(np.array([[0.3, 0.41]]),
|
712
|
+
np.array([False, False, False, True, True], dtype=bool)),
|
713
|
+
# with our current Qhull options, coplanarity will not count
|
714
|
+
# for visibility; this case shifts one visible & one invisible
|
715
|
+
# facet & adds a coplanar facet
|
716
|
+
# simplex at index position 2 is the shifted visible facet
|
717
|
+
# the final simplex is the coplanar facet
|
718
|
+
(np.array([[0.5, 0.6], [0.6, 0.6]]),
|
719
|
+
np.array([False, False, True, False, False], dtype=bool)),
|
720
|
+
# place the new generator such that it envelops the query
|
721
|
+
# point within the convex hull, but only just barely within
|
722
|
+
# the double precision limit
|
723
|
+
# NOTE: testing exact degeneracy is less predictable than this
|
724
|
+
# scenario, perhaps because of the default Qt option we have
|
725
|
+
# enabled for Qhull to handle precision matters
|
726
|
+
(np.array([[0.3, 0.6 + 1e-16]]),
|
727
|
+
np.array([False, False, False, False, False], dtype=bool)),
|
728
|
+
])
|
729
|
+
def test_good2d_incremental_changes(self, new_gen, expected,
|
730
|
+
visibility):
|
731
|
+
# use the usual square convex hull
|
732
|
+
# generators from test_good2d
|
733
|
+
points = np.array([[0.2, 0.2],
|
734
|
+
[0.2, 0.4],
|
735
|
+
[0.4, 0.4],
|
736
|
+
[0.4, 0.2],
|
737
|
+
[0.3, 0.6]])
|
738
|
+
hull = qhull.ConvexHull(points=points,
|
739
|
+
incremental=True,
|
740
|
+
qhull_options=visibility)
|
741
|
+
hull.add_points(new_gen)
|
742
|
+
actual = hull.good
|
743
|
+
if '-' in visibility:
|
744
|
+
expected = np.invert(expected)
|
745
|
+
assert_equal(actual, expected)
|
746
|
+
|
747
|
+
@pytest.mark.parametrize("incremental", [False, True])
|
748
|
+
def test_good2d_no_option(self, incremental):
|
749
|
+
# handle case where good attribute doesn't exist
|
750
|
+
# because Qgn or Qg-n wasn't specified
|
751
|
+
points = np.array([[0.2, 0.2],
|
752
|
+
[0.2, 0.4],
|
753
|
+
[0.4, 0.4],
|
754
|
+
[0.4, 0.2],
|
755
|
+
[0.3, 0.6]])
|
756
|
+
hull = qhull.ConvexHull(points=points,
|
757
|
+
incremental=incremental)
|
758
|
+
actual = hull.good
|
759
|
+
assert actual is None
|
760
|
+
# preserve None after incremental addition
|
761
|
+
if incremental:
|
762
|
+
hull.add_points(np.zeros((1, 2)))
|
763
|
+
actual = hull.good
|
764
|
+
assert actual is None
|
765
|
+
|
766
|
+
@pytest.mark.parametrize("incremental", [False, True])
|
767
|
+
def test_good2d_inside(self, incremental):
|
768
|
+
# Make sure the QGn option gives the correct value of "good".
|
769
|
+
# When point n is inside the convex hull of the rest, good is
|
770
|
+
# all False.
|
771
|
+
points = np.array([[0.2, 0.2],
|
772
|
+
[0.2, 0.4],
|
773
|
+
[0.4, 0.4],
|
774
|
+
[0.4, 0.2],
|
775
|
+
[0.3, 0.3]])
|
776
|
+
hull = qhull.ConvexHull(points=points,
|
777
|
+
incremental=incremental,
|
778
|
+
qhull_options='QG4')
|
779
|
+
expected = np.array([False, False, False, False], dtype=bool)
|
780
|
+
actual = hull.good
|
781
|
+
assert_equal(actual, expected)
|
782
|
+
|
783
|
+
@pytest.mark.parametrize("incremental", [False, True])
|
784
|
+
def test_good3d(self, incremental):
|
785
|
+
# Make sure the QGn option gives the correct value of "good"
|
786
|
+
# for a 3d figure
|
787
|
+
points = np.array([[0.0, 0.0, 0.0],
|
788
|
+
[0.90029516, -0.39187448, 0.18948093],
|
789
|
+
[0.48676420, -0.72627633, 0.48536925],
|
790
|
+
[0.57651530, -0.81179274, -0.09285832],
|
791
|
+
[0.67846893, -0.71119562, 0.18406710]])
|
792
|
+
hull = qhull.ConvexHull(points=points,
|
793
|
+
incremental=incremental,
|
794
|
+
qhull_options='QG0')
|
795
|
+
expected = np.array([True, False, False, False], dtype=bool)
|
796
|
+
assert_equal(hull.good, expected)
|
797
|
+
|
798
|
+
class TestVoronoi:
|
799
|
+
|
800
|
+
@pytest.mark.parametrize("qhull_opts, extra_pts", [
|
801
|
+
# option Qz (default for SciPy) will add
|
802
|
+
# an extra point at infinity
|
803
|
+
("Qbb Qc Qz", 1),
|
804
|
+
("Qbb Qc", 0),
|
805
|
+
])
|
806
|
+
@pytest.mark.parametrize("n_pts", [50, 100])
|
807
|
+
@pytest.mark.parametrize("ndim", [2, 3])
|
808
|
+
def test_point_region_structure(self,
|
809
|
+
qhull_opts,
|
810
|
+
n_pts,
|
811
|
+
extra_pts,
|
812
|
+
ndim):
|
813
|
+
# see gh-16773
|
814
|
+
rng = np.random.default_rng(7790)
|
815
|
+
points = rng.random((n_pts, ndim))
|
816
|
+
vor = Voronoi(points, qhull_options=qhull_opts)
|
817
|
+
pt_region = vor.point_region
|
818
|
+
assert pt_region.max() == n_pts - 1 + extra_pts
|
819
|
+
assert pt_region.size == len(vor.regions) - extra_pts
|
820
|
+
assert len(vor.regions) == n_pts + extra_pts
|
821
|
+
assert vor.points.shape[0] == n_pts
|
822
|
+
# if there is an empty sublist in the Voronoi
|
823
|
+
# regions data structure, it should never be
|
824
|
+
# indexed because it corresponds to an internally
|
825
|
+
# added point at infinity and is not a member of the
|
826
|
+
# generators (input points)
|
827
|
+
if extra_pts:
|
828
|
+
sublens = [len(x) for x in vor.regions]
|
829
|
+
# only one point at infinity (empty region)
|
830
|
+
# is allowed
|
831
|
+
assert sublens.count(0) == 1
|
832
|
+
assert sublens.index(0) not in pt_region
|
833
|
+
|
834
|
+
def test_masked_array_fails(self):
|
835
|
+
masked_array = np.ma.masked_all(1)
|
836
|
+
assert_raises(ValueError, qhull.Voronoi, masked_array)
|
837
|
+
|
838
|
+
def test_simple(self):
|
839
|
+
# Simple case with known Voronoi diagram
|
840
|
+
points = [(0, 0), (0, 1), (0, 2),
|
841
|
+
(1, 0), (1, 1), (1, 2),
|
842
|
+
(2, 0), (2, 1), (2, 2)]
|
843
|
+
|
844
|
+
# qhull v o Fv Qbb Qc Qz < dat
|
845
|
+
output = """
|
846
|
+
2
|
847
|
+
5 10 1
|
848
|
+
-10.101 -10.101
|
849
|
+
0.5 0.5
|
850
|
+
0.5 1.5
|
851
|
+
1.5 0.5
|
852
|
+
1.5 1.5
|
853
|
+
2 0 1
|
854
|
+
3 2 0 1
|
855
|
+
2 0 2
|
856
|
+
3 3 0 1
|
857
|
+
4 1 2 4 3
|
858
|
+
3 4 0 2
|
859
|
+
2 0 3
|
860
|
+
3 4 0 3
|
861
|
+
2 0 4
|
862
|
+
0
|
863
|
+
12
|
864
|
+
4 0 3 0 1
|
865
|
+
4 0 1 0 1
|
866
|
+
4 1 4 1 2
|
867
|
+
4 1 2 0 2
|
868
|
+
4 2 5 0 2
|
869
|
+
4 3 4 1 3
|
870
|
+
4 3 6 0 3
|
871
|
+
4 4 5 2 4
|
872
|
+
4 4 7 3 4
|
873
|
+
4 5 8 0 4
|
874
|
+
4 6 7 0 3
|
875
|
+
4 7 8 0 4
|
876
|
+
"""
|
877
|
+
self._compare_qvoronoi(points, output)
|
878
|
+
|
879
|
+
def _compare_qvoronoi(self, points, output, **kw):
|
880
|
+
"""Compare to output from 'qvoronoi o Fv < data' to Voronoi()"""
|
881
|
+
|
882
|
+
# Parse output
|
883
|
+
output = [list(map(float, x.split())) for x in output.strip().splitlines()]
|
884
|
+
nvertex = int(output[1][0])
|
885
|
+
vertices = list(map(tuple, output[3:2+nvertex])) # exclude inf
|
886
|
+
nregion = int(output[1][1])
|
887
|
+
regions = [[int(y)-1 for y in x[1:]]
|
888
|
+
for x in output[2+nvertex:2+nvertex+nregion]]
|
889
|
+
ridge_points = [[int(y) for y in x[1:3]]
|
890
|
+
for x in output[3+nvertex+nregion:]]
|
891
|
+
ridge_vertices = [[int(y)-1 for y in x[3:]]
|
892
|
+
for x in output[3+nvertex+nregion:]]
|
893
|
+
|
894
|
+
# Compare results
|
895
|
+
vor = qhull.Voronoi(points, **kw)
|
896
|
+
|
897
|
+
def sorttuple(x):
|
898
|
+
return tuple(sorted(x))
|
899
|
+
|
900
|
+
assert_allclose(vor.vertices, vertices)
|
901
|
+
assert_equal(set(map(tuple, vor.regions)),
|
902
|
+
set(map(tuple, regions)))
|
903
|
+
|
904
|
+
p1 = list(zip(list(map(sorttuple, ridge_points)),
|
905
|
+
list(map(sorttuple, ridge_vertices))))
|
906
|
+
p2 = list(zip(list(map(sorttuple, vor.ridge_points.tolist())),
|
907
|
+
list(map(sorttuple, vor.ridge_vertices))))
|
908
|
+
p1.sort()
|
909
|
+
p2.sort()
|
910
|
+
|
911
|
+
assert_equal(p1, p2)
|
912
|
+
|
913
|
+
@pytest.mark.parametrize("name", sorted(DATASETS))
|
914
|
+
def test_ridges(self, name):
|
915
|
+
# Check that the ridges computed by Voronoi indeed separate
|
916
|
+
# the regions of nearest neighborhood, by comparing the result
|
917
|
+
# to KDTree.
|
918
|
+
|
919
|
+
points = DATASETS[name]
|
920
|
+
|
921
|
+
tree = KDTree(points)
|
922
|
+
vor = qhull.Voronoi(points)
|
923
|
+
|
924
|
+
for p, v in vor.ridge_dict.items():
|
925
|
+
# consider only finite ridges
|
926
|
+
if not np.all(np.asarray(v) >= 0):
|
927
|
+
continue
|
928
|
+
|
929
|
+
ridge_midpoint = vor.vertices[v].mean(axis=0)
|
930
|
+
d = 1e-6 * (points[p[0]] - ridge_midpoint)
|
931
|
+
|
932
|
+
dist, k = tree.query(ridge_midpoint + d, k=1)
|
933
|
+
assert_equal(k, p[0])
|
934
|
+
|
935
|
+
dist, k = tree.query(ridge_midpoint - d, k=1)
|
936
|
+
assert_equal(k, p[1])
|
937
|
+
|
938
|
+
def test_furthest_site(self):
|
939
|
+
points = [(0, 0), (0, 1), (1, 0), (0.5, 0.5), (1.1, 1.1)]
|
940
|
+
|
941
|
+
# qhull v o Fv Qbb Qc Qu < dat
|
942
|
+
output = """
|
943
|
+
2
|
944
|
+
3 5 1
|
945
|
+
-10.101 -10.101
|
946
|
+
0.6000000000000001 0.5
|
947
|
+
0.5 0.6000000000000001
|
948
|
+
3 0 2 1
|
949
|
+
2 0 1
|
950
|
+
2 0 2
|
951
|
+
0
|
952
|
+
3 0 2 1
|
953
|
+
5
|
954
|
+
4 0 2 0 2
|
955
|
+
4 0 4 1 2
|
956
|
+
4 0 1 0 1
|
957
|
+
4 1 4 0 1
|
958
|
+
4 2 4 0 2
|
959
|
+
"""
|
960
|
+
self._compare_qvoronoi(points, output, furthest_site=True)
|
961
|
+
|
962
|
+
def test_furthest_site_flag(self):
|
963
|
+
points = [(0, 0), (0, 1), (1, 0), (0.5, 0.5), (1.1, 1.1)]
|
964
|
+
|
965
|
+
vor = Voronoi(points)
|
966
|
+
assert_equal(vor.furthest_site,False)
|
967
|
+
vor = Voronoi(points,furthest_site=True)
|
968
|
+
assert_equal(vor.furthest_site,True)
|
969
|
+
|
970
|
+
@pytest.mark.fail_slow(10)
|
971
|
+
@pytest.mark.parametrize("name", sorted(INCREMENTAL_DATASETS))
|
972
|
+
def test_incremental(self, name):
|
973
|
+
# Test incremental construction of the triangulation
|
974
|
+
|
975
|
+
if INCREMENTAL_DATASETS[name][0][0].shape[1] > 3:
|
976
|
+
# too slow (testing of the result --- qhull is still fast)
|
977
|
+
return
|
978
|
+
|
979
|
+
chunks, opts = INCREMENTAL_DATASETS[name]
|
980
|
+
points = np.concatenate(chunks, axis=0)
|
981
|
+
|
982
|
+
obj = qhull.Voronoi(chunks[0], incremental=True,
|
983
|
+
qhull_options=opts)
|
984
|
+
for chunk in chunks[1:]:
|
985
|
+
obj.add_points(chunk)
|
986
|
+
|
987
|
+
obj2 = qhull.Voronoi(points)
|
988
|
+
|
989
|
+
obj3 = qhull.Voronoi(chunks[0], incremental=True,
|
990
|
+
qhull_options=opts)
|
991
|
+
if len(chunks) > 1:
|
992
|
+
obj3.add_points(np.concatenate(chunks[1:], axis=0),
|
993
|
+
restart=True)
|
994
|
+
|
995
|
+
# -- Check that the incremental mode agrees with upfront mode
|
996
|
+
assert_equal(len(obj.point_region), len(obj2.point_region))
|
997
|
+
assert_equal(len(obj.point_region), len(obj3.point_region))
|
998
|
+
|
999
|
+
# The vertices may be in different order or duplicated in
|
1000
|
+
# the incremental map
|
1001
|
+
for objx in obj, obj3:
|
1002
|
+
vertex_map = {-1: -1}
|
1003
|
+
for i, v in enumerate(objx.vertices):
|
1004
|
+
for j, v2 in enumerate(obj2.vertices):
|
1005
|
+
if np.allclose(v, v2):
|
1006
|
+
vertex_map[i] = j
|
1007
|
+
|
1008
|
+
def remap(x):
|
1009
|
+
if hasattr(x, '__len__'):
|
1010
|
+
return tuple({remap(y) for y in x})
|
1011
|
+
try:
|
1012
|
+
return vertex_map[x]
|
1013
|
+
except KeyError as e:
|
1014
|
+
message = (f"incremental result has spurious vertex "
|
1015
|
+
f"at {objx.vertices[x]!r}")
|
1016
|
+
raise AssertionError(message) from e
|
1017
|
+
|
1018
|
+
def simplified(x):
|
1019
|
+
items = set(map(sorted_tuple, x))
|
1020
|
+
if () in items:
|
1021
|
+
items.remove(())
|
1022
|
+
items = [x for x in items if len(x) > 1]
|
1023
|
+
items.sort()
|
1024
|
+
return items
|
1025
|
+
|
1026
|
+
assert_equal(
|
1027
|
+
simplified(remap(objx.regions)),
|
1028
|
+
simplified(obj2.regions)
|
1029
|
+
)
|
1030
|
+
assert_equal(
|
1031
|
+
simplified(remap(objx.ridge_vertices)),
|
1032
|
+
simplified(obj2.ridge_vertices)
|
1033
|
+
)
|
1034
|
+
|
1035
|
+
# XXX: compare ridge_points --- not clear exactly how to do this
|
1036
|
+
|
1037
|
+
|
1038
|
+
class Test_HalfspaceIntersection:
|
1039
|
+
def assert_unordered_allclose(self, arr1, arr2, rtol=1e-7):
|
1040
|
+
"""Check that every line in arr1 is only once in arr2"""
|
1041
|
+
assert_equal(arr1.shape, arr2.shape)
|
1042
|
+
|
1043
|
+
truths = np.zeros((arr1.shape[0],), dtype=bool)
|
1044
|
+
for l1 in arr1:
|
1045
|
+
indexes = np.nonzero((abs(arr2 - l1) < rtol).all(axis=1))[0]
|
1046
|
+
assert_equal(indexes.shape, (1,))
|
1047
|
+
truths[indexes[0]] = True
|
1048
|
+
assert_(truths.all())
|
1049
|
+
|
1050
|
+
@pytest.mark.parametrize("dt", [np.float64, int])
|
1051
|
+
def test_cube_halfspace_intersection(self, dt):
|
1052
|
+
halfspaces = np.array([[-1, 0, 0],
|
1053
|
+
[0, -1, 0],
|
1054
|
+
[1, 0, -2],
|
1055
|
+
[0, 1, -2]], dtype=dt)
|
1056
|
+
feasible_point = np.array([1, 1], dtype=dt)
|
1057
|
+
|
1058
|
+
points = np.array([[0.0, 0.0], [2.0, 0.0], [0.0, 2.0], [2.0, 2.0]])
|
1059
|
+
|
1060
|
+
hull = qhull.HalfspaceIntersection(halfspaces, feasible_point)
|
1061
|
+
|
1062
|
+
assert_allclose(hull.intersections, points)
|
1063
|
+
|
1064
|
+
def test_self_dual_polytope_intersection(self):
|
1065
|
+
fname = os.path.join(os.path.dirname(__file__), 'data',
|
1066
|
+
'selfdual-4d-polytope.txt')
|
1067
|
+
ineqs = np.genfromtxt(fname)
|
1068
|
+
halfspaces = -np.hstack((ineqs[:, 1:], ineqs[:, :1]))
|
1069
|
+
|
1070
|
+
feas_point = np.array([0., 0., 0., 0.])
|
1071
|
+
hs = qhull.HalfspaceIntersection(halfspaces, feas_point)
|
1072
|
+
|
1073
|
+
assert_equal(hs.intersections.shape, (24, 4))
|
1074
|
+
|
1075
|
+
assert_almost_equal(hs.dual_volume, 32.0)
|
1076
|
+
assert_equal(len(hs.dual_facets), 24)
|
1077
|
+
for facet in hs.dual_facets:
|
1078
|
+
assert_equal(len(facet), 6)
|
1079
|
+
|
1080
|
+
dists = halfspaces[:, -1] + halfspaces[:, :-1].dot(feas_point)
|
1081
|
+
self.assert_unordered_allclose((halfspaces[:, :-1].T/dists).T, hs.dual_points)
|
1082
|
+
|
1083
|
+
points = itertools.permutations([0., 0., 0.5, -0.5])
|
1084
|
+
for point in points:
|
1085
|
+
assert_equal(np.sum((hs.intersections == point).all(axis=1)), 1)
|
1086
|
+
|
1087
|
+
def test_wrong_feasible_point(self):
|
1088
|
+
halfspaces = np.array([[-1.0, 0.0, 0.0],
|
1089
|
+
[0.0, -1.0, 0.0],
|
1090
|
+
[1.0, 0.0, -1.0],
|
1091
|
+
[0.0, 1.0, -1.0]])
|
1092
|
+
feasible_point = np.array([0.5, 0.5, 0.5])
|
1093
|
+
#Feasible point is (ndim,) instead of (ndim-1,)
|
1094
|
+
assert_raises(ValueError,
|
1095
|
+
qhull.HalfspaceIntersection, halfspaces, feasible_point)
|
1096
|
+
feasible_point = np.array([[0.5], [0.5]])
|
1097
|
+
#Feasible point is (ndim-1, 1) instead of (ndim-1,)
|
1098
|
+
assert_raises(ValueError,
|
1099
|
+
qhull.HalfspaceIntersection, halfspaces, feasible_point)
|
1100
|
+
feasible_point = np.array([[0.5, 0.5]])
|
1101
|
+
#Feasible point is (1, ndim-1) instead of (ndim-1,)
|
1102
|
+
assert_raises(ValueError,
|
1103
|
+
qhull.HalfspaceIntersection, halfspaces, feasible_point)
|
1104
|
+
|
1105
|
+
feasible_point = np.array([-0.5, -0.5])
|
1106
|
+
#Feasible point is outside feasible region
|
1107
|
+
assert_raises(qhull.QhullError,
|
1108
|
+
qhull.HalfspaceIntersection, halfspaces, feasible_point)
|
1109
|
+
|
1110
|
+
def test_incremental(self):
|
1111
|
+
#Cube
|
1112
|
+
halfspaces = np.array([[0., 0., -1., -0.5],
|
1113
|
+
[0., -1., 0., -0.5],
|
1114
|
+
[-1., 0., 0., -0.5],
|
1115
|
+
[1., 0., 0., -0.5],
|
1116
|
+
[0., 1., 0., -0.5],
|
1117
|
+
[0., 0., 1., -0.5]])
|
1118
|
+
#Cut each summit
|
1119
|
+
extra_normals = np.array([[1., 1., 1.],
|
1120
|
+
[1., 1., -1.],
|
1121
|
+
[1., -1., 1.],
|
1122
|
+
[1, -1., -1.]])
|
1123
|
+
offsets = np.array([[-1.]]*8)
|
1124
|
+
extra_halfspaces = np.hstack((np.vstack((extra_normals, -extra_normals)),
|
1125
|
+
offsets))
|
1126
|
+
|
1127
|
+
feas_point = np.array([0., 0., 0.])
|
1128
|
+
|
1129
|
+
inc_hs = qhull.HalfspaceIntersection(halfspaces, feas_point, incremental=True)
|
1130
|
+
|
1131
|
+
inc_res_hs = qhull.HalfspaceIntersection(halfspaces, feas_point,
|
1132
|
+
incremental=True)
|
1133
|
+
|
1134
|
+
for i, ehs in enumerate(extra_halfspaces):
|
1135
|
+
inc_hs.add_halfspaces(ehs[np.newaxis, :])
|
1136
|
+
|
1137
|
+
inc_res_hs.add_halfspaces(ehs[np.newaxis, :], restart=True)
|
1138
|
+
|
1139
|
+
total = np.vstack((halfspaces, extra_halfspaces[:i+1, :]))
|
1140
|
+
|
1141
|
+
hs = qhull.HalfspaceIntersection(total, feas_point)
|
1142
|
+
|
1143
|
+
assert_allclose(inc_hs.halfspaces, inc_res_hs.halfspaces)
|
1144
|
+
assert_allclose(inc_hs.halfspaces, hs.halfspaces)
|
1145
|
+
|
1146
|
+
#Direct computation and restart should have points in same order
|
1147
|
+
assert_allclose(hs.intersections, inc_res_hs.intersections)
|
1148
|
+
#Incremental will have points in different order than direct computation
|
1149
|
+
self.assert_unordered_allclose(inc_hs.intersections, hs.intersections)
|
1150
|
+
|
1151
|
+
inc_hs.close()
|
1152
|
+
|
1153
|
+
def test_cube(self):
|
1154
|
+
# Halfspaces of the cube:
|
1155
|
+
halfspaces = np.array([[-1., 0., 0., 0.], # x >= 0
|
1156
|
+
[1., 0., 0., -1.], # x <= 1
|
1157
|
+
[0., -1., 0., 0.], # y >= 0
|
1158
|
+
[0., 1., 0., -1.], # y <= 1
|
1159
|
+
[0., 0., -1., 0.], # z >= 0
|
1160
|
+
[0., 0., 1., -1.]]) # z <= 1
|
1161
|
+
point = np.array([0.5, 0.5, 0.5])
|
1162
|
+
|
1163
|
+
hs = qhull.HalfspaceIntersection(halfspaces, point)
|
1164
|
+
|
1165
|
+
# qhalf H0.5,0.5,0.5 o < input.txt
|
1166
|
+
qhalf_points = np.array([
|
1167
|
+
[-2, 0, 0],
|
1168
|
+
[2, 0, 0],
|
1169
|
+
[0, -2, 0],
|
1170
|
+
[0, 2, 0],
|
1171
|
+
[0, 0, -2],
|
1172
|
+
[0, 0, 2]])
|
1173
|
+
qhalf_facets = [
|
1174
|
+
[2, 4, 0],
|
1175
|
+
[4, 2, 1],
|
1176
|
+
[5, 2, 0],
|
1177
|
+
[2, 5, 1],
|
1178
|
+
[3, 4, 1],
|
1179
|
+
[4, 3, 0],
|
1180
|
+
[5, 3, 1],
|
1181
|
+
[3, 5, 0]]
|
1182
|
+
|
1183
|
+
assert len(qhalf_facets) == len(hs.dual_facets)
|
1184
|
+
for a, b in zip(qhalf_facets, hs.dual_facets):
|
1185
|
+
assert set(a) == set(b) # facet orientation can differ
|
1186
|
+
|
1187
|
+
assert_allclose(hs.dual_points, qhalf_points)
|
1188
|
+
|
1189
|
+
@pytest.mark.parametrize("k", range(1,4))
|
1190
|
+
def test_halfspace_batch(self, k):
|
1191
|
+
# Test that we can add halfspaces a few at a time
|
1192
|
+
big_square = np.array([[ 1., 0., -2.],
|
1193
|
+
[-1., 0., -2.],
|
1194
|
+
[ 0., 1., -2.],
|
1195
|
+
[ 0., -1., -2.]])
|
1196
|
+
|
1197
|
+
small_square = np.array([[ 1., 0., -1.],
|
1198
|
+
[-1., 0., -1.],
|
1199
|
+
[ 0., 1., -1.],
|
1200
|
+
[ 0., -1., -1.]])
|
1201
|
+
|
1202
|
+
hs = qhull.HalfspaceIntersection(big_square,
|
1203
|
+
np.array([0.3141, 0.2718]),
|
1204
|
+
incremental=True)
|
1205
|
+
|
1206
|
+
hs.add_halfspaces(small_square[0:k,:])
|
1207
|
+
hs.add_halfspaces(small_square[k:4,:])
|
1208
|
+
hs.close()
|
1209
|
+
|
1210
|
+
# Check the intersections are correct (they are the corners of the small square)
|
1211
|
+
expected_intersections = np.array([[1., 1.],
|
1212
|
+
[1., -1.],
|
1213
|
+
[-1., 1.],
|
1214
|
+
[-1., -1.]])
|
1215
|
+
actual_intersections = hs.intersections
|
1216
|
+
# They may be in any order, so just check that under some permutation
|
1217
|
+
# expected=actual.
|
1218
|
+
|
1219
|
+
ind1 = np.lexsort((actual_intersections[:, 1], actual_intersections[:, 0]))
|
1220
|
+
ind2 = np.lexsort((expected_intersections[:, 1], expected_intersections[:, 0]))
|
1221
|
+
assert_allclose(actual_intersections[ind1], expected_intersections[ind2])
|
1222
|
+
|
1223
|
+
|
1224
|
+
@pytest.mark.parametrize("halfspaces", [
|
1225
|
+
(np.array([-0.70613882, -0.45589431, 0.04178256])),
|
1226
|
+
(np.array([[-0.70613882, -0.45589431, 0.04178256],
|
1227
|
+
[0.70807342, -0.45464871, -0.45969769],
|
1228
|
+
[0., 0.76515026, -0.35614825]])),
|
1229
|
+
])
|
1230
|
+
def test_gh_19865(self, halfspaces):
|
1231
|
+
# starting off with a feasible interior point and
|
1232
|
+
# adding halfspaces for which it is no longer feasible
|
1233
|
+
# should result in an error rather than a problematic
|
1234
|
+
# intersection polytope
|
1235
|
+
initial_square = np.array(
|
1236
|
+
[[1, 0, -1], [0, 1, -1], [-1, 0, -1], [0, -1, -1]]
|
1237
|
+
)
|
1238
|
+
incremental_intersector = qhull.HalfspaceIntersection(initial_square,
|
1239
|
+
np.zeros(2),
|
1240
|
+
incremental=True)
|
1241
|
+
with pytest.raises(qhull.QhullError, match="feasible.*-0.706.*"):
|
1242
|
+
incremental_intersector.add_halfspaces(halfspaces)
|
1243
|
+
|
1244
|
+
|
1245
|
+
def test_gh_19865_3d(self):
|
1246
|
+
# 3d case where closed half space is enforced for
|
1247
|
+
# feasibility
|
1248
|
+
halfspaces = np.array([[1, 1, 1, -1], # doesn't exclude origin
|
1249
|
+
[-1, -1, -1, -1], # doesn't exclude origin
|
1250
|
+
[1, 0, 0, 0]]) # the origin is on the line
|
1251
|
+
initial_cube = np.array([[1, 0, 0, -1],
|
1252
|
+
[-1, 0, 0, -1],
|
1253
|
+
[0, 1, 0, -1],
|
1254
|
+
[0, -1, 0, -1],
|
1255
|
+
[0, 0, 1, -1],
|
1256
|
+
[0, 0, -1, -1]])
|
1257
|
+
incremental_intersector = qhull.HalfspaceIntersection(initial_cube,
|
1258
|
+
np.zeros(3),
|
1259
|
+
incremental=True)
|
1260
|
+
with pytest.raises(qhull.QhullError, match="feasible.*[1 0 0 0]"):
|
1261
|
+
incremental_intersector.add_halfspaces(halfspaces)
|
1262
|
+
|
1263
|
+
|
1264
|
+
def test_2d_add_halfspace_input(self):
|
1265
|
+
# incrementally added halfspaces should respect the 2D
|
1266
|
+
# array shape requirement
|
1267
|
+
initial_square = np.array(
|
1268
|
+
[[1, 0, -1], [0, 1, -1], [-1, 0, -1], [0, -1, -1]]
|
1269
|
+
)
|
1270
|
+
incremental_intersector = qhull.HalfspaceIntersection(initial_square,
|
1271
|
+
np.zeros(2),
|
1272
|
+
incremental=True)
|
1273
|
+
with pytest.raises(ValueError, match="2D array"):
|
1274
|
+
incremental_intersector.add_halfspaces(np.ones((4, 4, 4)))
|
1275
|
+
|
1276
|
+
def test_1d_add_halfspace_input(self):
|
1277
|
+
# we do allow 1D `halfspaces` input to add_halfspaces()
|
1278
|
+
initial_square = np.array(
|
1279
|
+
[[1, 0, -1], [0, 1, -1], [-1, 0, -1], [0, -1, -1]]
|
1280
|
+
)
|
1281
|
+
incremental_intersector = qhull.HalfspaceIntersection(initial_square,
|
1282
|
+
np.zeros(2),
|
1283
|
+
incremental=True)
|
1284
|
+
assert_allclose(incremental_intersector.dual_vertices, np.arange(4))
|
1285
|
+
incremental_intersector.add_halfspaces(np.array([2, 2, -1]))
|
1286
|
+
assert_allclose(incremental_intersector.dual_vertices, np.arange(5))
|
1287
|
+
|
1288
|
+
|
1289
|
+
@pytest.mark.parametrize("diagram_type", [Voronoi, qhull.Delaunay])
|
1290
|
+
def test_gh_20623(diagram_type):
|
1291
|
+
rng = np.random.default_rng(123)
|
1292
|
+
invalid_data = rng.random((4, 10, 3))
|
1293
|
+
with pytest.raises(ValueError, match="dimensions"):
|
1294
|
+
diagram_type(invalid_data)
|
1295
|
+
|
1296
|
+
|
1297
|
+
def test_gh_21286():
|
1298
|
+
generators = np.array([[0, 0], [0, 1.1], [1, 0], [1, 1]])
|
1299
|
+
tri = qhull.Delaunay(generators)
|
1300
|
+
# verify absence of segfault reported in ticket:
|
1301
|
+
with pytest.raises(IndexError):
|
1302
|
+
tri.find_simplex(1)
|
1303
|
+
with pytest.raises(IndexError):
|
1304
|
+
# strikingly, Delaunay object has shape
|
1305
|
+
# () just like np.asanyarray(1) above
|
1306
|
+
tri.find_simplex(tri)
|
1307
|
+
|
1308
|
+
|
1309
|
+
def test_find_simplex_ndim_err():
|
1310
|
+
generators = np.array([[0, 0], [0, 1.1], [1, 0], [1, 1]])
|
1311
|
+
tri = qhull.Delaunay(generators)
|
1312
|
+
with pytest.raises(ValueError):
|
1313
|
+
tri.find_simplex([2, 2, 2])
|