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dev-python/scipy: Bump to 1.16.0_rc1
Signed-off-by: Michał Górny <mgorny@gentoo.org>
This commit is contained in:
Michał Górny
@@ -1,4 +1,5 @@
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DIST scipy-1.15.2.tar.gz 59417316 BLAKE2B 7ae748a58b6a7fb2674dc6627c3d6f4f28694283bf19ca9973fcf5796ccb0e2e35bb7cd8fbfbefa21cb832b771e563f478bc09ded61d989ea47625e7ac35e1bd SHA512 e772aa040622ef457478e08eb41471af33784cafc2022f091a30563f6abed067cdbae424a5ae86f9dab8c1adc67276794b67cb7cb7c7963ca55a38529df63834
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DIST scipy-1.15.3.tar.gz 59419214 BLAKE2B 526e6182e4991e52fea69452b7894b203d31089ee1f8640ef1bff8f1fa57c31a7179a1ab82325689f3b0a7b907c34adb64b80e640780c99e166f6999adbb1524 SHA512 009de94a64c9361b261788ef3577d636a20ca23ff5c8f12f5e19a4ba4d6177ef7ade0cf1a5ee740bd1c6d740193d70b314d1abd83ab65fcb5d5cf2d2ba06bfb1
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DIST scipy-1.16.0rc1.tar.gz 30582387 BLAKE2B cc356de35aa7a821c3e363997ab014765df800ab8229c34b04d42088221391199b0726ff3d6cc09b5698aa1970d451a4f79993bb684f2f62d3c38a2a28e34149 SHA512 31c9fe5da1de08ebd7773040c2ac6de5d1d62daf4e52d95b78eacba93e0fcfcc91e97b672796d3084d2b48dc6718ba7e8b08daa91407b88449df727db349bf3f
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DIST scipy-html-1.15.2.zip 68568078 BLAKE2B 270f1d89bbcb707616f7af0e1bd90909c1f33d647cf55e42dbf27128ecd90f619f0d579d8897eb04851b6327df1682236c5fd9c4c948b1fd99b083145681a202 SHA512 48e09d3678547775c6c86b82cdb4ef5e7eed7722c6ba8d53170384c3a9380b2bb29fc467b5ee66ae2ec1a621930c8bf20adfc8db3a75546a6ba8e9906df03426
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DIST scipy-html-1.15.3.zip 68590525 BLAKE2B f6473e273843e3eb2aa791be1b885a11ac2b77accdf00ea2d7bc78dc59228dede66259ff4d2ac616ceeb3152a80a8036226622240d963a8bce51dc0143b6aea4 SHA512 df59c2a53dc9c8a64631a2c9906762de046b9beefd759e0810afdcbb00e4da8800e83902d49fa81d791bccb0ed190e00f0ea4948b855e97ad9b5d7a0984d4eec
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24
dev-python/scipy/files/scipy-1.16.0_rc1-pypy.patch
Normal file
24
dev-python/scipy/files/scipy-1.16.0_rc1-pypy.patch
Normal file
@@ -0,0 +1,24 @@
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diff --git a/scipy/stats/_stats_mstats_common.py b/scipy/stats/_stats_mstats_common.py
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index 9a621016e..3a0ec400d 100644
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--- a/scipy/stats/_stats_mstats_common.py
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+++ b/scipy/stats/_stats_mstats_common.py
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@@ -21,7 +21,8 @@ def _n_samples_optional_x(kwargs):
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@_axis_nan_policy_factory(TheilslopesResult, default_axis=None, n_outputs=4,
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n_samples=_n_samples_optional_x,
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- result_to_tuple=tuple, paired=True, too_small=1)
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+ result_to_tuple=lambda x, _: tuple(x), paired=True,
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+ too_small=1)
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def theilslopes(y, x=None, alpha=0.95, method='separate'):
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r"""
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Computes the Theil-Sen estimator for a set of points (x, y).
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@@ -204,7 +205,8 @@ def _find_repeats(arr):
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@_axis_nan_policy_factory(SiegelslopesResult, default_axis=None, n_outputs=2,
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n_samples=_n_samples_optional_x,
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- result_to_tuple=tuple, paired=True, too_small=1)
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+ result_to_tuple=lambda x, _: tuple(x), paired=True,
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+ too_small=1)
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def siegelslopes(y, x=None, method="hierarchical"):
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r"""
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Computes the Siegel estimator for a set of points (x, y).
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174
dev-python/scipy/scipy-1.16.0_rc1.ebuild
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174
dev-python/scipy/scipy-1.16.0_rc1.ebuild
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@@ -0,0 +1,174 @@
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# Copyright 1999-2025 Gentoo Authors
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# Distributed under the terms of the GNU General Public License v2
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EAPI=8
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FORTRAN_NEEDED=fortran
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DISTUTILS_EXT=1
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DISTUTILS_USE_PEP517=meson-python
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PYTHON_COMPAT=( pypy3_11 python3_{11..13} )
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PYTHON_REQ_USE="threads(+)"
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inherit flag-o-matic fortran-2 distutils-r1
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DESCRIPTION="Scientific algorithms library for Python"
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HOMEPAGE="
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https://scipy.org/
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https://github.com/scipy/scipy/
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https://pypi.org/project/scipy/
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"
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if [[ ${PV} == *9999* ]] ; then
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inherit git-r3
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# Need submodules, so git for now.
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EGIT_REPO_URI="https://github.com/scipy/scipy"
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EGIT_BRANCH="maintenance/$(ver_cut 1-2).x"
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EGIT_SUBMODULES=( '*' )
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else
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inherit pypi
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# Upstream is often behind with doc updates
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DOC_PV=1.15.3
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SRC_URI+="
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doc? (
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https://docs.scipy.org/doc/${PN}-${DOC_PV}/${PN}-html-${DOC_PV}.zip
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)"
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if [[ ${PV} != *rc* ]] ; then
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KEYWORDS="~amd64 ~arm ~arm64 ~loong ~ppc ~ppc64 ~riscv ~s390 ~sparc ~x86"
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fi
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fi
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LICENSE="BSD LGPL-2"
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SLOT="0"
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IUSE="doc +fortran test-rust"
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# pythran is needed in both BDEPEND (for /usr/bin/pythran) and in DEPEND
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# to actually compile code generated by pythran (headers and such needed).
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#
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# umfpack is technically optional but it's preferred to have it available.
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DEPEND="
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dev-libs/boost:=
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>=dev-python/numpy-1.23.5:=[lapack,${PYTHON_USEDEP}]
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~media-libs/qhull-2020.2:=
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sci-libs/arpack:=
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sci-libs/umfpack
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virtual/cblas
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>=virtual/lapack-3.8
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"
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RDEPEND="
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${DEPEND}
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dev-python/pillow[${PYTHON_USEDEP}]
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"
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DEPEND+="
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fortran? (
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>=dev-python/pythran-0.16.0[${PYTHON_USEDEP}]
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)
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"
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BDEPEND="
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dev-lang/swig
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>=dev-python/cython-3.0.8[${PYTHON_USEDEP}]
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>=dev-python/meson-python-0.15.0[${PYTHON_USEDEP}]
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>=dev-python/pybind11-2.13.2[${PYTHON_USEDEP}]
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>=dev-build/meson-1.1.0
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!kernel_Darwin? ( dev-util/patchelf )
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virtual/pkgconfig
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doc? ( app-arch/unzip )
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fortran? (
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>=dev-python/pythran-0.16.0[${PYTHON_USEDEP}]
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)
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test? (
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>=dev-python/hypothesis-6.30[${PYTHON_USEDEP}]
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)
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test-rust? (
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dev-python/pooch[${PYTHON_USEDEP}]
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)
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"
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EPYTEST_XDIST=1
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distutils_enable_tests pytest
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PATCHES=(
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# a subset of https://github.com/scipy/scipy/pull/23044
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"${FILESDIR}/${P}-pypy.patch"
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)
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src_unpack() {
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default
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if use doc; then
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unzip -qo "${DISTDIR}"/${PN}-html-${DOC_PV}.zip -d html || die
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fi
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}
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python_configure_all() {
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DISTUTILS_ARGS=(
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-Dblas=blas
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-Dlapack=lapack
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-Duse-pythran=$(usex fortran true false)
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# note: recheck on version bumps, upstream is planning
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# to allow more
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'-Duse-system-libraries=boost.math,qhull'
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)
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# https://bugs.gentoo.org/932721
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has_version '>=dev-python/numpy-2.0.0' && filter-lto
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}
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python_test() {
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cd "${BUILD_DIR}/install$(python_get_sitedir)" || die
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local EPYTEST_DESELECT=(
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# Network
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scipy/datasets/tests/test_data.py::TestDatasets::test_existence_all
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scipy/datasets/tests/test_data.py::TestDatasets::test_ascent
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scipy/datasets/tests/test_data.py::TestDatasets::test_face
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scipy/datasets/tests/test_data.py::TestDatasets::test_electrocardiogram
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# Crashes with assertion, not a regression
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# https://github.com/scipy/scipy/issues/19321
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scipy/signal/tests/test_signaltools.py::test_lfilter_bad_object
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# Awfully slow tests
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scipy/interpolate/tests/test_bsplines.py::TestBatch::test_batch
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scipy/linalg/tests/test_basic.py::TestLstsq::test_random_complex_exact
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scipy/sparse/linalg/_eigen/tests/test_svds.py::test_small_sigma_sparse
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# TODO: minor precision errors
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'scipy/linalg/tests/test_batch.py::TestBatch::test_solve[float32-bdim2]'
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'scipy/linalg/tests/test_batch.py::TestBatch::test_lu_solve[float32-bdim2]'
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# Crashes, probably too big
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'scipy/interpolate/tests/test_fitpack2.py::TestRectBivariateSpline::test_spline_large_2d_maxit'
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)
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local EPYTEST_IGNORE=()
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if ! has_version -b "dev-python/pooch[${PYTHON_USEDEP}]" ; then
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EPYTEST_IGNORE+=(
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scipy/datasets/tests/test_data.py
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)
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fi
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case ${EPYTHON} in
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pypy3*)
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EPYTEST_DESELECT+=(
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# TODO
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scipy/special/tests/test_data.py::test_boost
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scipy/_lib/tests/test_ccallback.py::test_callbacks
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)
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;;
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esac
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local -x PYTEST_DISABLE_PLUGIN_AUTOLOAD=1
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# avoid other stuff being multithreaded when using xdist
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local -x PYTHON_CPU_COUNT=1
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epytest scipy
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}
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python_install_all() {
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use doc && local HTML_DOCS=( "${WORKDIR}"/html/. )
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distutils-r1_python_install_all
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}
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