commit: 73f204cb48f41674f66b801eb364ea297f44d118 Author: Michał Górny <mgorny <AT> gentoo <DOT> org> AuthorDate: Wed Oct 1 15:41:23 2025 +0000 Commit: Michał Górny <mgorny <AT> gentoo <DOT> org> CommitDate: Wed Oct 1 15:41:32 2025 +0000 URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=73f204cb
dev-python/scipy: Unpin dependencies Bug: https://bugs.gentoo.org/963618 Signed-off-by: Michał Górny <mgorny <AT> gentoo.org> dev-python/scipy/scipy-1.16.2-r1.ebuild | 185 ++++++++++++++++++++++++++++++++ 1 file changed, 185 insertions(+) diff --git a/dev-python/scipy/scipy-1.16.2-r1.ebuild b/dev-python/scipy/scipy-1.16.2-r1.ebuild new file mode 100644 index 000000000000..ed87bad4dceb --- /dev/null +++ b/dev-python/scipy/scipy-1.16.2-r1.ebuild @@ -0,0 +1,185 @@ +# Copyright 1999-2025 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +FORTRAN_NEEDED=fortran +DISTUTILS_EXT=1 +DISTUTILS_USE_PEP517=meson-python +PYTHON_COMPAT=( pypy3_11 python3_{11..13} ) +PYTHON_REQ_USE="threads(+)" + +inherit flag-o-matic fortran-2 distutils-r1 + +DESCRIPTION="Scientific algorithms library for Python" +HOMEPAGE=" + https://scipy.org/ + https://github.com/scipy/scipy/ + https://pypi.org/project/scipy/ +" + +if [[ ${PV} == *9999* ]] ; then + inherit git-r3 + + # Need submodules, so git for now. + EGIT_REPO_URI="https://github.com/scipy/scipy"; + EGIT_BRANCH="maintenance/$(ver_cut 1-2).x" + EGIT_SUBMODULES=( '*' ) +else + inherit pypi + + # Upstream is often behind with doc updates + DOC_PV=${PV} + + SRC_URI+=" + doc? ( + https://docs.scipy.org/doc/${PN}-${DOC_PV}/${PN}-html-${DOC_PV}.zip + ) + " + + if [[ ${PV} != *rc* ]] ; then + KEYWORDS="~amd64 ~arm ~arm64 ~loong ~ppc ~ppc64 ~riscv ~s390 ~sparc ~x86" + fi +fi + +LICENSE="BSD LGPL-2" +SLOT="0" +IUSE="doc +fortran test-rust" + +# pythran is needed in both BDEPEND (for /usr/bin/pythran) and in DEPEND +# to actually compile code generated by pythran (headers and such needed). +# +# umfpack is technically optional but it's preferred to have it available. +COMMON_DEPEND=" + >=dev-python/numpy-1.23.5:=[lapack,${PYTHON_USEDEP}] + >=media-libs/qhull-2020.2:= + sci-libs/arpack:= + sci-libs/umfpack + virtual/cblas + >=virtual/lapack-3.8 +" +# Only boost.math is used, and meson.build doesn't even look up specific boost modules. +DEPEND=" + ${COMMON_DEPEND} + >=dev-libs/boost-1.88.0 +" +RDEPEND=" + ${COMMON_DEPEND} + dev-python/pillow[${PYTHON_USEDEP}] +" +DEPEND+=" + fortran? ( + >=dev-python/pythran-0.16.0[${PYTHON_USEDEP}] + ) +" +BDEPEND=" + dev-lang/swig + >=dev-python/cython-3.0.8[${PYTHON_USEDEP}] + >=dev-python/meson-python-0.15.0[${PYTHON_USEDEP}] + >=dev-python/pybind11-2.13.2[${PYTHON_USEDEP}] + >=dev-python/pytest-8.0.0[${PYTHON_USEDEP}] + >=dev-build/meson-1.5.0 + !kernel_Darwin? ( dev-util/patchelf ) + virtual/pkgconfig + doc? ( app-arch/unzip ) + fortran? ( + >=dev-python/pythran-0.16.0[${PYTHON_USEDEP}] + ) + test-rust? ( + dev-python/pooch[${PYTHON_USEDEP}] + ) +" + +EPYTEST_PLUGINS=( hypothesis ) +EPYTEST_XDIST=1 +distutils_enable_tests pytest + +src_unpack() { + default + + if use doc; then + unzip -qo "${DISTDIR}"/${PN}-html-${DOC_PV}.zip -d html || die + fi +} + +src_prepare() { + distutils-r1_src_prepare + + # unpin system dependencies + sed -i -e "s@version : '@&>=@" meson.build || die +} + +python_configure_all() { + DISTUTILS_ARGS=( + -Dblas=blas + -Dlapack=lapack + -Duse-pythran=$(usex fortran true false) + -Duse-system-libraries=all + ) + + # https://bugs.gentoo.org/932721 + has_version '>=dev-python/numpy-2.0.0' && filter-lto +} + +python_test() { + # We run tests in parallel, so avoid having n^2 threads in lapack + # tests. + local -x BLIS_NUM_THREADS=1 + local -x MKL_NUM_THREADS=1 + local -x OMP_NUM_THREADS=1 + local -x OPENBLAS_NUM_THREADS=1 + + cd "${BUILD_DIR}/install$(python_get_sitedir)" || die + + local EPYTEST_DESELECT=( + # Network + scipy/datasets/tests/test_data.py::TestDatasets::test_existence_all + scipy/datasets/tests/test_data.py::TestDatasets::test_ascent + scipy/datasets/tests/test_data.py::TestDatasets::test_face + scipy/datasets/tests/test_data.py::TestDatasets::test_electrocardiogram + + # Crashes with assertion, not a regression + # https://github.com/scipy/scipy/issues/19321 + scipy/signal/tests/test_signaltools.py::test_lfilter_bad_object + + # Awfully slow tests + scipy/interpolate/tests/test_bsplines.py::TestBatch::test_batch + scipy/linalg/tests/test_basic.py::TestLstsq::test_random_complex_exact + scipy/sparse/linalg/_eigen/tests/test_svds.py::test_small_sigma_sparse + + # TODO: minor precision errors + 'scipy/linalg/tests/test_batch.py::TestBatch::test_solve[float32-bdim2]' + 'scipy/linalg/tests/test_batch.py::TestBatch::test_lu_solve[float32-bdim2]' + 'scipy/stats/tests/test_continuous.py::TestDistributions::test_funcs[cdf-methods11-x-Normal][' + + # Crashes, probably too big + 'scipy/interpolate/tests/test_fitpack2.py::TestRectBivariateSpline::test_spline_large_2d_maxit' + ) + local EPYTEST_IGNORE=() + + if ! has_version -b "dev-python/pooch[${PYTHON_USEDEP}]" ; then + EPYTEST_IGNORE+=( + scipy/datasets/tests/test_data.py + ) + fi + + case ${EPYTHON} in + pypy3*) + EPYTEST_DESELECT+=( + # TODO + scipy/special/tests/test_data.py::test_boost + scipy/_lib/tests/test_ccallback.py::test_callbacks + ) + ;; + esac + + # avoid other stuff being multithreaded when using xdist + local -x PYTHON_CPU_COUNT=1 + epytest scipy +} + +python_install_all() { + use doc && local HTML_DOCS=( "${WORKDIR}"/html/. ) + + distutils-r1_python_install_all +}
