[gentoo-commits] repo/gentoo:master commit in: dev-python/scipy/

["Michał Górny" <mgorny@gentoo.org>]

commit:     495a57b3d5e6430a002f343a2a186690f530ce5f
Author:     Michał Górny <mgorny <AT> gentoo <DOT> org>
AuthorDate: Sat Jan 11 05:04:11 2025 +0000
Commit:     Michał Górny <mgorny <AT> gentoo <DOT> org>
CommitDate: Sat Jan 11 09:29:00 2025 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=495a57b3

dev-python/scipy: Bump to 1.15.1

Signed-off-by: Michał Górny <mgorny <AT> gentoo.org>

 dev-python/scipy/Manifest            |   2 +
 dev-python/scipy/scipy-1.15.1.ebuild | 163 +++++++++++++++++++++++++++++++++++
 2 files changed, 165 insertions(+)

diff --git a/dev-python/scipy/Manifest b/dev-python/scipy/Manifest
index 667a5436da54..f19eb2f509f3 100644
--- a/dev-python/scipy/Manifest
+++ b/dev-python/scipy/Manifest
@@ -1,3 +1,5 @@
 DIST scipy-1.14.1.tar.gz 58620554 BLAKE2B 5cb383648a5f3b8d0d321efcd66992212c59ce3fc3dbf812a2fa97c09cb18831b280af6c7689553644f83c531a266e9152e2a139a12aed08307e1ed64deea78e SHA512 20e3cf13590f76dfdc40ca8f90e6d5a68502e74415f37fa24fdb8169098e1d7f0aa631ae742c8c3e9573fa7d63da61986d51f35f090a3785873ae0761f7fcfa6
 DIST scipy-1.15.0.tar.gz 59407226 BLAKE2B 30e2f1c797c46646b21578c9b22145773c27119674ec8d4bba1b6e4bac4fe6d56d7b6fa49964783f432008a027e1498edbdceec6d1345aaee4bbe8975648b9b7 SHA512 62c2616535790a65cfe5907abaaa655ca9268406765e9baab31097aece7a3887e2bc616a77abe9869b2ff4b07dc4a56fc1dbbaaf82ebfd7d9a89e05b8e87df86
+DIST scipy-1.15.1.tar.gz 59407493 BLAKE2B 959e1e311c5e53c2751794f629777a611ebd79c87d6cc2dec330ca335100b773528aa151e319cd9ae0520257d89597acdb3aca2319ab78c367c135499f54001f SHA512 92cb6a2cdb5a305eef0aa81baea4b90c14c0084c09ffbf62f2d6ee8dd5a08791a838838e2d4907356b5b07d0b4f74a81a8e861f81628bd9e5c7e0216e3f77b17
 DIST scipy-html-1.14.0.zip 65723829 BLAKE2B ba47dbf00a5d2a53a9addc5ea68ab18b42f211a018b89aa4b0b57ff0dee02e410a3effc59ddf8fbbc5aa33075d45d86880aed3a14068da5bd7b62ee526199967 SHA512 93be0bafcc64cea1ba130bbcc77c0741acc4f819c84a5030391a22657a1bc63abe8434a2723f66b7ad04c0809dc6d02e3a97ffb8d94bd3d4a4bb759ee796b475
+DIST scipy-html-1.15.1.zip 68514487 BLAKE2B 328550d3d5700c520b2a6404c326a54ffecacc95ad5d05c727d833803d698346fb0188b6bcb659838c1a0f26355b28d70df02cddff48b8bdf564292e6cab56bc SHA512 14311da185c9454fe7dd2a8253dc4fad434664df4c7261b22a3415de576a49d51ce9a00dfb3c3ea4df9ce2bf1c9d7547ceeeb5af72eeda823243d7a2541db676

diff --git a/dev-python/scipy/scipy-1.15.1.ebuild b/dev-python/scipy/scipy-1.15.1.ebuild
new file mode 100644
index 000000000000..ac7448bc5b42
--- /dev/null
+++ b/dev-python/scipy/scipy-1.15.1.ebuild
@@ -0,0 +1,163 @@
+# 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 python3_{10..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 [[ ${PV} != *rc* ]] ; then
+		KEYWORDS="~amd64 ~arm ~arm64 ~loong ~ppc ~ppc64 ~riscv ~s390 ~sparc ~x86"
+	fi
+fi
+
+LICENSE="BSD LGPL-2"
+SLOT="0"
+IUSE="doc +fortran test-rust"
+
+# umfpack is technically optional but it's preferred to have it available.
+DEPEND="
+	>=dev-python/numpy-1.23.5:=[lapack,${PYTHON_USEDEP}]
+	sci-libs/arpack:=
+	sci-libs/umfpack
+	virtual/cblas
+	>=virtual/lapack-3.8
+"
+RDEPEND="
+	${DEPEND}
+	dev-python/pillow[${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[${PYTHON_USEDEP}]
+	>=dev-build/meson-1.1.0
+	!kernel_Darwin? ( dev-util/patchelf )
+	virtual/pkgconfig
+	doc? ( app-arch/unzip )
+	fortran? (
+		>=dev-python/pythran-0.16.0[${PYTHON_USEDEP}]
+	)
+	test? (
+		>=dev-python/hypothesis-6.30[${PYTHON_USEDEP}]
+	)
+	test-rust? (
+		dev-python/pooch[${PYTHON_USEDEP}]
+	)
+"
+
+EPYTEST_XDIST=1
+distutils_enable_tests pytest
+
+src_unpack() {
+	default
+
+	if use doc; then
+		unzip -qo "${DISTDIR}"/${PN}-html-${DOC_PV}.zip -d html || die
+	fi
+}
+
+python_configure_all() {
+	DISTUTILS_ARGS=(
+		-Dblas=blas
+		-Dlapack=lapack
+		-Duse-pythran=$(usex fortran true false)
+	)
+
+	# https://bugs.gentoo.org/932721
+	has_version '>=dev-python/numpy-2.0.0' && filter-lto
+}
+
+python_test() {
+	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
+
+		# Precision issue with diff. blas?
+		scipy/optimize/tests/test__basinhopping.py::Test_Metropolis::test_gh7799
+
+		# Crashes with assertion, not a regression
+		# https://github.com/scipy/scipy/issues/19321
+		scipy/signal/tests/test_signaltools.py::test_lfilter_bad_object
+
+		# timeouts
+		scipy/sparse/linalg/tests/test_propack.py::test_examples
+		# hang or incredibly slow
+		scipy/optimize/tests/test_lsq_linear.py::TestBVLS::test_large_rank_deficient
+		scipy/optimize/tests/test_lsq_linear.py::TestTRF::test_large_rank_deficient
+
+		# TODO
+		scipy/optimize/tests/test_minimize_constrained.py::TestTrustRegionConstr::test_list_of_problems
+	)
+	local EPYTEST_IGNORE=()
+
+	if ! has_version -b "dev-python/pooch[${PYTHON_USEDEP}]" ; then
+		EPYTEST_IGNORE+=(
+			scipy/datasets/tests/test_data.py
+		)
+	fi
+
+	case ${EPYTHON} in
+		pypy3)
+			EPYTEST_DESELECT+=(
+				# fd leaks in tests
+				# https://github.com/scipy/scipy/issues/19553
+				scipy/fft/_pocketfft/tests/test_real_transforms.py
+				# TODO
+				'scipy/special/tests/test_data.py::test_boost[<Data for expi: expinti_data_long_ipp-expinti_data_long>]'
+				# missing dict.__ror__
+				# https://github.com/pypy/pypy/issues/4934
+				'scipy/sparse/tests/test_dok.py::test_dunder_ror[dok_matrix]'
+				# mismatched exception message
+				scipy/optimize/tests/test_hessian_update_strategy.py::TestHessianUpdateStrategy::test_initialize_catch_illegal
+			)
+			;;
+	esac
+
+	local -x PYTEST_DISABLE_PLUGIN_AUTOLOAD=1
+	# avoid other stuff being multithreaded when using xdist
+	local -x PYTHON_CPU_COUNT=1
+	epytest scipy
+}
+
+python_install_all() {
+	use doc && local HTML_DOCS=( "${WORKDIR}"/html/. )
+
+	distutils-r1_python_install_all
+}