gentoo auto-resync : 04:04:2024 - 20:14:38

2 files changed, 169 insertions, 0 deletions

diff --git a/dev-python/scipy/Manifest b/dev-python/scipy/Manifest
index c05989124c42..70c374bbbcf0 100644
--- a/dev-python/scipy/Manifest
+++ b/dev-python/scipy/Manifest
@@ -1,11 +1,14 @@
 DIST scipy-1.11.3.tar.gz 56335652 BLAKE2B 2b35c24522b2bd498b4ebe84a854c8ec1e62917e7b899b3e3526abb9780c1e56f8e776a3bb1eab1bedb17a273fac881e5ffdaac808084a4f5a5f97428bff1029 SHA512 6491c4e479d9f4f02e677396a25ddca947a0dc6c009fc2ec34c658012a6224c0b535f14045bb011fbde9973ea987d184574ed64e6760c31798ec860eb0896fcf
 DIST scipy-1.11.4.tar.gz 56336202 BLAKE2B a2091a1edb54eb73c2de6ed8c62a7e571f37b247c9af50947aa97b739342c96b87b20a82b1a238c859fa532c84249cbadde228366dcea3555e9a506c1ae55031 SHA512 2eb403f6de9723b411d948b8e1b5457078704c605b8e760d42362c82d802e167eaaf701ddb8b480af2bdf2efe4dbf66fcc4e97321519bb8dab19b0e2a8976beb
 DIST scipy-1.12.0.tar.gz 56811768 BLAKE2B 03c142274f1466747935fa54fab427f3a48c1642406211fa1a0f8ad5e0f194baecf76182e0448a0fb647063871483239cd876ce431cd9406e396e6170912ab64 SHA512 376ed94c4caaf782814bb07047fff0b363f7b608a0399697c6e862432333cbe6d3abb351730a574a3f077b3cdd9cb7474090a460baffcfbd5546bcfee309b6e7
+DIST scipy-1.13.0.tar.gz 57204550 BLAKE2B cfbb4e76efae952854e9ff4ed254e9819b58d224906e1ded3c6a914b1e28b5fad15f8bbbb4a9c413969d6e4b1faf4e0038a36729171ff06e640b241a9dd4af94 SHA512 9bd6fd3f76742a07e5bb003edf4c0e3a82edf749077502fbce3d16fe595d455846edcf57db12ec0a9d4792803e974355362d919047414badfcaededf1e4343f7
 DIST scipy-1.13.0rc1.tar.gz 57201979 BLAKE2B 0e257dbe3707b373045eef21384f64847017ffd281e41acb4358e90fec7be5983462849fb199e0bf2ae7944d2a1511c181bd4b1d0ba01f8691062fb9fdebd689 SHA512 de03fdd61bde610bebe7ede8ef22c72e2f65f68e3584b70069b59539a1453a0f1b34baa065ff3cbcb109d3e9a02c705a964116ca11d85700c58ad094772962e2
 DIST scipy-html-1.11.0.zip 50421508 BLAKE2B cb5e4a4f8817a80f54ae73b4a47ba22d2438df46ebfe27ef5fdc2695fdd983226f4ccae925bf82b15d01ced4f4b6807384ecadac5e1aa7700aa887ad06b7d065 SHA512 33718bbd5e828687d93fccc441a53b6a2e8f54ac4952d3b69d4c4668f55cb6ef5aba33df9acda20b2400effa5ae71767b2a5602a365ad2045a6edd24ff89c253
 DIST scipy-html-1.11.2.zip 50435722 BLAKE2B 460c67509a8bf50986f866ee2f90e634af21ddd71508efeef5681c2ee2130c3f79b4b428bc21277bfb310bb45ccad1fb38221ada43620055377cdc4839b9d1e5 SHA512 986a6e37f9e01dc4925ef22af6ff660bae1e4b66e57270262974c207dfb70285e3f8f548774d6e81d5f457b9198c0ba1c06e6d689fe5d54fdea878c1e5a7f797
+DIST scipy-html-1.13.0.zip 65327245 BLAKE2B 5e5ffbf4ff4a28c5a003da0e5170ef5eef1b430ecca0284a89aed5f96f7afc549db001beb2e56b3debbd3527c57b773b25c35579b32d8a6d8e5e97a75db4d38b SHA512 792c32f077d76d47e42d02c5047990a6afdcdc9c31dcc7e9987e7a5aa62c56aec44dcf7d14e3f94ae59f8fb718ce89a2835b87d2aef7a16ce9a534361b7329d7
 EBUILD scipy-1.11.3-r1.ebuild 3648 BLAKE2B 261622d24c0f045e1101ece7b5615714e0c78738294c027d89e0baafba4f9ecf10b0e8070ebfcdafc7a06cf5ccae780d2fe7174530ae384f1e6fcb5ba06ac787 SHA512 6ff8e47c1b90fc6942a0d55e44621dd6e8d442e0af68e6c6878346243dd6e94c7b70bed8908dc624896cd9185778ba4897721fc828074b93bae442c041cd3091
 EBUILD scipy-1.11.4.ebuild 3660 BLAKE2B e5e7918bf5f1abfaa9d2fdec01b5c52d4e0204854326c488b0c68652c295feb9e7d4cd55f4cf0f56b4ecaf4b8cdf89bf2ce788fc1133bedaf6276518a6b861ad SHA512 f761a1cce91457cdc8e8f25298ce62390e1d4beae4b93a5722218988796f28b5b88aaa98bab3d97afbcf1f08ceef72e12e7917fe4e387183e0068c309c641966
 EBUILD scipy-1.12.0.ebuild 3620 BLAKE2B c5c8dfd752b81e16f61a25beabb20a20b3d9087b1a6c514fd7f8d3710435d68b49ad55ba2f082e468a9066f4ad1bff664036c073cfb48cf16d09fcb0b1fafb13 SHA512 e2ebf0e8d464306b0d12b4e831cd7c253b2431fa922d4276c516238d93c4b1f0b0275a3354b31428e9bc43e05eafaf67f92a6b481d9be941421693687bdb513f
+EBUILD scipy-1.13.0.ebuild 4170 BLAKE2B 5d900c31e66bcf6bac33a5629df7f8bbdb072318793e4e7b15138d1716cc365443ff5fd254cbc88ec5455e742575bf67f7f98e4f26a2174c6f45cbd7b6323124 SHA512 290d1698742b2547862e15cd6b74799b38456193e70f1d3f5d299e7430ec9d6a8f587de303761cb20fa022127c93bcae0311f9aca824654af94e0d8a74d63b23
 EBUILD scipy-1.13.0_rc1.ebuild 3788 BLAKE2B b72f81d31de807ddc7ae7b83618396bef89f820d37bb9d97d03d40129229ae95ea20c7959a32bfa9be98caeed1dcb1341a906d15580ac25d52f4dd9109cacd29 SHA512 5227c0224b62a78c2797ce45efafff987e08b14d025eb2d8dfcea59c36d087bc1a84c1b9497301efde99b7bd0c766006e3ba3f93a2c90f032e2c3d9ad8c55a5b
 MISC metadata.xml 953 BLAKE2B a09ea1325a175e349fbc3ca77c5e7b373538ea01147e8544f44b7d4e0c55fbbc2012431fcfe9a3457e82d295e4b5630df1ed69c48ef3462ed9b157af30a1e09a SHA512 74a21c6e1a9bef95b3d74a9513c59d302f473725c04fa32a9991b6108113c0f4b78179ce4a628140e7aa870c24ca60bddf7a00063b6b73dd45110112311371d8
diff --git a/dev-python/scipy/scipy-1.13.0.ebuild b/dev-python/scipy/scipy-1.13.0.ebuild
new file mode 100644
index 000000000000..0f7cff9b94e5
--- /dev/null
+++ b/dev-python/scipy/scipy-1.13.0.ebuild
@@ -0,0 +1,166 @@
+# Copyright 1999-2024 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..12} )
+PYTHON_REQ_USE="threads(+)"
+
+inherit 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 [[ ${PV} != *rc* ]] ; then
+		KEYWORDS="~amd64 ~arm ~arm64 ~loong ~ppc ~ppc64 ~riscv ~s390 ~sparc ~x86"
+	fi
+fi
+
+LICENSE="BSD LGPL-2"
+SLOT="0"
+IUSE="doc +fortran test-rust"
+
+# umfpack is technically optional but it's preferred to have it available.
+DEPEND="
+	>=dev-python/numpy-1.22.4:=[lapack,${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/pybind11-2.12.0[${PYTHON_USEDEP}]
+	>=dev-build/meson-1.1.0
+	!kernel_Darwin? ( dev-util/patchelf )
+	virtual/pkgconfig
+	doc? ( app-arch/unzip )
+	fortran? ( >=dev-python/pythran-0.14.0[${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)
+	)
+
+	# hide real scipy, to prevent pythran crashing when scipy is being
+	# rebuilt for new numpy ABI
+	# https://github.com/serge-sans-paille/pythran/issues/2194
+	cat >> "${T}/scipy.py" <<-EOF || die
+		raise ImportError("hide real scipy")
+	EOF
+}
+
+python_compile() {
+	local -x PYTHONPATH="${T}${PYTHONPATH+:${PYTHONPATH}}"
+	distutils-r1_python_compile
+}
+
+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 ${EPYTHON} in
+		pypy3)
+			EPYTEST_DESELECT+=(
+				# fd leaks in tests
+				# https://github.com/scipy/scipy/issues/19553
+				scipy/fft/_pocketfft/tests/test_real_transforms.py
+				# TODO
+				'scipy/special/tests/test_data.py::test_boost[<Data for expi: expinti_data_long_ipp-expinti_data_long>]'
+				# missing dict.__ror__
+				# https://github.com/pypy/pypy/issues/4934
+				'scipy/sparse/tests/test_dok.py::test_dunder_ror[dok_matrix]'
+			)
+			;;
+	esac
+
+	local -x PYTEST_DISABLE_PLUGIN_AUTOLOAD=1
+	epytest scipy
+}
+
+python_install_all() {
+	use doc && local HTML_DOCS=( "${WORKDIR}"/html/. )
+
+	distutils-r1_python_install_all
+}