Adding metadata

3 files changed, 199 insertions, 0 deletions

diff --git a/dev-python/scipy/Manifest b/dev-python/scipy/Manifest
index 7b4dc5823d6d..74dcf01a4d78 100644
--- a/dev-python/scipy/Manifest
+++ b/dev-python/scipy/Manifest
@@ -1,4 +1,5 @@
 DIST scipy-1.15.2.tar.gz 59417316 BLAKE2B 7ae748a58b6a7fb2674dc6627c3d6f4f28694283bf19ca9973fcf5796ccb0e2e35bb7cd8fbfbefa21cb832b771e563f478bc09ded61d989ea47625e7ac35e1bd SHA512 e772aa040622ef457478e08eb41471af33784cafc2022f091a30563f6abed067cdbae424a5ae86f9dab8c1adc67276794b67cb7cb7c7963ca55a38529df63834
 DIST scipy-1.15.3.tar.gz 59419214 BLAKE2B 526e6182e4991e52fea69452b7894b203d31089ee1f8640ef1bff8f1fa57c31a7179a1ab82325689f3b0a7b907c34adb64b80e640780c99e166f6999adbb1524 SHA512 009de94a64c9361b261788ef3577d636a20ca23ff5c8f12f5e19a4ba4d6177ef7ade0cf1a5ee740bd1c6d740193d70b314d1abd83ab65fcb5d5cf2d2ba06bfb1
+DIST scipy-1.16.0rc1.tar.gz 30582387 BLAKE2B cc356de35aa7a821c3e363997ab014765df800ab8229c34b04d42088221391199b0726ff3d6cc09b5698aa1970d451a4f79993bb684f2f62d3c38a2a28e34149 SHA512 31c9fe5da1de08ebd7773040c2ac6de5d1d62daf4e52d95b78eacba93e0fcfcc91e97b672796d3084d2b48dc6718ba7e8b08daa91407b88449df727db349bf3f
 DIST scipy-html-1.15.2.zip 68568078 BLAKE2B 270f1d89bbcb707616f7af0e1bd90909c1f33d647cf55e42dbf27128ecd90f619f0d579d8897eb04851b6327df1682236c5fd9c4c948b1fd99b083145681a202 SHA512 48e09d3678547775c6c86b82cdb4ef5e7eed7722c6ba8d53170384c3a9380b2bb29fc467b5ee66ae2ec1a621930c8bf20adfc8db3a75546a6ba8e9906df03426
 DIST scipy-html-1.15.3.zip 68590525 BLAKE2B f6473e273843e3eb2aa791be1b885a11ac2b77accdf00ea2d7bc78dc59228dede66259ff4d2ac616ceeb3152a80a8036226622240d963a8bce51dc0143b6aea4 SHA512 df59c2a53dc9c8a64631a2c9906762de046b9beefd759e0810afdcbb00e4da8800e83902d49fa81d791bccb0ed190e00f0ea4948b855e97ad9b5d7a0984d4eec
diff --git a/dev-python/scipy/files/scipy-1.16.0_rc1-pypy.patch b/dev-python/scipy/files/scipy-1.16.0_rc1-pypy.patch
new file mode 100644
index 000000000000..ccbdf37fa32a
--- /dev/null
+++ b/dev-python/scipy/files/scipy-1.16.0_rc1-pypy.patch
@@ -0,0 +1,24 @@
+diff --git a/scipy/stats/_stats_mstats_common.py b/scipy/stats/_stats_mstats_common.py
+index 9a621016e..3a0ec400d 100644
+--- a/scipy/stats/_stats_mstats_common.py
++++ b/scipy/stats/_stats_mstats_common.py
+@@ -21,7 +21,8 @@ def _n_samples_optional_x(kwargs):
+ 
+ @_axis_nan_policy_factory(TheilslopesResult, default_axis=None, n_outputs=4,
+                           n_samples=_n_samples_optional_x,
+-                          result_to_tuple=tuple, paired=True, too_small=1)
++                          result_to_tuple=lambda x, _: tuple(x), paired=True,
++                          too_small=1)
+ def theilslopes(y, x=None, alpha=0.95, method='separate'):
+     r"""
+     Computes the Theil-Sen estimator for a set of points (x, y).
+@@ -204,7 +205,8 @@ def _find_repeats(arr):
+ 
+ @_axis_nan_policy_factory(SiegelslopesResult, default_axis=None, n_outputs=2,
+                           n_samples=_n_samples_optional_x,
+-                          result_to_tuple=tuple, paired=True, too_small=1)
++                          result_to_tuple=lambda x, _: tuple(x), paired=True,
++                          too_small=1)
+ def siegelslopes(y, x=None, method="hierarchical"):
+     r"""
+     Computes the Siegel estimator for a set of points (x, y).
diff --git a/dev-python/scipy/scipy-1.16.0_rc1.ebuild b/dev-python/scipy/scipy-1.16.0_rc1.ebuild
new file mode 100644
index 000000000000..6780e0626e7f
--- /dev/null
+++ b/dev-python/scipy/scipy-1.16.0_rc1.ebuild
@@ -0,0 +1,174 @@
+# 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=( python3_{9,10,11,12,13} pypy3 )
+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=1.15.3
+
+	SRC_URI+="
+		doc? (
+			https://docs.scipy.org/doc/${PN}-${DOC_PV}/${PN}-html-${DOC_PV}.zip
+		)"
+
+	if [[ ${PV} != *rc* ]] ; then
+		KEYWORDS="~amd64 ~arm ~arm64 ~loong ~ppc ~ppc64 ~riscv ~s390 ~sparc ~x86"
+	fi
+fi
+
+LICENSE="BSD LGPL-2"
+SLOT="0"
+IUSE="doc +fortran test-rust"
+
+# pythran is needed in both BDEPEND (for /usr/bin/pythran) and in DEPEND
+# to actually compile code generated by pythran (headers and such needed).
+#
+# umfpack is technically optional but it's preferred to have it available.
+DEPEND="
+	dev-libs/boost:=
+	>=dev-python/numpy-1.23.5:=[lapack,${PYTHON_USEDEP}]
+	~media-libs/qhull-2020.2:=
+	sci-libs/arpack:=
+	sci-libs/umfpack
+	virtual/cblas
+	>=virtual/lapack-3.8
+"
+RDEPEND="
+	${DEPEND}
+	dev-python/pillow[${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-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[${PYTHON_USEDEP}]
+	)
+"
+
+EPYTEST_XDIST=1
+distutils_enable_tests pytest
+
+PATCHES=(
+	# a subset of https://github.com/scipy/scipy/pull/23044
+	"${FILESDIR}/${P}-pypy.patch"
+)
+
+src_unpack() {
+	default
+
+	if use doc; then
+		unzip -qo "${DISTDIR}"/${PN}-html-${DOC_PV}.zip -d html || die
+	fi
+}
+
+python_configure_all() {
+	DISTUTILS_ARGS=(
+		-Dblas=blas
+		-Dlapack=lapack
+		-Duse-pythran=$(usex fortran true false)
+		# note: recheck on version bumps, upstream is planning
+		# to allow more
+		'-Duse-system-libraries=boost.math,qhull'
+	)
+
+	# https://bugs.gentoo.org/932721
+	has_version '>=dev-python/numpy-2.0.0' && filter-lto
+}
+
+python_test() {
+	cd "${BUILD_DIR}/install$(python_get_sitedir)" || die
+
+	local EPYTEST_DESELECT=(
+		# Network
+		scipy/datasets/tests/test_data.py::TestDatasets::test_existence_all
+		scipy/datasets/tests/test_data.py::TestDatasets::test_ascent
+		scipy/datasets/tests/test_data.py::TestDatasets::test_face
+		scipy/datasets/tests/test_data.py::TestDatasets::test_electrocardiogram
+
+		# Crashes with assertion, not a regression
+		# https://github.com/scipy/scipy/issues/19321
+		scipy/signal/tests/test_signaltools.py::test_lfilter_bad_object
+
+		# Awfully slow tests
+		scipy/interpolate/tests/test_bsplines.py::TestBatch::test_batch
+		scipy/linalg/tests/test_basic.py::TestLstsq::test_random_complex_exact
+		scipy/sparse/linalg/_eigen/tests/test_svds.py::test_small_sigma_sparse
+
+		# TODO: minor precision errors
+		'scipy/linalg/tests/test_batch.py::TestBatch::test_solve[float32-bdim2]'
+		'scipy/linalg/tests/test_batch.py::TestBatch::test_lu_solve[float32-bdim2]'
+
+		# Crashes, probably too big
+		'scipy/interpolate/tests/test_fitpack2.py::TestRectBivariateSpline::test_spline_large_2d_maxit'
+	)
+	local EPYTEST_IGNORE=()
+
+	if ! has_version -b "dev-python/pooch[${PYTHON_USEDEP}]" ; then
+		EPYTEST_IGNORE+=(
+			scipy/datasets/tests/test_data.py
+		)
+	fi
+
+	case ${EPYTHON} in
+		pypy3*)
+			EPYTEST_DESELECT+=(
+				# TODO
+				scipy/special/tests/test_data.py::test_boost
+				scipy/_lib/tests/test_ccallback.py::test_callbacks
+			)
+			;;
+	esac
+
+	local -x PYTEST_DISABLE_PLUGIN_AUTOLOAD=1
+	# avoid other stuff being multithreaded when using xdist
+	local -x PYTHON_CPU_COUNT=1
+	epytest scipy
+}
+
+python_install_all() {
+	use doc && local HTML_DOCS=( "${WORKDIR}"/html/. )
+
+	distutils-r1_python_install_all
+}