commit: 972c07327c96c1fda202d1cd3b81ca8d4e252208 Author: Michał Górny <mgorny <AT> gentoo <DOT> org> AuthorDate: Wed Aug 14 18:19:16 2024 +0000 Commit: Michał Górny <mgorny <AT> gentoo <DOT> org> CommitDate: Wed Aug 14 18:19:16 2024 +0000 URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=972c0732
dev-python/tables: Bump to 3.10.0 Signed-off-by: Michał Górny <mgorny <AT> gentoo.org> dev-python/tables/Manifest | 1 + dev-python/tables/files/tables-3.10.0-pypy.patch | 42 +++++++++++++ dev-python/tables/tables-3.10.0.ebuild | 80 ++++++++++++++++++++++++ 3 files changed, 123 insertions(+) diff --git a/dev-python/tables/Manifest b/dev-python/tables/Manifest index 9498bdb0d829..9783a85cf9d5 100644 --- a/dev-python/tables/Manifest +++ b/dev-python/tables/Manifest @@ -1 +1,2 @@ +DIST tables-3.10.0.tar.gz 4762618 BLAKE2B 351ec7e1bb9f0e4a43686b51911793aac32260d88418e1dac0b4fb815fd0f48543e139d1b7ea5607c1368578db4c6513a36d6379f4038cc53fbead4a436ce50d SHA512 10b4d2d1df5c692b72ad599cebc81fc2ef56f432a8d8059c2cede25a201076d12aff3e8874dafb8ef1d41dcc6c9151523f7e4fae3971443f79d051c6f8fcbc88 DIST tables-3.9.2.tar.gz 4683437 BLAKE2B 7044aede85d9eca67260a309d19b5c80944b80b2107f665296ad7ae6a3c3f9a8717a41ae7298a5ae45e5b9de7ae0a6678a83d4bd914bd8709512333e783367bc SHA512 9b416222304b7798585a20d4d7d61934023f151d4262a58a4f0ee969aa365264270c12a734461a194d2c857a13a8e09fb7a1386042267113f601560c041cecd9 diff --git a/dev-python/tables/files/tables-3.10.0-pypy.patch b/dev-python/tables/files/tables-3.10.0-pypy.patch new file mode 100644 index 000000000000..f27c99eadfb8 --- /dev/null +++ b/dev-python/tables/files/tables-3.10.0-pypy.patch @@ -0,0 +1,42 @@ +From c04a456a3e3f7c55722b8c77144991c657fc3af6 Mon Sep 17 00:00:00 2001 +From: =?UTF-8?q?Micha=C5=82=20G=C3=B3rny?= <[email protected]> +Date: Wed, 14 Aug 2024 13:34:22 +0200 +Subject: [PATCH] FIX: Pass `refcheck=False` to `np.ndarray.resize()` for PyPy + compat + +Pass `refcheck=False` when resizing an `np.ndarray` in place, in order +to fix a test failure on PyPy3: + +``` +Traceback (most recent call last): + File "/tmp/PyTables/tables/tests/test_direct_chunk.py", line 266, in test_write_chunk_missing1 + return self._test_write_chunk_missing(shrink_after=False) + File "/tmp/PyTables/tables/tests/test_direct_chunk.py", line 255, in _test_write_chunk_missing + new_obj.resize(self.array.shape) +ValueError: cannot resize an array with refcheck=True on PyPy. +Use the np.resize function or refcheck=False +``` + +Since the object is created immediately above the `.resize()` call, +adding `refcheck=False` should be entirely safe. Furthermore, +unlike `np.resize()` this preserves the current behavior when new shape +is larger than the original. + +Fixes #1202 +--- + tables/tests/test_direct_chunk.py | 2 +- + 1 file changed, 1 insertion(+), 1 deletion(-) + +diff --git a/tables/tests/test_direct_chunk.py b/tables/tests/test_direct_chunk.py +index ccc82516d..ed290d7e6 100644 +--- a/tables/tests/test_direct_chunk.py ++++ b/tables/tests/test_direct_chunk.py +@@ -252,7 +252,7 @@ def _test_write_chunk_missing(self, shrink_after): + self.array.truncate(self.shape[0] - 1) + + new_obj = self.obj.copy() +- new_obj.resize(self.array.shape) ++ new_obj.resize(self.array.shape, refcheck=False) + obj_slice = tuple(slice(s, s + cs) for (s, cs) + in zip(chunk_start, self.chunkshape)) + if not shrink_after: diff --git a/dev-python/tables/tables-3.10.0.ebuild b/dev-python/tables/tables-3.10.0.ebuild new file mode 100644 index 000000000000..c6e4633a70ff --- /dev/null +++ b/dev-python/tables/tables-3.10.0.ebuild @@ -0,0 +1,80 @@ +# Copyright 1999-2024 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_EXT=1 +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( pypy3 python3_{10..13} ) +PYTHON_REQ_USE="threads(+)" + +inherit distutils-r1 prefix pypi + +DESCRIPTION="Hierarchical datasets for Python" +HOMEPAGE=" + https://www.pytables.org/ + https://github.com/PyTables/PyTables/ + https://pypi.org/project/tables/ +" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64 ~arm ~arm64 ~ia64 ~loong ~ppc64 ~riscv ~sparc ~x86 ~amd64-linux ~x86-linux" +IUSE="+cpudetection examples test" +RESTRICT="!test? ( test )" + +DEPEND=" + app-arch/bzip2:0= + app-arch/lz4:0= + >=app-arch/zstd-1.0.0:= + >=dev-libs/c-blosc-1.11.1:0= + >=dev-libs/c-blosc2-2.11.0:= + dev-libs/lzo:2= + >=dev-python/numpy-1.19.0:=[${PYTHON_USEDEP}] + >=sci-libs/hdf5-1.8.4:= +" +RDEPEND=" + ${DEPEND} + >=dev-python/numexpr-2.6.2[${PYTHON_USEDEP}] + dev-python/packaging[${PYTHON_USEDEP}] + cpudetection? ( dev-python/py-cpuinfo[${PYTHON_USEDEP}] ) +" +BDEPEND=" + >=dev-python/cython-0.21[${PYTHON_USEDEP}] + virtual/pkgconfig + cpudetection? ( dev-python/py-cpuinfo[${PYTHON_USEDEP}] ) + test? ( + ${RDEPEND} + ) +" + +python_prepare_all() { + local PATCHES=( + # https://github.com/PyTables/PyTables/pull/1205 + "${FILESDIR}/${P}-pypy.patch" + ) + + rm -r c-blosc/{blosc,internal-complibs} || die + + distutils-r1_python_prepare_all + + sed -i -e '/blosc2/d' -e '/numpy/s:, <2::' pyproject.toml || die + hprefixify -w '/prefixes =/' setup.py + + export PYTABLES_NO_EMBEDDED_LIBS=1 + export USE_PKGCONFIG=TRUE +} + +python_test() { + cd "${BUILD_DIR}/install$(python_get_sitedir)" || die + "${EPYTHON}" tables/tests/test_all.py -v || die +} + +python_install_all() { + distutils-r1_python_install_all + + if use examples; then + dodoc -r contrib examples + docompress -x /usr/share/doc/${PF}/{contrib,examples} + fi +}
