diff options
Diffstat (limited to 'dev-python')
472 files changed, 2848 insertions, 5102 deletions
diff --git a/dev-python/Forthon/Forthon-0.8.49.ebuild b/dev-python/Forthon/Forthon-0.8.49.ebuild deleted file mode 100644 index f24277001..000000000 --- a/dev-python/Forthon/Forthon-0.8.49.ebuild +++ /dev/null @@ -1,23 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 -PYTHON_COMPAT=( python3_{7..9} ) - -inherit distutils-r1 - -DESCRIPTION="Python interface generator for Fortran based codes" -HOMEPAGE="https://github.com/dpgrote/Forthon" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -# no tests in package - -python_install_all() { - dodoc -r example simpleexample docs - - distutils-r1_python_install_all -} diff --git a/dev-python/Forthon/Forthon-0.9.4.ebuild b/dev-python/Forthon/Forthon-0.9.4.ebuild deleted file mode 100644 index fa6e3fde3..000000000 --- a/dev-python/Forthon/Forthon-0.9.4.ebuild +++ /dev/null @@ -1,17 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 -PYTHON_COMPAT=( python3_{7..9} ) - -inherit distutils-r1 - -DESCRIPTION="Python interface generator for Fortran based codes" -HOMEPAGE="https://github.com/dpgrote/Forthon" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -# no tests in package diff --git a/dev-python/Forthon/Manifest b/dev-python/Forthon/Manifest deleted file mode 100644 index fc38dbbbb..000000000 --- a/dev-python/Forthon/Manifest +++ /dev/null @@ -1,2 +0,0 @@ -DIST Forthon-0.8.49.tar.gz 83622 BLAKE2B 0c9d6af9a68cb05bf75fc638f3bb080aab25a5f575d2fb92c97ff3d1ae7f6925680d15fad8ae8e67c23b12c2b230ddd5bf0ef8e5900f5f379e4a3b843a449888 SHA512 50b8f2af32af061e0349a97076c50c54b22581c2b2c857a5529eca7714f2ad22ace25d792072397ba64b267ec9a24b1a670f454667ee9e3aae97331311870035 -DIST Forthon-0.9.4.tar.gz 86694 BLAKE2B 962e732543a0d5197a26b0d2036952fc056f0d23f771fd286fae874b33386422d2bf15ba51b31d596348c2291ef6490830d80d709e0cbe420179603956ce6567 SHA512 1e48bcd5610e1431474d9f9721ea375650a36ddffb796fd3ff8b710c53fe6814d7ae6b12d054451ac2c44febff126500c1ea6e66acdeda65c3a1818295dbbf50 diff --git a/dev-python/Forthon/metadata.xml b/dev-python/Forthon/metadata.xml deleted file mode 100644 index 8ddc1aa0d..000000000 --- a/dev-python/Forthon/metadata.xml +++ /dev/null @@ -1,23 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="person"> - <email>gentoo@aisha.cc</email> - <name>Aisha Tammy</name> - </maintainer> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <longdescription> - Forthon generates links between Fortran95 and Python. Python is a high - level, object oriented, interactive and scripting language that allows - a flexible and versatile interface to computational tools. The Forthon - package generates the necessary wrapping code which allows access to - the Fortran database and to the Fortran subroutines and - functions. This provides a development package where the - computationally intensive parts of a code can be written in efficient - Fortran, and the high level controlling code can be written in the - much more versatile Python language. - </longdescription> -</pkgmetadata> diff --git a/dev-python/MagnetoResistance-tool/MagnetoResistance-tool-0.0.2.ebuild b/dev-python/MagnetoResistance-tool/MagnetoResistance-tool-0.0.2.ebuild index 6f675dc80..23e03adcf 100644 --- a/dev-python/MagnetoResistance-tool/MagnetoResistance-tool-0.0.2.ebuild +++ b/dev-python/MagnetoResistance-tool/MagnetoResistance-tool-0.0.2.ebuild @@ -3,13 +3,13 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..11} ) +PYTHON_COMPAT=( python3_{10..12} ) DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +PYPI_NO_NORMALIZE=1 +inherit distutils-r1 pypi DESCRIPTION="Create calibration matrix to correct for magneto-resistance in resistive sensors" HOMEPAGE="https://gitlab.science.ru.nl/hfml/MRcalib" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="GPL-3+" SLOT="0" diff --git a/dev-python/POT/Manifest b/dev-python/POT/Manifest deleted file mode 100644 index 9db8bb97b..000000000 --- a/dev-python/POT/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST POT-0.7.0.tar.gz 189869 BLAKE2B 40f651d70e3177cc1d778b635e8609057cebe1685c36ed65d1d5ec26ae3c5665fb872b7efcd98d90012ed3e2a0251ddd8fafcae551254ee68697788cfd9e984e SHA512 a52f748ebee128732cd17281aace1f95bf638cbc8e1610774aef947b27b5172bcbf434c9e6a36ef4d2920940331d6ced1ff5315ca1b7705fda14489c34e5b6ff diff --git a/dev-python/POT/POT-0.7.0.ebuild b/dev-python/POT/POT-0.7.0.ebuild deleted file mode 100644 index e25d01017..000000000 --- a/dev-python/POT/POT-0.7.0.ebuild +++ /dev/null @@ -1,29 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) - -inherit distutils-r1 - -DESCRIPTION="Python Optimal Transport Library" -HOMEPAGE="https://github.com/PythonOT/POT" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND="${PYTHON_DEPS} - dev-python/cython[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] -" -DEPEND="${RDEPEND}" - -distutils_enable_tests pytest - -python_test() { - pytest -c /dev/null -vv || die "tests failed for ${EPYTHON}" -} diff --git a/dev-python/POT/metadata.xml b/dev-python/POT/metadata.xml deleted file mode 100644 index 2f2c0b51c..000000000 --- a/dev-python/POT/metadata.xml +++ /dev/null @@ -1,12 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="person"> - <email>gentoo@aisha.cc</email> - <name>Aisha Tammy</name> - </maintainer> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> -</pkgmetadata> diff --git a/dev-python/PeakUtils/Manifest b/dev-python/PeakUtils/Manifest deleted file mode 100644 index 8b9972e10..000000000 --- a/dev-python/PeakUtils/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST PeakUtils-1.3.3.tar.gz 118684 BLAKE2B 978128ca36150487b54d491845b2eb4d28718760a43e5e71eb8a11142dd6dca3ffbb60e7a9c2e604c4b9868180f5fbe1a13c89a8390ecac34dce50f5e1b83548 SHA512 c6bc49907221b11ca4af204f55b24e8ca2b8267e989d9971523d33077519027ffc140883c8dca5988f04a4adf2e02d5c15b595d5474b2be410cc8ca87840cf4a diff --git a/dev-python/PeakUtils/PeakUtils-1.3.3.ebuild b/dev-python/PeakUtils/PeakUtils-1.3.3.ebuild deleted file mode 100644 index 983d2c645..000000000 --- a/dev-python/PeakUtils/PeakUtils-1.3.3.ebuild +++ /dev/null @@ -1,28 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 -PYTHON_COMPAT=( python3_{7..9} ) - -inherit distutils-r1 - -DESCRIPTION="Peak detection utilities for 1D data" -HOMEPAGE="https://bitbucket.org/lucashnegri/peakutils" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64" - -RDEPEND=" - >=dev-python/numpy-1.8.0[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - " -DEPEND="${RDEPEND}" -BDEPEND=" - test? ( - dev-python/pandas - ) -" - -distutils_enable_tests pytest diff --git a/dev-python/PeakUtils/metadata.xml b/dev-python/PeakUtils/metadata.xml deleted file mode 100644 index ba9535089..000000000 --- a/dev-python/PeakUtils/metadata.xml +++ /dev/null @@ -1,19 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <longdescription> -As the name implies, this package provides utilities related to the -detection of peaks on 1D data. Includes functions to perform -baseline estimation, to find the indexes of the peaks in the data -and performing Gaussian fitting or centroid computation to further -increase the resolution of the peak detection. -</longdescription> - <upstream> - <remote-id type="bitbucket">lucashnegri/peakutils</remote-id> - <remote-id type="pypi">PeakUtils</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/aiohttp-retry/Manifest b/dev-python/aiohttp-retry/Manifest new file mode 100644 index 000000000..f050b37c0 --- /dev/null +++ b/dev-python/aiohttp-retry/Manifest @@ -0,0 +1 @@ +DIST aiohttp-retry-2.8.3.gh.tar.gz 11952 BLAKE2B f2ea6f7b2f13001bd8d49b4529eacb3766cab080ff3a9457e40287bc797afebae10393a628cf78756074ca60a62df78c59c6120f1368316084155f1d7fd7cdfb SHA512 71869c3997e9b5089c298fa6f992b0ed08ca3da0f93c4f37566d8c6b9809bb1873a629cc47f1ffaeccac112d96036851794ee564b11c0f4f1eec00f49413358d diff --git a/dev-python/aiohttp-retry/aiohttp-retry-2.8.3.ebuild b/dev-python/aiohttp-retry/aiohttp-retry-2.8.3.ebuild new file mode 100644 index 000000000..25df27ba6 --- /dev/null +++ b/dev-python/aiohttp-retry/aiohttp-retry-2.8.3.ebuild @@ -0,0 +1,31 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..12} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 pypi + +DESCRIPTION="Simple retry client for aiohttp" +HOMEPAGE="https://github.com/inyutin/aiohttp_retry" +# Test suite missing from PyPI tarball, reported upstream: +# https://github.com/inyutin/aiohttp_retry/issues/94 +SRC_URI="https://github.com/inyutin/aiohttp_retry/archive/refs/tags/v${PV}.tar.gz -> ${P}.gh.tar.gz" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~arm ~arm64 ~x86" +IUSE="test" +RESTRICT="!test? ( test )" + +RDEPEND="dev-python/aiohttp[${PYTHON_USEDEP}]" + +BDEPEND=" + test? ( + dev-python/pytest-aiohttp[${PYTHON_USEDEP}] + dev-python/pytest-asyncio[${PYTHON_USEDEP}] + dev-python/pytest-tornasync[${PYTHON_USEDEP}] + )" + +distutils_enable_tests pytest diff --git a/dev-python/tridesclous/metadata.xml b/dev-python/aiohttp-retry/metadata.xml index 819340cd1..900a7e9f8 100644 --- a/dev-python/tridesclous/metadata.xml +++ b/dev-python/aiohttp-retry/metadata.xml @@ -10,7 +10,7 @@ <name>Gentoo Science Project</name> </maintainer> <upstream> - <remote-id type="github">tridesclous/tridesclous</remote-id> - <remote-id type="pypi">tridesclous</remote-id> + <remote-id type="github">inyutin/aiohttp_retry</remote-id> + <remote-id type="pypi">aiohttp-retry</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/amply/Manifest b/dev-python/amply/Manifest deleted file mode 100644 index 09b9588e7..000000000 --- a/dev-python/amply/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST amply-0.1.4.tar.gz 28182 BLAKE2B 78ae51f18355968c7713351267fe8a60adc797c9e0e37092f538935026898b51413f346a0faecc748a290f3fd3e4c313cfab6d0ddacfe34f76ecdb4ecd562ffb SHA512 cb9140a157059edd69f634499946b1e006993037eed44c6eb844e211454d975455e00cc5da8771a09b4345d77c30515b7c106420b15dae8ca54ac599399fb3ed diff --git a/dev-python/amply/amply-0.1.4.ebuild b/dev-python/amply/amply-0.1.4.ebuild deleted file mode 100644 index db2b71b73..000000000 --- a/dev-python/amply/amply-0.1.4.ebuild +++ /dev/null @@ -1,25 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7,8,9} ) - -inherit distutils-r1 - -DESCRIPTION="Allows you to load and manipulate AMPL/GLPK data as Python data structures" -HOMEPAGE="https://github.com/willu47/amply/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="EPL-1.0" -KEYWORDS="~amd64 ~x86" -SLOT="0" - -BDEPEND="dev-python/setuptools_scm[${PYTHON_USEDEP}]" - -RDEPEND=" - dev-python/docutils[${PYTHON_USEDEP}] - dev-python/pyparsing[${PYTHON_USEDEP}] -" - -distutils_enable_tests pytest diff --git a/dev-python/annexremote/annexremote-1.5.0.ebuild b/dev-python/annexremote/annexremote-1.5.0.ebuild index 90511a157..a6dacd5c9 100644 --- a/dev-python/annexremote/annexremote-1.5.0.ebuild +++ b/dev-python/annexremote/annexremote-1.5.0.ebuild @@ -3,31 +3,21 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) -inherit distutils-r1 +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..11} ) +inherit distutils-r1 pypi DESCRIPTION="Helper module to easily develop git-annex remotes" HOMEPAGE="https://github.com/Lykos153/AnnexRemote" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="GPL-3" SLOT="0" KEYWORDS="~amd64 ~x86" IUSE="examples" -# Reported upstream: +# Tests require nose, reported upstream: # https://github.com/Lykos153/AnnexRemote/issues/61 RESTRICT="test" -COMMON_DEPEND="dev-python/future[${PYTHON_USEDEP}]" -RDEPEND=" - ${COMMON_DEPEND} -" -DEPEND=" - ${COMMON_DEPEND} -" - -distutils_enable_tests nose - python_install_all() { distutils-r1_python_install_all dodoc README.md diff --git a/dev-python/annexremote/annexremote-1.6.0.ebuild b/dev-python/annexremote/annexremote-1.6.0.ebuild index 90511a157..a6dacd5c9 100644 --- a/dev-python/annexremote/annexremote-1.6.0.ebuild +++ b/dev-python/annexremote/annexremote-1.6.0.ebuild @@ -3,31 +3,21 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) -inherit distutils-r1 +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..11} ) +inherit distutils-r1 pypi DESCRIPTION="Helper module to easily develop git-annex remotes" HOMEPAGE="https://github.com/Lykos153/AnnexRemote" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="GPL-3" SLOT="0" KEYWORDS="~amd64 ~x86" IUSE="examples" -# Reported upstream: +# Tests require nose, reported upstream: # https://github.com/Lykos153/AnnexRemote/issues/61 RESTRICT="test" -COMMON_DEPEND="dev-python/future[${PYTHON_USEDEP}]" -RDEPEND=" - ${COMMON_DEPEND} -" -DEPEND=" - ${COMMON_DEPEND} -" - -distutils_enable_tests nose - python_install_all() { distutils-r1_python_install_all dodoc README.md diff --git a/dev-python/anys/Manifest b/dev-python/anys/Manifest index d5c7418ba..bb3dbee15 100644 --- a/dev-python/anys/Manifest +++ b/dev-python/anys/Manifest @@ -1,2 +1 @@ -DIST anys-0.2.0.tar.gz 17799 BLAKE2B d481c43df1a3161f75a32b6fc7a38d3e18dc996f05dd08abb3891ca9570a2a841b159547f1c6889b73d2476a141404baba4ad3e10c318bc2e230c9d136b02ff6 SHA512 72bdc9df4cd805604f5497418a90738fccbc0ffd2dddf81324fe50d0d8ab13e036ff829e284dea8473427af396f02ceb01a191ad7d6946427478a12c04ca2ffd DIST anys-0.2.1.tar.gz 17850 BLAKE2B c7eda2e245108f9a0a0263af45589d7b0df78767517e9b56768626e43badc5100f01a844d17b10e34a19c0a0fbfa951ba97a374cb8951e7a5560e11867b12d78 SHA512 5a46d9e8aa97401f11dcc7a26a3d8dc759c59b5485222cb6ba1df3d4b2d8d67455102943f044850d289cd3e32bcaf6413ed4a4dfbee26c049a6ef32dfa5cd87e diff --git a/dev-python/anys/anys-0.2.0.ebuild b/dev-python/anys/anys-0.2.0.ebuild deleted file mode 100644 index 0f1bb884f..000000000 --- a/dev-python/anys/anys-0.2.0.ebuild +++ /dev/null @@ -1,28 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{8..9} ) -DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 - -DESCRIPTION="Matchers for pytest" -HOMEPAGE="https://github.com/jwodder/anys" -SRC_URI="https://github.com/jwodder/anys/releases/download/v${PV}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" -IUSE="test" -RESTRICT="!test? ( test )" - -RDEPEND=" - dev-python/wheel[${PYTHON_USEDEP}] -" - -PATCHES=( - "${FILESDIR}/${PN}-0.2.0-coverage.patch" -) - -distutils_enable_tests pytest diff --git a/dev-python/anys/anys-0.2.1.ebuild b/dev-python/anys/anys-0.2.1.ebuild index 659e797cf..88e61a12e 100644 --- a/dev-python/anys/anys-0.2.1.ebuild +++ b/dev-python/anys/anys-0.2.1.ebuild @@ -1,9 +1,9 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 diff --git a/dev-python/archspec/Manifest b/dev-python/archspec/Manifest index 5351b4321..8ad1830fc 100644 --- a/dev-python/archspec/Manifest +++ b/dev-python/archspec/Manifest @@ -1 +1,2 @@ DIST archspec-0.1.4.tar.gz 35184 BLAKE2B fe05cab539163d986e639e7e9cf57db208f9cce7ee447d2d3207af0bad68f2d5410e720e5f73376f950b9672602885fe34942fb885d7acbb8ad7e31b7f139ee0 SHA512 28da79ba1469db38ab1424be49feba87378c252ead5ad07fca8ae752dc3503d281f2f3f30391fe6209b118800f357b5219593c2d0d11608d683e56c95ca8f286 +DIST archspec-0.2.2.tar.gz 38306 BLAKE2B c8f8011e122d31a603120231b5f4f034316e06412d64e0bb0fe38886508470d264f7a20da5ef79634fa5ba2f3d3b176b08151f9b5d72d64dbc5c90ce9bd6ff42 SHA512 e2310ca041064109358c918abbdfb581a1494d51d4c0f41e6172fdb9defcefd60f1b80ae2187c8143e37569c815fdc29508d52c048fe88c8c198e85997cef34d diff --git a/dev-python/archspec/archspec-0.1.4.ebuild b/dev-python/archspec/archspec-0.1.4.ebuild index 5e8eee157..35500e00d 100644 --- a/dev-python/archspec/archspec-0.1.4.ebuild +++ b/dev-python/archspec/archspec-0.1.4.ebuild @@ -2,11 +2,10 @@ EAPI=8 PYTHON_COMPAT=( python3_{10..11} ) DISTUTILS_USE_PEP517=poetry -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="labels for various aspects of a system architecture like CPU, etc." HOMEPAGE="https://archspec.readthedocs.io/en/latest/index.html" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" SLOT="0" @@ -17,4 +16,4 @@ RDEPEND=" <=dev-python/six-2.0.0[${PYTHON_USEDEP}] >=dev-python/click-7.1.2[${PYTHON_USEDEP}] " -BDEPEND="${RDEPEND}" +DEPEND="${RDEPEND}" diff --git a/dev-python/archspec/archspec-0.2.2.ebuild b/dev-python/archspec/archspec-0.2.2.ebuild new file mode 100644 index 000000000..a7287fc72 --- /dev/null +++ b/dev-python/archspec/archspec-0.2.2.ebuild @@ -0,0 +1,13 @@ +EAPI=8 + +PYTHON_COMPAT=( python3_{10..12} ) +DISTUTILS_USE_PEP517=poetry +inherit distutils-r1 pypi + +DESCRIPTION="Labels for various aspects of a system architecture like CPU, etc." +HOMEPAGE="https://archspec.readthedocs.io/en/latest/index.html" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64" + diff --git a/dev-python/arrayfire-python/Manifest b/dev-python/arrayfire-python/Manifest deleted file mode 100644 index 6d077c449..000000000 --- a/dev-python/arrayfire-python/Manifest +++ /dev/null @@ -1,2 +0,0 @@ -DIST arrayfire-python-3.6.20181017.tar.gz 115659 BLAKE2B a58f8a3e929b9b04a7ce4339624833a9bcf513c790e6bf66edabaaeb01b590d651d6a89584ccf04387e9844dc506b1d21ea3392a2b6361802404820c1ff9d91a SHA512 8ae9d0c3e4b27ff237c47a55358ab6421eef4a3d251583e8d64b48ff40a8b9e6773e6fc27473c228141a5c9be86ba096bacd8ee1716d2f82f5dd97440b87bec4 -DIST arrayfire-python-3.6.20181017_p1.tar.gz 126376 BLAKE2B 33699c33a12a9231baac11a462502dbda2eb0e743256b7d4bff0b9b0925652efa9504ed5dc123b86493b7751bed85cd4050807297da087fe765dbc44ba985520 SHA512 2977365f7817528cf0c73fe0c21704efba9c5b30b902a5b3449ed6b4487492ed1baa2a60c03b42087232d8a119f5a0b0af9aa16cf8d83a05092c0eb78fa8e147 diff --git a/dev-python/arrayfire-python/arrayfire-python-3.6.20181017.ebuild b/dev-python/arrayfire-python/arrayfire-python-3.6.20181017.ebuild deleted file mode 100644 index 443642962..000000000 --- a/dev-python/arrayfire-python/arrayfire-python-3.6.20181017.ebuild +++ /dev/null @@ -1,35 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 -PYTHON_COMPAT=( python3_{7..9} ) - -inherit distutils-r1 - -DESCRIPTION="Python bindings for ArrayFire" -HOMEPAGE="http://www.arrayfire.com" - -if [[ ${PV} == 9999 ]]; then - inherit git-r3 - EGIT_REPO_URI="https://github.com/arrayfire/arrayfire-python" -else - SRC_URI="https://github.com/arrayfire/arrayfire-python/archive/${PV}.tar.gz -> ${P}.tar.gz" - KEYWORDS="~amd64" -fi - -LICENSE="BSD" -SLOT="0" -IUSE="test" -RESTRICT="!test? ( test )" - -RDEPEND=" - sci-libs/arrayfire -" -DEPEND="${RDEPEND}" - -DISTUTILS_IN_SOURCE_BUILD=1 - -python_test() { - ${EPYTHON} -m arrayfire.tests || \ - die "tests failed with ${EPYTHON}" -} diff --git a/dev-python/arrayfire-python/arrayfire-python-3.6.20181017_p1.ebuild b/dev-python/arrayfire-python/arrayfire-python-3.6.20181017_p1.ebuild deleted file mode 100644 index 7907a4e33..000000000 --- a/dev-python/arrayfire-python/arrayfire-python-3.6.20181017_p1.ebuild +++ /dev/null @@ -1,39 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 -PYTHON_COMPAT=( python3_{7..9} ) - -inherit distutils-r1 - -DESCRIPTION="Python bindings for ArrayFire" -HOMEPAGE="http://www.arrayfire.com" - -if [[ ${PV} == 9999 ]]; then - inherit git-r3 - EGIT_REPO_URI="https://github.com/arrayfire/arrayfire-python" -else - COMMIT=534b8c2ab4db5b08347f4d3d2f86a58ba8fcfdb6 - SRC_URI="https://github.com/arrayfire/arrayfire-python/archive/${COMMIT}.tar.gz -> ${P}.tar.gz" - S="${WORKDIR}"/${PN}-${COMMIT} - KEYWORDS="~amd64" -fi - -LICENSE="BSD" -SLOT="0" -IUSE="test" -RESTRICT="!test? ( test )" - -RDEPEND=" - sci-libs/arrayfire -" -DEPEND="${RDEPEND}" - -DISTUTILS_IN_SOURCE_BUILD=1 - -PATCHES=( "${FILESDIR}"/${P}-skip_tests.patch ) - -python_test() { - ${EPYTHON} -m tests || \ - die "tests failed with ${EPYTHON}" -} diff --git a/dev-python/arrayfire-python/files/arrayfire-python-3.6.20181017_p1-skip_tests.patch b/dev-python/arrayfire-python/files/arrayfire-python-3.6.20181017_p1-skip_tests.patch deleted file mode 100644 index eb4eb54cf..000000000 --- a/dev-python/arrayfire-python/files/arrayfire-python-3.6.20181017_p1-skip_tests.patch +++ /dev/null @@ -1,20 +0,0 @@ -diff --git a/tests/simple/__init__.py b/tests/simple/__init__.py -index 4950136..41c9cf2 100644 ---- a/tests/simple/__init__.py -+++ b/tests/simple/__init__.py -@@ -11,7 +11,6 @@ - - from ._util import tests - from .algorithm import simple_algorithm --from .arith import simple_arith - from .array_test import simple_array - from .blas import simple_blas - from .data import simple_data -@@ -28,7 +27,6 @@ from .statistics import simple_statistics - __all__ = [ - "tests", - "simple_algorithm", -- "simple_arith", - "simple_array", - "simple_blas", - "simple_data", diff --git a/dev-python/arrayfire-python/metadata.xml b/dev-python/arrayfire-python/metadata.xml deleted file mode 100644 index 8cbbb986a..000000000 --- a/dev-python/arrayfire-python/metadata.xml +++ /dev/null @@ -1,21 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="person"> - <email>gentoo@aisha.cc</email> - <name>Aisha Tammy</name> - </maintainer> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <longdescription> - ArrayFire is a high performance library for parallel computing - wih an easy-to-use API. This package project Python bindings - for the ArrayFire library. - </longdescription> - <upstream> - <remote-id type="github">arrayfire/arrayfire-python</remote-id> - <remote-id type="pypi">arrayfire</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/asciitree/asciitree-0.3.3.ebuild b/dev-python/asciitree/asciitree-0.3.3.ebuild index 3f8f82f8b..29d5ecf87 100644 --- a/dev-python/asciitree/asciitree-0.3.3.ebuild +++ b/dev-python/asciitree/asciitree-0.3.3.ebuild @@ -1,9 +1,9 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) inherit distutils-r1 DESCRIPTION="ASCII trees in python" diff --git a/dev-python/asdf/Manifest b/dev-python/asdf/Manifest index fc182f25b..ac7f18004 100644 --- a/dev-python/asdf/Manifest +++ b/dev-python/asdf/Manifest @@ -1,2 +1 @@ DIST asdf-2.14.3.tar.gz 489097 BLAKE2B 26e3da88f4b0ada5a995ff77fdb55a26aa9af1b53c4e90723b36080526ee218581d09295b169bddd998a4055d1b9818e793bfdafdc786a27f5ea87021e9f85e7 SHA512 125015a1d3a26034c8d483bebf609af02489d0710973828e443dea5cfa46cb33826078714b9ccbd385fcc92fd6b2d92253e80c32ca90565a48f45e4ff47b8655 -DIST asdf-2.8.3.tar.gz 513853 BLAKE2B 73afb6f5799a13689bd2be73b8d9b45d5bb4a1f093654e3d8a0796a6342f03deabe64c6de4d33213ba762e3b2508541a25b24cccc490f0685714180af6790c43 SHA512 c3b72ed7fefd33958413c962d81213d2d141072473e08c767059a3ff46ba03f0135c9435a7893eb0eb43b199e2c701d62f263a487872a120465979dfec8988df diff --git a/dev-python/asdf/asdf-2.14.3.ebuild b/dev-python/asdf/asdf-2.14.3.ebuild index 2463f0a6c..2c935c1fb 100644 --- a/dev-python/asdf/asdf-2.14.3.ebuild +++ b/dev-python/asdf/asdf-2.14.3.ebuild @@ -3,14 +3,13 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..10} ) +PYTHON_COMPAT=( python3_{10..11} ) DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Python library for the Advanced Scientific Data Format" HOMEPAGE="https://asdf.readthedocs.io/en/latest/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" @@ -19,7 +18,7 @@ KEYWORDS="~amd64 ~x86" # https://github.com/asdf-format/asdf/issues/1319 RESTRICT="test" -BDEPEND="dev-python/setuptools_scm[${PYTHON_USEDEP}] +BDEPEND="dev-python/setuptools-scm[${PYTHON_USEDEP}] test? ( dev-python/astropy[${PYTHON_USEDEP}] dev-python/pytest-doctestplus[${PYTHON_USEDEP}] @@ -34,7 +33,7 @@ RDEPEND=" >=dev-python/jsonschema-3.0.2[${PYTHON_USEDEP}] >=dev-python/numpy-1.10[${PYTHON_USEDEP}] >=dev-python/pyyaml-3.10[${PYTHON_USEDEP}] - >=dev-python/semantic_version-2.8[${PYTHON_USEDEP}] + >=dev-python/semantic-version-2.8[${PYTHON_USEDEP}] " distutils_enable_tests pytest diff --git a/dev-python/asdf/asdf-2.8.3.ebuild b/dev-python/asdf/asdf-2.8.3.ebuild deleted file mode 100644 index edce106b0..000000000 --- a/dev-python/asdf/asdf-2.8.3.ebuild +++ /dev/null @@ -1,47 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..10} ) -DISTUTILS_USE_SETUPTOOLS=rdepend - -inherit distutils-r1 - -DESCRIPTION="Python library for the Advanced Scientific Data Format" -HOMEPAGE="https://asdf.readthedocs.io/en/latest/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~x86" -# Reported upstream: -# https://github.com/asdf-format/asdf/issues/1319 -RESTRICT="test" - -BDEPEND="dev-python/setuptools_scm[${PYTHON_USEDEP}] - test? ( - dev-python/astropy[${PYTHON_USEDEP}] - dev-python/pytest-doctestplus[${PYTHON_USEDEP}] - dev-python/psutil[${PYTHON_USEDEP}] - dev-python/gwcs[${PYTHON_USEDEP}] - ) - doc? ( media-gfx/graphviz ) -" - -RDEPEND=" - >=dev-python/jmespath-0.6.2[${PYTHON_USEDEP}] - >=dev-python/jsonschema-3.0.2[${PYTHON_USEDEP}] - >=dev-python/numpy-1.10[${PYTHON_USEDEP}] - >=dev-python/pyyaml-3.10[${PYTHON_USEDEP}] - >=dev-python/semantic_version-2.8[${PYTHON_USEDEP}] -" - -distutils_enable_tests pytest -distutils_enable_sphinx docs dev-python/astropy dev-python/sphinx-astropy dev-python/matplotlib dev-python/docutils - -python_test() { - # discovers things in docs dir if we do not - # explicitly set it to run on the tests dir - epytest asdf/tests -} diff --git a/dev-python/asdf/metadata.xml b/dev-python/asdf/metadata.xml index 4f4367037..332ed9dd0 100644 --- a/dev-python/asdf/metadata.xml +++ b/dev-python/asdf/metadata.xml @@ -5,4 +5,7 @@ <email>sci-astronomy@gentoo.org</email> <name>Gentoo Astronomy Project</name> </maintainer> + <upstream> + <remote-id type="pypi">asdf</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/astropy-healpix/Manifest b/dev-python/astropy-healpix/Manifest index 0845b8ed4..ee0baaaa9 100644 --- a/dev-python/astropy-healpix/Manifest +++ b/dev-python/astropy-healpix/Manifest @@ -1 +1 @@ -DIST astropy_healpix-0.6.tar.gz 104224 BLAKE2B a06474de29f2848d18dedb45202ea63ba5893d6993ef39ebb91e02b55c0f5e100522c267198a233c8771f3920c620f7eddb83f08c82c3cb4151432e1815b00d8 SHA512 c54a41e50c7eaa51126b20abc88e5fc8f7c02521baeb4a69a5a8eac42f59350273e8f30c17926daf628c7866550eec141980ce0349028ff72a4ac2786275f428 +DIST astropy_healpix-0.7.tar.gz 107330 BLAKE2B c1daed6475b63d59debd19ad97fc3547917df93b9b6998aef51f38a7e4014a543f25f6823dac12e93745fa8cd6c17b418035730b4d37f85b7df250e8d4fd6026 SHA512 33e23a616a0a36880066d96a50b949b1a96b4a1cecc1ebe8584c817a10587d26eb58879fb175c3fd675c3fbc98d4be1cfa9b19aa9ad4ac7a1528a8e6d32f7436 diff --git a/dev-python/astropy-healpix/astropy-healpix-0.6.ebuild b/dev-python/astropy-healpix/astropy-healpix-0.7.ebuild index 1169e9965..9bf99f7e2 100644 --- a/dev-python/astropy-healpix/astropy-healpix-0.6.ebuild +++ b/dev-python/astropy-healpix/astropy-healpix-0.7.ebuild @@ -3,13 +3,12 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 pypi DESCRIPTION="HEALPix for Astropy" HOMEPAGE="https://github.com/astropy/astropy-healpix" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P/-/_}.tar.gz" S="${WORKDIR}/${P/-/_}" LICENSE="BSD" @@ -25,7 +24,7 @@ KEYWORDS="~amd64 ~x86" # pytest-filter-subpackage>=0.1 RESTRICT="test" -BDEPEND="dev-python/setuptools_scm[${PYTHON_USEDEP}]" +BDEPEND="dev-python/setuptools-scm[${PYTHON_USEDEP}]" RDEPEND=" >=dev-python/astropy-3.2[${PYTHON_USEDEP}] @@ -33,4 +32,4 @@ RDEPEND=" " distutils_enable_sphinx docs dev-python/sphinx-astropy dev-python/matplotlib -distutils_enable_tests --install pytest +distutils_enable_tests pytest diff --git a/dev-python/astropy-healpix/metadata.xml b/dev-python/astropy-healpix/metadata.xml index 4f4367037..2d40d7328 100644 --- a/dev-python/astropy-healpix/metadata.xml +++ b/dev-python/astropy-healpix/metadata.xml @@ -5,4 +5,8 @@ <email>sci-astronomy@gentoo.org</email> <name>Gentoo Astronomy Project</name> </maintainer> + <upstream> + <remote-id type="github">astropy/astropy-healpix</remote-id> + <remote-id type="pypi">astropy-healpix</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/astropy-helpers/astropy-helpers-4.0.1.ebuild b/dev-python/astropy-helpers/astropy-helpers-4.0.1-r1.ebuild index 81cd07a63..be72affc7 100644 --- a/dev-python/astropy-helpers/astropy-helpers-4.0.1.ebuild +++ b/dev-python/astropy-helpers/astropy-helpers-4.0.1-r1.ebuild @@ -3,16 +3,16 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 xdg-utils +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +PYPI_NO_NORMALIZE=1 +inherit distutils-r1 pypi xdg-utils MYPV=${PV/_/} S=${WORKDIR}/${PN}-${MYPV} DESCRIPTION="Helpers for Astropy and Affiliated packages" HOMEPAGE="https://github.com/astropy/astropy-helpers" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${PN}-${MYPV}.tar.gz" LICENSE="BSD" SLOT="0" diff --git a/dev-python/astropy-helpers/metadata.xml b/dev-python/astropy-helpers/metadata.xml index 8bc35edb7..8bd2cb74a 100644 --- a/dev-python/astropy-helpers/metadata.xml +++ b/dev-python/astropy-helpers/metadata.xml @@ -15,5 +15,6 @@ </maintainer> <upstream> <remote-id type="github">astropy/astropy-helpers</remote-id> + <remote-id type="pypi">astropy-helpers</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/astropy-sphinx-theme/astropy-sphinx-theme-1.1.ebuild b/dev-python/astropy-sphinx-theme/astropy-sphinx-theme-1.1-r1.ebuild index 02f378b8a..5b63931b8 100644 --- a/dev-python/astropy-sphinx-theme/astropy-sphinx-theme-1.1.ebuild +++ b/dev-python/astropy-sphinx-theme/astropy-sphinx-theme-1.1-r1.ebuild @@ -3,14 +3,14 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) -DISTUTILS_USE_SETUPTOOLS=rdepend +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +PYPI_NO_NORMALIZE=1 -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="The sphinx theme for Astropy and affiliated packages" HOMEPAGE="https://github.com/astropy/astropy-sphinx-theme" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" diff --git a/dev-python/astropy-sphinx-theme/metadata.xml b/dev-python/astropy-sphinx-theme/metadata.xml index 4f4367037..7db317173 100644 --- a/dev-python/astropy-sphinx-theme/metadata.xml +++ b/dev-python/astropy-sphinx-theme/metadata.xml @@ -5,4 +5,8 @@ <email>sci-astronomy@gentoo.org</email> <name>Gentoo Astronomy Project</name> </maintainer> + <upstream> + <remote-id type="github">astropy/astropy-sphinx-theme</remote-id> + <remote-id type="pypi">astropy-sphinx-theme</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/astropy/Manifest b/dev-python/astropy/Manifest index c8278e21a..3d86b9bab 100644 --- a/dev-python/astropy/Manifest +++ b/dev-python/astropy/Manifest @@ -1 +1 @@ -DIST astropy-5.0.tar.gz 7823746 BLAKE2B e769f9ea26e156a2342dc75b307c16c2c38108adf0dfd931812b2eb3234941055c013378a492306f2247c16b4804fe569ba1cbfd8427df1aac2b808976082cf9 SHA512 3c0b0cdef434f27ee399fbfc3d55b95ce8395624caf8e73a205dba7742c39d8a2bcea9bf61c2c20235da7388d40c657c5474bfc7e3dc3c9e5911e39bab47cdb9 +DIST astropy-5.2.1.tar.gz 8284422 BLAKE2B ded3556d6b16fe7abbbd019c23c0297f4690b13f054a1b98ab6aaeb20b92debefbc6e7c6c5eff8c65dfaa271826885027d6ba4a92f94218632162501a30b025b SHA512 46da7b065e119fa36233ced928abab31d6022fd116d2ed6825cb88b456ab57130772eea1de8cff7b5b7f30aadf46b933ad56a47cf6d2d68c0fa7593f322a6ea0 diff --git a/dev-python/astropy/astropy-5.0.ebuild b/dev-python/astropy/astropy-5.2.1.ebuild index 43e7ac903..b52d1e6f5 100644 --- a/dev-python/astropy/astropy-5.0.ebuild +++ b/dev-python/astropy/astropy-5.2.1.ebuild @@ -3,13 +3,13 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Core functionality for performing astrophysics with Python" -HOMEPAGE="https://astropy.org/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" +HOMEPAGE="https://www.astropy.org/" LICENSE="BSD" SLOT="0" @@ -33,11 +33,12 @@ RDEPEND=" >=sci-libs/cfitsio-3.350:0= sys-libs/zlib:0= " -BDEPEND="${RDEPEND} +DEPEND="${RDEPEND}" +BDEPEND=" dev-python/astropy-helpers[${PYTHON_USEDEP}] dev-python/extension-helpers[${PYTHON_USEDEP}] dev-python/cython[${PYTHON_USEDEP}] - dev-python/setuptools_scm[${PYTHON_USEDEP}] + dev-python/setuptools-scm[${PYTHON_USEDEP}] test? ( dev-libs/libxml2 dev-python/h5py[${PYTHON_USEDEP}] diff --git a/dev-python/astropy/metadata.xml b/dev-python/astropy/metadata.xml index 3d1dc456d..3891d8cc8 100644 --- a/dev-python/astropy/metadata.xml +++ b/dev-python/astropy/metadata.xml @@ -9,4 +9,7 @@ <email>sci-astronomy@gentoo.org</email> <name>Gentoo Astronomy Project</name> </maintainer> + <upstream> + <remote-id type="pypi">astropy</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/astroquery/Manifest b/dev-python/astroquery/Manifest index 5d34a7193..2472dec6d 100644 --- a/dev-python/astroquery/Manifest +++ b/dev-python/astroquery/Manifest @@ -1 +1 @@ -DIST astroquery-0.4.1.tar.gz 6525892 BLAKE2B 9ee1d57f265e0370df4f302b6422955701c5fd8deb27c4dd76b5746f3c307e5b4d09b29a8746ff0f6b406065b0d339b3afa59e974806e47d9d9ee6fef3e18e09 SHA512 71e160c9495532c0bf0060574996187d7801feeecac526b50b3aebd0ce147ae3877a2a235ab5c49690733d5833050bd3f8365be7ba6f97f2db8a416766f12c15 +DIST astroquery-0.4.6.tar.gz 6070636 BLAKE2B 9ea912661e3d0ad59ca42087527eeee5657062c39c389a2635e699a5cb683eb6f4324b9c546e227f26e57b645057ad6bde0b2dad7f71cf5f7b090792ca9f4afc SHA512 4ec5e2fbd9754ae0be614011a0020218fbdd7d7cf4511836b40cefcf99fa0feb88cc247c2c83e556aa11ff10930b9e4d7784d175039f9581a4551bb4667a3529 diff --git a/dev-python/astroquery/astroquery-0.4.1.ebuild b/dev-python/astroquery/astroquery-0.4.6.ebuild index a7884eb1d..3e140280c 100644 --- a/dev-python/astroquery/astroquery-0.4.1.ebuild +++ b/dev-python/astroquery/astroquery-0.4.6.ebuild @@ -1,15 +1,15 @@ # Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=7 +EAPI=8 -PYTHON_COMPAT=( python3_{7,8,9} ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="A collection of packages to access online astronomical resources" -HOMEPAGE="https://www.astropy.org/astroquery/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" +HOMEPAGE="https://astroquery.readthedocs.io/" LICENSE="BSD" SLOT="0" diff --git a/dev-python/astroquery/metadata.xml b/dev-python/astroquery/metadata.xml index bb6a20b51..b70564de2 100644 --- a/dev-python/astroquery/metadata.xml +++ b/dev-python/astroquery/metadata.xml @@ -12,5 +12,6 @@ to support many services with a uniform API. </longdescription> <upstream> <remote-id type="github">astropy/astroquery</remote-id> + <remote-id type="pypi">astroquery</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/astroscrappy/astroscrappy-1.1.0.ebuild b/dev-python/astroscrappy/astroscrappy-1.1.0-r1.ebuild index 79054f7ab..cd34136af 100644 --- a/dev-python/astroscrappy/astroscrappy-1.1.0.ebuild +++ b/dev-python/astroscrappy/astroscrappy-1.1.0-r1.ebuild @@ -3,21 +3,19 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Speedy Cosmic Ray Annihilation Package in Python" HOMEPAGE="https://github.com/astropy/astroscrappy" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" KEYWORDS="~amd64 ~x86" #TODO: Fix this -# ModuleNotFoundError: No module named 'astroscrappy.astroscrappy' -# happens even with --install argument RESTRICT="test" RDEPEND=" @@ -28,4 +26,4 @@ BDEPEND="dev-python/cython[${PYTHON_USEDEP}]" # Requires self to already be installed #distutils_enable_sphinx docs dev-python/sphinx-astropy -distutils_enable_tests --install pytest +distutils_enable_tests pytest diff --git a/dev-python/astroscrappy/metadata.xml b/dev-python/astroscrappy/metadata.xml index 4f4367037..b308f644b 100644 --- a/dev-python/astroscrappy/metadata.xml +++ b/dev-python/astroscrappy/metadata.xml @@ -5,4 +5,8 @@ <email>sci-astronomy@gentoo.org</email> <name>Gentoo Astronomy Project</name> </maintainer> + <upstream> + <remote-id type="github">astropy/astroscrappy</remote-id> + <remote-id type="pypi">astroscrappy</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/av/av-8.0.3.ebuild b/dev-python/av/av-8.0.3.ebuild index 91c9535df..75236266d 100644 --- a/dev-python/av/av-8.0.3.ebuild +++ b/dev-python/av/av-8.0.3.ebuild @@ -4,12 +4,10 @@ EAPI=8 PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Pythonic bindings for FFmpeg's libraries." -HOMEPAGE="https://github.com/mikeboers/PyAV https://pypi.org/project/av/" -SRC_URI="mirror://pypi/${P:0:1}/${PN}/${P}.tar.gz" +HOMEPAGE="https://github.com/PyAV-Org/PyAV https://pypi.org/project/av/" LICENSE="BSD" SLOT="0" diff --git a/dev-python/av/metadata.xml b/dev-python/av/metadata.xml index 325d9cc57..2231a73ae 100644 --- a/dev-python/av/metadata.xml +++ b/dev-python/av/metadata.xml @@ -5,4 +5,8 @@ <email>jpizarrocallejas@gmail.com</email> <name>Jorge Pizarro Callejas</name> </maintainer> + <upstream> + <remote-id type="github">mikeboers/PyAV</remote-id> + <remote-id type="pypi">av</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/awkward-cpp/Manifest b/dev-python/awkward-cpp/Manifest new file mode 100644 index 000000000..8d27c5f19 --- /dev/null +++ b/dev-python/awkward-cpp/Manifest @@ -0,0 +1 @@ +DIST awkward-cpp-28.tar.gz 1422514 BLAKE2B ec87c37a37e3aceb0a35b580122a8c632070dc9fd284e34de66db2611cf1024dbd7ec8a355f52349783258cdaa91e0f966156689c82427f72574230c8b6ae6e1 SHA512 bbe0df527a7863b192c3c85a90c1295d2eb788eb7670a04a001838294dcdd434b49bdc2b4c3f71e34f5f160b4b9cafdea1cf290206fdcb14c0555005797a666d diff --git a/dev-python/awkward-cpp/awkward-cpp-28.ebuild b/dev-python/awkward-cpp/awkward-cpp-28.ebuild new file mode 100644 index 000000000..57634d120 --- /dev/null +++ b/dev-python/awkward-cpp/awkward-cpp-28.ebuild @@ -0,0 +1,26 @@ +EAPI=8 + +PYTHON_COMPAT=( python3_{10..12} ) + +CMAKE_MAKEFILE_GENERATOR="emake" +DISTUTILS_USE_PEP517=scikit-build-core +PYPI_NO_NORMALIZE=1 + +inherit pypi distutils-r1 + +DESCRIPTION="awkward-cpp bindings for Python" +HOMEPAGE="https://github.com/scikit-hep/awkward/" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64" + +DEPEND=" + >=dev-python/numpy-1.18.0[${PYTHON_USEDEP}] +" +RDEPEND="${DEPEND}" +BDEPEND=" + >=dev-python/scikit-build-core-0.2.0[${PYTHON_USEDEP}] +" + +distutils_enable_tests pytest diff --git a/dev-python/awkward-cpp/metadata.xml b/dev-python/awkward-cpp/metadata.xml new file mode 100644 index 000000000..a94e99f4b --- /dev/null +++ b/dev-python/awkward-cpp/metadata.xml @@ -0,0 +1,19 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <maintainer type="person"> + <email>alexander@neuwirth-informatik.de</email> + <name>Alexander Puck Neuwirth</name> + </maintainer> + <longdescription lang="en"> + awkward-cpp provides precompiled routines for the awkward package. It is not useful on its own, only as a dependency for awkward . + </longdescription> + <upstream> + <remote-id type="pypi">awkward</remote-id> + <remote-id type="github">scikit-hep/awkward</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/awkward/Manifest b/dev-python/awkward/Manifest new file mode 100644 index 000000000..d3422fc99 --- /dev/null +++ b/dev-python/awkward/Manifest @@ -0,0 +1 @@ +DIST awkward-2.5.2.tar.gz 5561040 BLAKE2B 4799eeb25fa7433b4889328f9f147b435024c3f507ce66b5cbfcfc5b9c50e63f77131a43b8acd3d9f22d20915eaeb129162e26ffa83fd2071b9a393fbc441e7e SHA512 b6f4f2841e642bfc17aaf40779030d125e9737ef0ded20cc8a898c4b8c15c2932f12c8a0bda3e8c48bb8d13729cf97e181866f15913317bd2dba13b0dad6b929 diff --git a/dev-python/awkward/awkward-2.5.2.ebuild b/dev-python/awkward/awkward-2.5.2.ebuild new file mode 100644 index 000000000..c11095214 --- /dev/null +++ b/dev-python/awkward/awkward-2.5.2.ebuild @@ -0,0 +1,38 @@ +EAPI=8 + +PYTHON_COMPAT=( python3_{10..12} ) +DISTUTILS_USE_PEP517=hatchling +export SETUPTOOLS_SCM_PRETEND_VERSION=${PV} +inherit distutils-r1 pypi + +DESCRIPTION="Manipulate JSON-like data with NumPy-like idioms." +HOMEPAGE="https://github.com/scikit-hep/awkward" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64" + +RDEPEND=" + >=dev-python/numpy-1.18.0[${PYTHON_USEDEP}] + ~dev-python/awkward-cpp-28[${PYTHON_USEDEP}] +" +DEPEND="${RDEPEND}" +BDEPEND=" + dev-python/packaging[${PYTHON_USEDEP}] + dev-python/hatch-vcs[${PYTHON_USEDEP}] + dev-python/hatch-fancy-pypi-readme[${PYTHON_USEDEP}] + test? ( + dev-libs/apache-arrow[zstd] + dev-python/pyarrow[${PYTHON_USEDEP}] + dev-python/fsspec[${PYTHON_USEDEP}] + dev-python/numexpr[${PYTHON_USEDEP}] + dev-python/pandas[${PYTHON_USEDEP}] + ) +" + +EPYTEST_IGNORE=( + tests-cuda/ + tests-cuda-kernels/ +) + +distutils_enable_tests pytest diff --git a/dev-python/awkward/metadata.xml b/dev-python/awkward/metadata.xml new file mode 100644 index 000000000..b3ac679d3 --- /dev/null +++ b/dev-python/awkward/metadata.xml @@ -0,0 +1,19 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <maintainer type="person"> + <email>alexander@neuwirth-informatik.de</email> + <name>Alexander Puck Neuwirth</name> + </maintainer> + <longdescription lang="en"> + Awkward Array is a library for nested, variable-sized data, including arbitrary-length lists, records, mixed types, and missing data, using NumPy-like idioms. + </longdescription> + <upstream> + <remote-id type="pypi">awkward</remote-id> + <remote-id type="github">scikit-hep/awkward</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/bcbio-gff/Manifest b/dev-python/bcbio-gff/Manifest deleted file mode 100644 index a4a0d0677..000000000 --- a/dev-python/bcbio-gff/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST bcbio-gff-0.6.6.tar.gz 19099 BLAKE2B d86840ecb3b3073ddb4810fad976fa306e9b7cd13bb3779f4b0832deef01388ed39a529fde75b2dbae1078132889007bf4cef728c0fb41ddc7f363209382914a SHA512 b8880181b8308cd729936cda9102c0ea4793aeb551d75d639fe23712245fd0c4c1a72de7d96e0739d92260503c2b45d22bf73ddfe6f260629b29409097050da5 diff --git a/dev-python/bcbio-gff/bcbio-gff-0.6.6.ebuild b/dev-python/bcbio-gff/bcbio-gff-0.6.6.ebuild deleted file mode 100644 index 73f412971..000000000 --- a/dev-python/bcbio-gff/bcbio-gff-0.6.6.ebuild +++ /dev/null @@ -1,18 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7,8,9} ) - -inherit distutils-r1 - -DESCRIPTION="Read and write Generic Feature Format (GFF) with Biopython" -HOMEPAGE="https://pypi.python.org/pypi/bcbio-gff" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="HPND" # same as biopython -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND="dev-python/six[${PYTHON_USEDEP}]" diff --git a/dev-python/bcbio-gff/metadata.xml b/dev-python/bcbio-gff/metadata.xml deleted file mode 100644 index 138cb7705..000000000 --- a/dev-python/bcbio-gff/metadata.xml +++ /dev/null @@ -1,12 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="person"> - <email>mmokrejs@fold.natur.cuni.cz</email> - <name>Martin Mokrejs</name> - </maintainer> - <maintainer type="project"> - <email>sci-biology@gentoo.org</email> - <name>Gentoo Biology Project</name> - </maintainer> -</pkgmetadata> diff --git a/dev-python/bokeh/bokeh-2.4.2.ebuild b/dev-python/bokeh/bokeh-2.4.2.ebuild index 02581b74c..7347e5110 100644 --- a/dev-python/bokeh/bokeh-2.4.2.ebuild +++ b/dev-python/bokeh/bokeh-2.4.2.ebuild @@ -3,14 +3,13 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) -DISTUTILS_USE_SETUPTOOLS=rdepend -DISTUTILS_IN_SOURCE_BUILD=1 -inherit distutils-r1 optfeature +PYTHON_COMPAT=( python3_{10..12} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 optfeature pypi DESCRIPTION="Statistical and interactive HTML plots for Python" HOMEPAGE="https://bokeh.org/" -SRC_URI="mirror://pypi/${P:0:1}/${PN}/${P}.tar.gz +SRC_URI+=" https://raw.githubusercontent.com/bokeh/bokeh/${PV}/conftest.py -> conftest-${P}.py " diff --git a/dev-python/boost-histogram/Manifest b/dev-python/boost-histogram/Manifest new file mode 100644 index 000000000..1fb711744 --- /dev/null +++ b/dev-python/boost-histogram/Manifest @@ -0,0 +1 @@ +DIST boost_histogram-1.4.0.tar.gz 1329002 BLAKE2B 1636ed04c5df2f6c156468ffc0fed7b82469bb903c316b1b9fd209b7072ebb5b0de9969f4f8b50da69db7ee40009df534959db7734f1161da2c6216bddce858b SHA512 e7f61cc2d013a0664646d9edf1f713eb5f06f000ad2105e90229ef9b01b25a08c8e717a2ac241ed990fa2c082a1bb84af18e17b238640de5679d0ab76ff08af6 diff --git a/dev-python/boost-histogram/boost-histogram-1.4.0.ebuild b/dev-python/boost-histogram/boost-histogram-1.4.0.ebuild new file mode 100644 index 000000000..96950ebe5 --- /dev/null +++ b/dev-python/boost-histogram/boost-histogram-1.4.0.ebuild @@ -0,0 +1,39 @@ +EAPI=8 + +PYTHON_COMPAT=( python3_{10..12} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 pypi + +DESCRIPTION="Python bindings for the C++14 Boost::Histogram library" +HOMEPAGE="https://github.com/scikit-hep/boost-histogram" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64" + +RDEPEND=" + dev-libs/boost:=[python,${PYTHON_USEDEP}] + dev-python/numpy[${PYTHON_USEDEP}] +" +DEPEND="${RDEPEND}" +BDEPEND=" + test? ( + dev-python/cloudpickle[${PYTHON_USEDEP}] + dev-python/hypothesis[${PYTHON_USEDEP}] + ) +" + +src_prepare() { + default + sed -i 's/"pytest-benchmark"//g' pyproject.toml || die +} + +distutils_enable_tests pytest + +EPYTEST_IGNORE=( + tests/test_benchmark_1d.py + tests/test_benchmark_2d.py + tests/test_benchmark_category_axis.py + tests/test_pickle.py + tests/test_threaded_fill.py +) diff --git a/dev-python/boost-histogram/metadata.xml b/dev-python/boost-histogram/metadata.xml new file mode 100644 index 000000000..345502cba --- /dev/null +++ b/dev-python/boost-histogram/metadata.xml @@ -0,0 +1,19 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <maintainer type="person"> + <email>alexander@neuwirth-informatik.de</email> + <name>Alexander Puck Neuwirth</name> + </maintainer> + <longdescription lang="en"> + Python bindings for Boost::Histogram (source), a C++14 library. This is one of the fastest libraries for histogramming, while still providing the power of a full histogram object. See what's new. + </longdescription> + <upstream> + <remote-id type="pypi">boost-histogram</remote-id> + <remote-id type="github">scikit-hep/boost-histogram</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/bz2file/Manifest b/dev-python/bz2file/Manifest deleted file mode 100644 index f8c6f14de..000000000 --- a/dev-python/bz2file/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST bz2file-0.98.tar.gz 11333 BLAKE2B 4ec4687f609521a637c20a512b544cd99d7c334f7cffaeff71d2a893eefe131a10bd548b9f1e829c899cdcf181f5e877e092cf08d709bb3f1ba9901d3386b3e6 SHA512 2d28e71fe71b5fea4008d65a1fa91d5c6fafcacc09f891c5deaaa985661576bd97f2e33fe9f8c5943841f09c153f2079a2511329c066e57c775fb0b089b30b20 diff --git a/dev-python/bz2file/bz2file-0.98.ebuild b/dev-python/bz2file/bz2file-0.98.ebuild deleted file mode 100644 index 0324854a1..000000000 --- a/dev-python/bz2file/bz2file-0.98.ebuild +++ /dev/null @@ -1,23 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7,8,9} ) - -inherit distutils-r1 - -DESCRIPTION="Read and write bzip2-compressed files" -HOMEPAGE="https://github.com/nvawda/bz2file" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="Apache-2.0" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -PATCHES=( "${FILESDIR}"/${P}-always-threading.patch ) - -python_test() { - distutils_install_for_testing - ${EPYTHON} test_bz2file.py || die "tests failed for ${EPYTHON}" -} diff --git a/dev-python/bz2file/files/bz2file-0.98-always-threading.patch b/dev-python/bz2file/files/bz2file-0.98-always-threading.patch deleted file mode 100644 index ec11bce25..000000000 --- a/dev-python/bz2file/files/bz2file-0.98-always-threading.patch +++ /dev/null @@ -1,22 +0,0 @@ -threading is always available in newer pythons - -https://github.com/nvawda/bz2file/issues/7 - ---- a/test_bz2file.py -+++ b/test_bz2file.py -@@ -496,15 +496,6 @@ class BZ2FileTest(BaseTest): - for t in threads: - t.join() - -- def testWithoutThreading(self): -- if not hasattr(support, "import_fresh_module"): -- return -- module = support.import_fresh_module("bz2file", blocked=("threading",)) -- with module.BZ2File(self.filename, "wb") as f: -- f.write(b"abc") -- with module.BZ2File(self.filename, "rb") as f: -- self.assertEqual(f.read(), b"abc") -- - def testMixedIterationAndReads(self): - self.createTempFile() - linelen = len(self.TEXT_LINES[0]) diff --git a/dev-python/cadquery-ocp/Manifest b/dev-python/cadquery-ocp/Manifest deleted file mode 100644 index 9b34bca41..000000000 --- a/dev-python/cadquery-ocp/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST cadquery-ocp-7.5.3.0.tar.gz 5571719 BLAKE2B ba31d7ae2f54e2f4c17f0914cab1299b91254a3fab7d07f18b2d698ce6e47e9ea174e449e18971197b39f08fa755c4d16d8cba24f894372f5bd515ec6686935e SHA512 b89dc91f224ee87e288bd7e3a10cb3b2c6559e2b36c24aac2f675fb05ecda755b723721122a7e58d87ba4253024892795369b1e747fb77684c739d01d516d1a2 diff --git a/dev-python/cadquery-ocp/cadquery-ocp-7.5.3.0.ebuild b/dev-python/cadquery-ocp/cadquery-ocp-7.5.3.0.ebuild deleted file mode 100644 index 8a97782bd..000000000 --- a/dev-python/cadquery-ocp/cadquery-ocp-7.5.3.0.ebuild +++ /dev/null @@ -1,197 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_10 ) - -# OCP uses "python-single-r1" only because VTK uses "python-single-r1". -inherit check-reqs cmake llvm multiprocessing python-single-r1 toolchain-funcs - -MY_PN=OCP -MY_PV="${PV//_/-}" -MY_P="${MY_PN}-${MY_PV}" -OCCT_PV=$(ver_cut 1-3) - -DESCRIPTION="Python wrapper for OCCT generated using pywrap" -HOMEPAGE="https://github.com/CadQuery/OCP" -SRC_URI="https://github.com/CadQuery/OCP/archive/refs/tags/${MY_PV}.tar.gz -> ${P}.tar.gz" - -LICENSE="Apache-2.0" -# Hard masking due to opencascade slot 0/7.5 having been removed from ::gentoo in ff9032e688571dde15e9d36cebedf5a247ded1b8 -#KEYWORDS="~amd64 ~x86" -KEYWORDS="" -SLOT="0" -REQUIRED_USE="${PYTHON_REQUIRED_USE}" - -# CMake and VTK requirements derive from the "OCP/CMakeLists.txt" file -# generated by the src_prepare() phase. OCP currently requires opencascade -# (OCCT) to be built with "-DUSE_GLES2=OFF" and thus "-gles2". See also: -# https://github.com/CadQuery/OCP/issues/46#issuecomment-808920994 -BDEPEND=" - >=dev-libs/lief-0.11.5[python,${PYTHON_SINGLE_USEDEP}] - >=dev-util/cmake-3.16 -" -RDEPEND=" - ${PYTHON_DEPS} - sci-libs/opencascade:0/7.5[json,tbb,vtk] - >=sci-libs/vtk-9.0.0[python,${PYTHON_SINGLE_USEDEP}] -" -DEPEND="${RDEPEND} - $(python_gen_cond_dep ' - >=dev-python/cadquery-pywrap-'${OCCT_PV}'_rc0[${PYTHON_USEDEP}]') -" - -S="${WORKDIR}/${MY_P}" - -# The source "OCP/CMakeLists.txt" file is output by "bindgen" in src_prepare(). -CMAKE_IN_SOURCE_BUILD=True - -# Ensure the path returned by get_llvm_prefix() contains clang. -llvm_check_deps() { - has_version -r "sys-devel/clang:${LLVM_SLOT}" -} - -cadquery-ocp_check_reqs() { - CHECKREQS_DISK_BUILD=1300M check-reqs_pkg_${EBUILD_PHASE} -} - -pkg_pretend() { - cadquery-ocp_check_reqs -} - -pkg_setup() { - cadquery-ocp_check_reqs - llvm_pkg_setup - python-single-r1_pkg_setup -} - -# OCP currently requires manual configuration, compilation, and installation -# loosely inspired by the conda-specific "build-bindings-job.yml" file. -# -# Note that the cmake_src_prepare() function called below handles user patches. -src_prepare() { - # Most recently installed version of Clang. - local _CLANG_VERSION="$(CPP=clang clang-fullversion)" - - # Most recently installed version (excluding trailing patch) of VTK. - local _VTK_VERSION="$(best_version -r sci-libs/vtk)" - _VTK_VERSION="$(ver_cut 1-2 "${_VTK_VERSION##sci-libs/vtk}")" - - # Absolute dirname of the most recently installed Clang include directory, - # mimicing similar logic in the "dev-python/shiboken2" ebuild. See also: - # https://bugs.gentoo.org/619490 - local _CLANG_INCLUDE_DIR="${EPREFIX}/usr/lib/clang/${_CLANG_VERSION}/include" - - # Absolute filename of the most recently installed Clang shared library. - local _CLANG_LIB_FILE="$(get_llvm_prefix)/lib64/libclang.so" - - # Absolute dirname of OCCT's include and shared library directories. - local _OCCT_INCLUDE_DIR="${EPREFIX}/usr/include/opencascade" - local _OCCT_LIB_DIR="${EPREFIX}/usr/lib64/opencascade" - - # Absolute dirname of a temporary directory to store symbol tables for this - # OCCT version dumped below by the "dump_symbols.py" script. - local _OCCT_DUMP_SYMBOLS_ROOT_DIR="${T}/dump_symbols" - local _OCCT_DUMP_SYMBOLS_DIR="${_OCCT_DUMP_SYMBOLS_ROOT_DIR}/lib_linux" - - # Absolute dirname of VTK's include directory, - local _VTK_INCLUDE_DIR="${EPREFIX}/usr/include/vtk-${_VTK_VERSION}" - - # Ensure the above paths exist as a crude sanity test. - test -d "${_CLANG_INCLUDE_DIR}" || die "${_CLANG_INCLUDE_DIR} not found." - test -f "${_CLANG_LIB_FILE}" || die "${_CLANG_LIB_FILE} not found." - test -d "${_OCCT_INCLUDE_DIR}" || die "${_OCCT_INCLUDE_DIR} not found." - test -d "${_OCCT_LIB_DIR}" || die "${_OCCT_LIB_DIR} not found." - test -d "${_VTK_INCLUDE_DIR}" || die "${_VTK_INCLUDE_DIR} not found." - - # "dev-python/clang-python" atom targeting this Clang version. - local _CLANG_PYTHON_ATOM="dev-python/clang-python-${_CLANG_VERSION}" - - # Ensure "dev-python/clang-python" targets this Clang version. - has_version -r "=${_CLANG_PYTHON_ATOM}" || - die "${_CLANG_PYTHON_ATOM} not installed." - - # Remove all vendored paths. - rm -r conda opencascade pywrap *.dat || die - - # Inject a symlink to OCCT's include directory. - ln -s "${_OCCT_INCLUDE_DIR}" opencascade || die - - # Inject a symlink from OCCT's shared library directory into this temporary - # directory as required by the "dump_symbols.py" script. - mkdir -p "${_OCCT_DUMP_SYMBOLS_DIR}" || die - ln -s "${_OCCT_LIB_DIR}" "${_OCCT_DUMP_SYMBOLS_DIR}"/. || die - - # Update all hardcoded OCCT shared library versions in "dump_symbols.py". - sed -i -e 's~\(\.so\.\)[0-9]\+.[0-9]\+.[0-9]\+~\1'${OCCT_PV}'~' \ - dump_symbols.py || die - - # Dump (i.e., generate) symbol tables for this OCCT version. - einfo 'Dumping OCCT symbol tables...' - ${EPYTHON} dump_symbols.py "${_OCCT_DUMP_SYMBOLS_ROOT_DIR}" || die - - # Generate OCCT bindings in the "OCP/" subdirectory. - einfo 'Building OCP CMake binary tree...' - ${EPYTHON} -m bindgen \ - --verbose \ - --njobs $(makeopts_jobs) \ - --libclang "${_CLANG_LIB_FILE}" \ - --include "${_CLANG_INCLUDE_DIR}" \ - --include "${_VTK_INCLUDE_DIR}" \ - all ocp.toml || die - - # Remove the source "FindOpenCascade.cmake" after generating bindings, - # which copied that file to the target "OCP/FindOpenCascade.cmake". - rm FindOpenCascade.cmake || die - - #FIXME: Submit an issue recommending upstream replace their - #non-working "OCP/FindOpenCascade.cmake" file with a standard top-level - #"CMakeLists.txt" file that finds dependency paths: e.g., via @waebbl - # find_package(vtk 9 CONFIG REQUIRED) - # if(TARGET VTK::VTK) - # get_target_property(VTK_INCLUDE_DIRS VTK::VTK INTERFACE_INCLUDE_DIRECTORIES) - # endif() - - # Replace all hardcoded paths in "OCP/FindOpenCascade.cmake" with - # standard OCCT paths derived above. That file is both fundamentally - # broken and useless, as the ${CASROOT} environment variable and - # "/usr/lib64/cmake/opencascade-${PV}/OpenCASCADEConfig.cmake" file - # already reliably identify all requisite OpenCASCADE paths. Failure to - # patch this file results in src_configure() failures resembling: - # -- Could NOT find OPENCASCADE (missing: OPENCASCADE_LIBRARIES) - sed -i \ - -e 's~$ENV{CONDA_PREFIX}/include/opencascade\b~'${_OCCT_INCLUDE_DIR}'~' \ - -e 's~$ENV{CONDA_PREFIX}/lib\b~'${_OCCT_LIB_DIR}'~' \ - -e 's~$ENV{CONDA_PREFIX}/Library/\(lib\|include/opencascade\)~~' \ - OCP/FindOpenCascade.cmake || die - - # Patch the "OCP/CMakeLists.txt" file generated by "bindgen" above, passed - # as an absolute path both here and below to minimize eclass issues. - CMAKE_USE_DIR="${S}/OCP" cmake_src_prepare -} - -src_configure() { - local mycmakeargs=( - -B "${S}/OCP.build" - -DPYTHON_EXECUTABLE="${PYTHON}" - -Wno-dev - ) - - CMAKE_USE_DIR="${S}/OCP" cmake_src_configure -} - -src_compile() { - CMAKE_USE_DIR="${S}/OCP.build" cmake_src_compile -} - -# OCP currently ships no test suite, so we synthesize a crude import unit test. -src_test() { - PYTHONPATH="${S}/OCP.build" ${EPYTHON} -c \ - 'from OCP.gp import gp_Vec, gp_Ax1, gp_Ax3, gp_Pnt, gp_Dir, gp_Trsf, gp_GTrsf, gp, gp_XYZ' -} - -src_install() { - python_moduleinto . - python_domodule "${S}/OCP.build/"OCP*.so -} diff --git a/dev-python/cadquery-pywrap/Manifest b/dev-python/cadquery-pywrap/Manifest deleted file mode 100644 index 4bccc9e86..000000000 --- a/dev-python/cadquery-pywrap/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST cadquery-pywrap-7.5.3_rc20220113.tar.gz 5584755 BLAKE2B d6585d33eddc34c719f9694322d209969698d6e5c67288a95ad841efbc2347d2cb162d8f3443a4e3373d70b97423485d1535c60713e4cb8ace413d114b852083 SHA512 f0d984b6fa6df3151d9cb612560a5266f98d286b9ab283c4647095dda3da1c54fb102babee4d2db574b695604332bc7576740406907995940eb60635afb614b8 diff --git a/dev-python/cadquery-pywrap/cadquery-pywrap-7.5.3_rc20220113.ebuild b/dev-python/cadquery-pywrap/cadquery-pywrap-7.5.3_rc20220113.ebuild deleted file mode 100644 index 7a3b772f3..000000000 --- a/dev-python/cadquery-pywrap/cadquery-pywrap-7.5.3_rc20220113.ebuild +++ /dev/null @@ -1,63 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_10 ) - -inherit llvm distutils-r1 - -DESCRIPTION="C++ binding generator based on libclang and pybind11" -HOMEPAGE="https://github.com/CadQuery/pywrap" - -#FIXME: Uncomment on bumping to the next stable release. -# MY_PN=occt -# MY_PV=$(ver_cut 1-2) -# MY_P="${MY_PN}${MY_PV}" -# SRC_URI="https://github.com/CadQuery/pywrap/archive/refs/tags/${MY_P}.tar.gz" - -# The official pywrap 7.4.0 tarball is broken, but pywrap 7.5.3 has yet to be -# officially released. We instead package a commit known to work as expected. -MY_COMMIT="66e7376d3a27444393fc99acbdbef40bbc7031ae" -SRC_URI="https://github.com/CadQuery/pywrap/archive/${MY_COMMIT}.tar.gz -> ${P}.tar.gz" - -LICENSE="Apache-2.0" -KEYWORDS="~amd64 ~x86" -SLOT="0" - -# Dependencies are intentionally listed in "setup.py" order. -RDEPEND=" - dev-python/click[${PYTHON_USEDEP}] - dev-python/logzero[${PYTHON_USEDEP}] - dev-python/path[${PYTHON_USEDEP}] - dev-python/clang-python[${PYTHON_USEDEP}] - dev-python/cymbal[${PYTHON_USEDEP}] - dev-python/toml[${PYTHON_USEDEP}] - dev-python/pandas[${PYTHON_USEDEP}] - >=dev-python/joblib-1.0.0[${PYTHON_USEDEP}] - dev-python/tqdm[${PYTHON_USEDEP}] - dev-python/jinja[${PYTHON_USEDEP}] - dev-python/toposort[${PYTHON_USEDEP}] - dev-python/pyparsing[${PYTHON_USEDEP}] - dev-python/pybind11[${PYTHON_USEDEP}] - dev-python/schema[${PYTHON_USEDEP}] - sci-libs/vtk -" -DEPEND="${RDEPEND}" - -S="${WORKDIR}/pywrap-${MY_COMMIT}" - -src_prepare() { - #FIXME: Submit an upstream issue. This violates PEP 440 standards. - # Sanitize the "bindgen" version to avoid Gentoo QA notices. - sed -i -e 's~\(version=\)"0.1dev"~\1"'$(ver_rs 3 '')'"~' setup.py || die - - # Replace conda- with Gentoo-specific prefix dirnames. - sed -i -e "s~\\bgetenv('CONDA_PREFIX')~'${EPREFIX}/usr'~" bindgen/*.py || - die - - # Reduce all hardcoded header includes to noops. - sed -i -e 's~rv\.append(Path(prefix).*~True~' bindgen/utils.py || die - - distutils-r1_src_prepare -} diff --git a/dev-python/cadquery/Manifest b/dev-python/cadquery/Manifest deleted file mode 100644 index 2b4ddbec1..000000000 --- a/dev-python/cadquery/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST cadquery-2.2_rc20220506.tar.gz 2872821 BLAKE2B a48b4279a6e24166842c3f7c43e0ff3552f22f8821fa203fce30b76110423c375019228b1a458b0020ebfd23a052545ae0d90e3246619a2e53dbe8f411449f3d SHA512 65bd62268f920d1fa170921033c4e4f451e1bdf7e4d1cef457bf34c4466a076de57f40d38ed7fb1d8f207b45447d6763a52880d9d49426372b06fefd536e7c17 diff --git a/dev-python/cadquery/cadquery-2.2_rc20220506.ebuild b/dev-python/cadquery/cadquery-2.2_rc20220506.ebuild deleted file mode 100644 index 29edf6601..000000000 --- a/dev-python/cadquery/cadquery-2.2_rc20220506.ebuild +++ /dev/null @@ -1,60 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_USE_PEP517=setuptools -DISTUTILS_SINGLE_IMPL=1 -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 - -DESCRIPTION="Python parametric CAD scripting framework based on OCCT" -HOMEPAGE="https://cadquery.readthedocs.io" - -# The official CadQuery 2.1 tarball requires the obsolete OCCT 7.4.0, but -# CadQuery 2.2 has yet to be officially released. We instead package a commit -# known to work as expected with OCCT 7.5.2. -MY_COMMIT="803a05e78c233fdb537a8604c3f2b56a52179bbe" - -#FIXME: Uncomment on bumping to the next stable release. -# SRC_URI="https://github.com/CadQuery/cadquery/archive/refs/tags/${PV}.tar.gz" -SRC_URI="https://github.com/CadQuery/cadquery/archive/${MY_COMMIT}.tar.gz -> ${P}.tar.gz" - -LICENSE="Apache-2.0" -SLOT="0" -# Hard masking since package depends on dev-python/cadquery-ocp, which depends on sci-libs/opencascade, which is no longer available from ::gentoo in the required slot. -KEYWORDS="" -#KEYWORDS="~amd64 ~x86" - -# Dependencies are intentionally listed in "conda/meta.yml" order. Due to its -# Anaconda focus, "setup.py" currently fails to list dependencies. -BDEPEND=" - test? ( - $(python_gen_cond_dep ' - dev-python/docutils[${PYTHON_USEDEP}] - dev-python/path[${PYTHON_USEDEP}] - ') - ) -" -RDEPEND=" - >=dev-python/cadquery-ocp-7.5.0[${PYTHON_SINGLE_USEDEP}] - $(python_gen_cond_dep ' - >=dev-python/pyparsing-2.0.0[${PYTHON_USEDEP}] - dev-python/ezdxf[${PYTHON_USEDEP}] - dev-python/ipython[${PYTHON_USEDEP}] - dev-python/typing-extensions[${PYTHON_USEDEP}] - dev-python/nptyping[${PYTHON_USEDEP}] - sci-libs/nlopt[python,${PYTHON_USEDEP}] - dev-python/multimethod[${PYTHON_USEDEP}] - dev-python/typish[${PYTHON_USEDEP}] - ') -" -DEPEND="${RDEPEND}" - -S="${WORKDIR}/${PN}-${MY_COMMIT}" - -distutils_enable_tests pytest - -#FIXME: Uncomment after packaging "dev-python/sphinx-autodoc-typehints". -# distutils_enable_sphinx docs dev-python/sphinx_rtd_theme dev-python/sphinx-autodoc-typehints diff --git a/dev-python/cadquery/metadata.xml b/dev-python/cadquery/metadata.xml deleted file mode 100644 index 86166e277..000000000 --- a/dev-python/cadquery/metadata.xml +++ /dev/null @@ -1,12 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <stabilize-allarches/> - <upstream> - <remote-id type="github">CadQuery/cadquery</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/ccdproc/ccdproc-2.3.0.ebuild b/dev-python/ccdproc/ccdproc-2.3.0.ebuild index 7789636c3..cdbe1c92c 100644 --- a/dev-python/ccdproc/ccdproc-2.3.0.ebuild +++ b/dev-python/ccdproc/ccdproc-2.3.0.ebuild @@ -4,12 +4,10 @@ EAPI=8 PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Astropy affiliated package for reducing optical/IR CCD data" HOMEPAGE="https://github.com/astropy/ccdproc" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" @@ -24,13 +22,13 @@ KEYWORDS="~amd64 ~x86" # pytest-filter-subpackage>=0.1 RESTRICT="test" -BDEPEND="dev-python/setuptools_scm[${PYTHON_USEDEP}]" +BDEPEND="dev-python/setuptools-scm[${PYTHON_USEDEP}]" RDEPEND=" >=dev-python/astropy-4.0.6[${PYTHON_USEDEP}] >=dev-python/astroscrappy-1.0.8[${PYTHON_USEDEP}] >=dev-python/reproject-0.7[${PYTHON_USEDEP}] - sci-libs/scikit-image[${PYTHON_USEDEP}] + dev-python/scikit-image[${PYTHON_USEDEP}] dev-python/scipy[${PYTHON_USEDEP}] " diff --git a/dev-python/ccdproc/metadata.xml b/dev-python/ccdproc/metadata.xml index 387ed8dcd..72370beb3 100644 --- a/dev-python/ccdproc/metadata.xml +++ b/dev-python/ccdproc/metadata.xml @@ -12,5 +12,6 @@ and bad pixel tracking through the reduction steps. </longdescription> <upstream> <remote-id type="github">astropy/ccdproc</remote-id> + <remote-id type="pypi">ccdproc</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/cligj/cligj-0.7.2.ebuild b/dev-python/cligj/cligj-0.7.2.ebuild index b5d65668f..28e7f5510 100644 --- a/dev-python/cligj/cligj-0.7.2.ebuild +++ b/dev-python/cligj/cligj-0.7.2.ebuild @@ -3,7 +3,7 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) DISTUTILS_USE_PEP517="setuptools" inherit distutils-r1 diff --git a/dev-python/colorcet/Manifest b/dev-python/colorcet/Manifest index 9692f6be6..a743f1d71 100644 --- a/dev-python/colorcet/Manifest +++ b/dev-python/colorcet/Manifest @@ -1,2 +1 @@ -DIST colorcet-2.0.6.tar.gz 2924576 BLAKE2B 7354047b9cad133d7376d9ad19a6c09f6aa0c70e5cf0b5df6405064fdea2013df97e3beda7bba2d2483134ce3c3d63287dd911d2c2c9ed52b932eb0069dfb3a0 SHA512 b447e21a8922f0df94fd73791b8794467cc1a6a576367f073693450121fe936837da558e9ce79b930db64bcbc910f0528d84dd90eaf8ffe68b5546ac81a37813 DIST colorcet-3.0.1.tar.gz 3036207 BLAKE2B fabdd32dafc1828d50236ec93aa78e46aa125fe3564e732c2ece203cb71578d2d23303ccb2d069c938f513bd7df6a35f692b74b0c692546544f9e04fc28e9cae SHA512 92ede4947ef3af8b8cc3a4822c0e738cc8f0730fafb9f58a4a2c9bd3cda9c1e6ed254b9eec92f0306de95643eccd644b8ad955bc079ad20c00ee62e5f611431e diff --git a/dev-python/colorcet/colorcet-2.0.6.ebuild b/dev-python/colorcet/colorcet-2.0.6.ebuild deleted file mode 100644 index ba5c3db0a..000000000 --- a/dev-python/colorcet/colorcet-2.0.6.ebuild +++ /dev/null @@ -1,31 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -# Portage incorrectly claims "DISTUTILS_USE_SETUPTOOLS value is probably -# incorrect" for this package. It isn't. This package imports from neither -# "distutils", "packaging", "pkg_resources", nor "setuptools" at runtime. -PYTHON_COMPAT=( python3_{10..11} pypy3 ) -DISTUTILS_USE_PEP517=setuptools - -inherit distutils-r1 - -DESCRIPTION="Collection of perceptually uniform colormaps" -HOMEPAGE="https://holoviz.org" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~x86" -# Reported upstream: -# https://github.com/holoviz/colorcet/issues/103 -RESTRICT="test" - -DEPEND=" - >=dev-python/param-1.7.0[${PYTHON_USEDEP}] - >=dev-python/pyct-0.4.4[${PYTHON_USEDEP}] -" -RDEPEND="${DEPEND}" - -distutils_enable_tests pytest diff --git a/dev-python/colorcet/colorcet-3.0.1.ebuild b/dev-python/colorcet/colorcet-3.0.1.ebuild index 25182e5d2..08ea7d55a 100644 --- a/dev-python/colorcet/colorcet-3.0.1.ebuild +++ b/dev-python/colorcet/colorcet-3.0.1.ebuild @@ -9,11 +9,10 @@ EAPI=8 PYTHON_COMPAT=( python3_{10..11} pypy3 ) DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Collection of perceptually uniform colormaps" HOMEPAGE="https://holoviz.org" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" diff --git a/dev-python/colorlover/Manifest b/dev-python/colorlover/Manifest deleted file mode 100644 index 0df2f3e30..000000000 --- a/dev-python/colorlover/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST colorlover-0.3.0.tar.gz 9060 BLAKE2B 33d060d7b324f47b785964e53473b4c2e70a130cfa9cf933222fe65dc6cbe93e7dd7054f6a38ab9ca79ac82e119e8b973266a06f4892bbb3b954cfcea4cb45b0 SHA512 4c39176c3375894202ecee86f3b4c45cd814720b4ce990e4d0605530a4fe2d71e28caa01aba143a86fc824c266cdf6f350cf84de6e1b01bfa2bdfae92a48bb2b diff --git a/dev-python/colorlover/colorlover-0.3.0.ebuild b/dev-python/colorlover/colorlover-0.3.0.ebuild deleted file mode 100644 index abf84b9b9..000000000 --- a/dev-python/colorlover/colorlover-0.3.0.ebuild +++ /dev/null @@ -1,18 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) - -inherit distutils-r1 - -DESCRIPTION="color scales in python for humans" -HOMEPAGE="https://github.com/plotly/colorlover" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -# no tests in package diff --git a/dev-python/colorlover/metadata.xml b/dev-python/colorlover/metadata.xml deleted file mode 100644 index 2f2c0b51c..000000000 --- a/dev-python/colorlover/metadata.xml +++ /dev/null @@ -1,12 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="person"> - <email>gentoo@aisha.cc</email> - <name>Aisha Tammy</name> - </maintainer> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> -</pkgmetadata> diff --git a/dev-python/colormath/Manifest b/dev-python/colormath/Manifest new file mode 100644 index 000000000..82abf9e32 --- /dev/null +++ b/dev-python/colormath/Manifest @@ -0,0 +1 @@ +DIST colormath-3.0.0.tar.gz 39761 BLAKE2B 3c7cdd08336a3ab35618a79ad31717433c08b23d8ee4fc5484da7305395fce61fa442fc9ff979ff107808c56e809deca9d176677f17106651047be14edc27e9e SHA512 12d1ab931000dadb087fdf7e56280690ff51a299e976347026703eac83373edcacd3310255fd52e05d842aab54d4f7d3ed19deda8db4b78574a7273f1c8cc058 diff --git a/dev-python/colormath/colormath-3.0.0.ebuild b/dev-python/colormath/colormath-3.0.0.ebuild new file mode 100644 index 000000000..8bd5a2b02 --- /dev/null +++ b/dev-python/colormath/colormath-3.0.0.ebuild @@ -0,0 +1,23 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..12} ) + +inherit pypi distutils-r1 + +DESCRIPTION="Easy color scales and color conversion for Python" +HOMEPAGE="https://pypi.org/project/colormath/" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64 ~amd64-linux" + +RDEPEND="dev-python/networkx[${PYTHON_USEDEP}] + dev-python/numpy[${PYTHON_USEDEP}]" + +# Nose test no longer supported +RESTRICT="test" +#distutils_enable_tests nose diff --git a/dev-python/colormath/metadata.xml b/dev-python/colormath/metadata.xml new file mode 100644 index 000000000..a633acfa0 --- /dev/null +++ b/dev-python/colormath/metadata.xml @@ -0,0 +1,12 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>mschu.dev@gmail.com</email> + <name>Michael Schubert</name> + </maintainer> + <upstream> + <remote-id type="github">gtaylor/python-colormath</remote-id> + <remote-id type="pypi">colormath</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/connection_pool/Manifest b/dev-python/connection_pool/Manifest new file mode 100644 index 000000000..3e0ede4f4 --- /dev/null +++ b/dev-python/connection_pool/Manifest @@ -0,0 +1 @@ +DIST connection_pool-0.0.3.tar.gz 3795 BLAKE2B 6a391b739f2727c69abad3ad95635aef7fa542f86b0f4c8a440ae28dee1af80d3af022733685f8e671ed3be479db291b2f763424b746c0918faf991c4b830981 SHA512 a628608f4b57156b2f3f036ccbc620d9ba457f5958d907fa8749dd8df83a167654efd04f411e20436cf1958d9cf6b3f49bf0a11703bfc8d85332d5fc93b13183 diff --git a/dev-python/connection_pool/connection_pool-0.0.3.ebuild b/dev-python/connection_pool/connection_pool-0.0.3.ebuild new file mode 100644 index 000000000..96d3c1f62 --- /dev/null +++ b/dev-python/connection_pool/connection_pool-0.0.3.ebuild @@ -0,0 +1,16 @@ +# Copyright 1999-2021 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools + +inherit distutils-r1 pypi + +DESCRIPTION="Thread safe connection pool" +HOMEPAGE="https://github.com/zhouyl/ConnectionPool" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64" diff --git a/dev-python/cadquery-ocp/metadata.xml b/dev-python/connection_pool/metadata.xml index a8bf5ee04..efc2a5c9e 100644 --- a/dev-python/cadquery-ocp/metadata.xml +++ b/dev-python/connection_pool/metadata.xml @@ -6,6 +6,7 @@ <name>Gentoo Science Project</name> </maintainer> <upstream> - <remote-id type="github">CadQuery/OCP</remote-id> + <remote-id type="github">zhouyl/ConnectionPool</remote-id> + <remote-id type="pypi">connection_pool</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/cymbal/cymbal-1.0.0.ebuild b/dev-python/cymbal/cymbal-1.0.0.ebuild index bada7bbe6..c5d9eec8e 100644 --- a/dev-python/cymbal/cymbal-1.0.0.ebuild +++ b/dev-python/cymbal/cymbal-1.0.0.ebuild @@ -4,12 +4,10 @@ EAPI=8 PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Add functionality missing from the python libclang bindings" -HOMEPAGE="https://pypi.org/project/cymbal" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" +HOMEPAGE="https://pypi.org/project/cymbal/" LICENSE="MIT" SLOT="0" diff --git a/dev-python/dandi-schema/Manifest b/dev-python/dandi-schema/Manifest index 041d6cab7..acdfa9d63 100644 --- a/dev-python/dandi-schema/Manifest +++ b/dev-python/dandi-schema/Manifest @@ -1,5 +1 @@ -DIST dandi-schema-0.4.3.tar.gz 51831 BLAKE2B 177a0ec148c1e823abdaa2b7e60d971c17a7f49bc72b69b16989e32ed014cf6df6378530be7fa142ca49662134a169b21903e9c49d9849ee944dfa9462fe6c3a SHA512 3d6c8f8cf86c933a04017f34a3832d642cf4ee27fd3edf6cf57ceab2e0ad6a1b82c245e4e27283913db941f86877996256604d345c1ee798acca2981ee046b5e -DIST dandi-schema-0.5.1.tar.gz 55945 BLAKE2B b9af1b34c7e4ce07b2fdac1d74dd746684f9e5e4667890931bbf2cb2421a01690eaed5114f2d077c46304f1298475739acef5a256430cac470ceb9fc1884e182 SHA512 699e9fb6626dd87576f29b908cd259748a6ebbd94391d8c5ba821273496323a3b4b9e88ee337809abc65c9aaeadca8aee4d986c173b055914c4ca67ddfd88804 -DIST dandi-schema-0.5.3.tar.gz 56222 BLAKE2B 3b23c93330f621a5a050c9e5b597fd8b9046a66465c16f26b5216d443547a0c8d07a491213cde90c411f5cda6f6c6b2a23d1c0f4b2d7a1e7336c55e5768d3338 SHA512 bf0d434ac6d8e5584ba9f31dd179e5402c13c89257bc87c2d34b03483e9ab85d9b616391a40c64ad853e6774f950ecc58d3f3fde29305586d5faa387dc5b3e80 -DIST dandi-schema-0.6.0.tar.gz 57102 BLAKE2B eb4ef024ef87e234c4c9e741fa2e70920aa13e0ab661aa179553b81ae8d28853274102b49532fc542368ebb43be9779a96434134e35b7c3380609511bed5ce8c SHA512 e2846e3e573264b83e95d92e7d2f2e4177721f32228beb63c701280312611bc668d1042248f4c65ed8f07b8c80991c398a4d29969513f235b4d37369cae0ddcd -DIST dandi-schema-0.7.1.tar.gz 57312 BLAKE2B 5aa77c4c98633f82511a964f0b202b44acdb63e162cff62785f44fab64fdf97c04f10b10b3c1329ea7176d7ee1b12eeabd64d467d9646550b1db14b2fcc36a2b SHA512 04e0bf6caa9183cdac021430869be884ba8db207e7056a145ecac11858e9ecf051212cee10f5b4d501ca513838edc112dde014e256ab2256729c810d0c2c6cdf +DIST dandi-schema-0.9.1.gh.tar.gz 61794 BLAKE2B f18dda919dad9a685793d075e54c798fd9a0d68926b776f1f5617d414554fed7609684dab3311d35056f385443037f03ab16f7edfb7b57c33f9da1aed9c8016c SHA512 c6ed9763a5a77b8741063ef5f311a889e7e0ba2ef02ab97e2912e1a129da503453d9ccb1b9ed13726f071594af42e564986ef9298b21c07cff6ef48eb3f58fc1 diff --git a/dev-python/dandi-schema/dandi-schema-0.4.3.ebuild b/dev-python/dandi-schema/dandi-schema-0.4.3.ebuild deleted file mode 100644 index f1733c147..000000000 --- a/dev-python/dandi-schema/dandi-schema-0.4.3.ebuild +++ /dev/null @@ -1,46 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_10 ) -inherit distutils-r1 - -DESCRIPTION="Schemata for DANDI archive project" -HOMEPAGE="https://github.com/dandi/dandi-schema" -SRC_URI="https://github.com/dandi/dandi-schema/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" - -LICENSE="Apache-2.0" -SLOT="0" -KEYWORDS="~amd64 ~x86" -IUSE="test" -RESTRICT="!test? ( test )" - -RDEPEND=" - dev-python/wheel[${PYTHON_USEDEP}] - dev-python/jsonschema[${PYTHON_USEDEP}] - dev-python/pydantic[${PYTHON_USEDEP}] - dev-python/python-email-validator[${PYTHON_USEDEP}] - dev-python/requests[${PYTHON_USEDEP}] -" -DEPEND=" - dev-python/setuptools[${PYTHON_USEDEP}] -" - -PATCHES=( - "${FILESDIR}/${PN}-0.3.4-coverage.patch" - "${FILESDIR}/${PN}-0.3.4-versioningit.patch" -) - -src_configure() { - echo "__version__ = '${PV}'" >> dandischema/_version.py -} - -distutils_enable_tests pytest - -python_test() { - export DANDI_TESTS_NONETWORK=1 - pushd dandischema || die - epytest tests - popd -} diff --git a/dev-python/dandi-schema/dandi-schema-0.5.1.ebuild b/dev-python/dandi-schema/dandi-schema-0.5.1.ebuild deleted file mode 100644 index 71a3ff4a4..000000000 --- a/dev-python/dandi-schema/dandi-schema-0.5.1.ebuild +++ /dev/null @@ -1,42 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 - -DESCRIPTION="Schemata for DANDI archive project" -HOMEPAGE="https://github.com/dandi/dandi-schema" -SRC_URI="https://github.com/dandi/dandi-schema/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" - -LICENSE="Apache-2.0" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - dev-python/wheel[${PYTHON_USEDEP}] - dev-python/jsonschema[${PYTHON_USEDEP}] - dev-python/pydantic[${PYTHON_USEDEP}] - dev-python/python-email-validator[${PYTHON_USEDEP}] - dev-python/requests[${PYTHON_USEDEP}] -" - -PATCHES=( - "${FILESDIR}/${PN}-0.3.4-coverage.patch" -) - -src_configure() { - echo "__version__ = '${PV}'" >> dandischema/_version.py -} - -distutils_enable_tests pytest - -python_test() { - export DANDI_TESTS_NONETWORK=1 - pushd dandischema || die - epytest tests - popd -} diff --git a/dev-python/dandi-schema/dandi-schema-0.5.3.ebuild b/dev-python/dandi-schema/dandi-schema-0.5.3.ebuild deleted file mode 100644 index 71a3ff4a4..000000000 --- a/dev-python/dandi-schema/dandi-schema-0.5.3.ebuild +++ /dev/null @@ -1,42 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 - -DESCRIPTION="Schemata for DANDI archive project" -HOMEPAGE="https://github.com/dandi/dandi-schema" -SRC_URI="https://github.com/dandi/dandi-schema/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" - -LICENSE="Apache-2.0" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - dev-python/wheel[${PYTHON_USEDEP}] - dev-python/jsonschema[${PYTHON_USEDEP}] - dev-python/pydantic[${PYTHON_USEDEP}] - dev-python/python-email-validator[${PYTHON_USEDEP}] - dev-python/requests[${PYTHON_USEDEP}] -" - -PATCHES=( - "${FILESDIR}/${PN}-0.3.4-coverage.patch" -) - -src_configure() { - echo "__version__ = '${PV}'" >> dandischema/_version.py -} - -distutils_enable_tests pytest - -python_test() { - export DANDI_TESTS_NONETWORK=1 - pushd dandischema || die - epytest tests - popd -} diff --git a/dev-python/dandi-schema/dandi-schema-0.6.0.ebuild b/dev-python/dandi-schema/dandi-schema-0.6.0.ebuild deleted file mode 100644 index 71a3ff4a4..000000000 --- a/dev-python/dandi-schema/dandi-schema-0.6.0.ebuild +++ /dev/null @@ -1,42 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 - -DESCRIPTION="Schemata for DANDI archive project" -HOMEPAGE="https://github.com/dandi/dandi-schema" -SRC_URI="https://github.com/dandi/dandi-schema/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" - -LICENSE="Apache-2.0" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - dev-python/wheel[${PYTHON_USEDEP}] - dev-python/jsonschema[${PYTHON_USEDEP}] - dev-python/pydantic[${PYTHON_USEDEP}] - dev-python/python-email-validator[${PYTHON_USEDEP}] - dev-python/requests[${PYTHON_USEDEP}] -" - -PATCHES=( - "${FILESDIR}/${PN}-0.3.4-coverage.patch" -) - -src_configure() { - echo "__version__ = '${PV}'" >> dandischema/_version.py -} - -distutils_enable_tests pytest - -python_test() { - export DANDI_TESTS_NONETWORK=1 - pushd dandischema || die - epytest tests - popd -} diff --git a/dev-python/dandi-schema/dandi-schema-0.7.1.ebuild b/dev-python/dandi-schema/dandi-schema-0.7.1.ebuild deleted file mode 100644 index 71a3ff4a4..000000000 --- a/dev-python/dandi-schema/dandi-schema-0.7.1.ebuild +++ /dev/null @@ -1,42 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 - -DESCRIPTION="Schemata for DANDI archive project" -HOMEPAGE="https://github.com/dandi/dandi-schema" -SRC_URI="https://github.com/dandi/dandi-schema/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" - -LICENSE="Apache-2.0" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - dev-python/wheel[${PYTHON_USEDEP}] - dev-python/jsonschema[${PYTHON_USEDEP}] - dev-python/pydantic[${PYTHON_USEDEP}] - dev-python/python-email-validator[${PYTHON_USEDEP}] - dev-python/requests[${PYTHON_USEDEP}] -" - -PATCHES=( - "${FILESDIR}/${PN}-0.3.4-coverage.patch" -) - -src_configure() { - echo "__version__ = '${PV}'" >> dandischema/_version.py -} - -distutils_enable_tests pytest - -python_test() { - export DANDI_TESTS_NONETWORK=1 - pushd dandischema || die - epytest tests - popd -} diff --git a/dev-python/dandi-schema/dandi-schema-0.9.1.ebuild b/dev-python/dandi-schema/dandi-schema-0.9.1.ebuild new file mode 100644 index 000000000..0e7986806 --- /dev/null +++ b/dev-python/dandi-schema/dandi-schema-0.9.1.ebuild @@ -0,0 +1,49 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..12} ) + +inherit distutils-r1 + +DESCRIPTION="Schemata for DANDI archive project" +HOMEPAGE="https://github.com/dandi/dandi-schema" +SRC_URI="https://github.com/dandi/dandi-schema/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" + +LICENSE="Apache-2.0" +SLOT="0" +KEYWORDS="~amd64 ~x86" + +# Package has pydantic version restriction (2.4*), which, however, breaks the test suite: +# https://github.com/dandi/dandi-schema/issues/228 +# Commented failing tests with upstream version restriction listed below. +RDEPEND=" + dev-python/wheel[${PYTHON_USEDEP}] + dev-python/jsonschema[${PYTHON_USEDEP}] + >=dev-python/pydantic-2.5[${PYTHON_USEDEP}] + dev-python/email-validator[${PYTHON_USEDEP}] + dev-python/requests[${PYTHON_USEDEP}] +" + +PATCHES=( + "${FILESDIR}/${P}-coverage.patch" +) + +src_configure() { + echo "__version__ = '${PV}'" >> dandischema/_version.py +} + +#EPYTEST_DESELECT=( +# "dandischema/tests/test_metadata.py::test_asset" +# "dandischema/tests/test_metadata.py::test_aggregate[files1-summary1]" +# "dandischema/tests/test_metadata.py::test_aggregate[files2-summary2]" +#) + +distutils_enable_tests pytest + +python_test() { + export DANDI_TESTS_NONETWORK=1 + epytest dandischema +} diff --git a/dev-python/dandi-schema/files/dandi-schema-0.3.4-versioningit.patch b/dev-python/dandi-schema/files/dandi-schema-0.3.4-versioningit.patch deleted file mode 100644 index 589091756..000000000 --- a/dev-python/dandi-schema/files/dandi-schema-0.3.4-versioningit.patch +++ /dev/null @@ -1,10 +0,0 @@ ---- a/setup.py 2021-09-22 19:31:20.533576086 -0400 -+++ b/setup.py 2021-09-23 07:42:02.856983656 -0400 -@@ -21,7 +21,7 @@ - - # Give setuptools a hint to complain if it's too old a version - # Should match pyproject.toml --SETUP_REQUIRES = ["setuptools >= 42.0.0", "versioningit ~= 0.1.0"] -+SETUP_REQUIRES = ["setuptools >= 42.0.0"] - # This enables setuptools to install wheel on-the-fly - SETUP_REQUIRES += ["wheel"] if "bdist_wheel" in sys.argv else [] diff --git a/dev-python/dandi-schema/files/dandi-schema-0.9.1-coverage.patch b/dev-python/dandi-schema/files/dandi-schema-0.9.1-coverage.patch new file mode 100644 index 000000000..7f9b7dba0 --- /dev/null +++ b/dev-python/dandi-schema/files/dandi-schema-0.9.1-coverage.patch @@ -0,0 +1,13 @@ +diff --git a/tox.ini b/tox.ini +index c32f3b9..d552c6c 100644 +--- a/tox.ini ++++ b/tox.ini +@@ -30,7 +30,7 @@ commands = + mypy dandischema + + [pytest] +-addopts = --cov=dandischema --tb=short --durations=10 ++addopts = --tb=short --durations=10 + filterwarnings = + error + # <https://github.com/dateutil/dateutil/issues/1284> diff --git a/dev-python/datrie/datrie-0.8.2.ebuild b/dev-python/datrie/datrie-0.8.2-r1.ebuild index d3046bf8d..e8f9f9336 100644 --- a/dev-python/datrie/datrie-0.8.2.ebuild +++ b/dev-python/datrie/datrie-0.8.2-r1.ebuild @@ -1,15 +1,16 @@ # Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=7 +EAPI=8 -PYTHON_COMPAT=( python3_{7,8,9} ) +PYTHON_COMPAT=( python3_{10..11} ) +# Fails to compile with pep517 +#DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Implements a topological sort algorithm" HOMEPAGE="https://github.com/pytries/datrie" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="LGPL-2+" SLOT="0" diff --git a/dev-python/delegator/delegator-0.1.1.ebuild b/dev-python/delegator/delegator-0.1.1.ebuild index c9d19ba4c..0a22057ef 100644 --- a/dev-python/delegator/delegator-0.1.1.ebuild +++ b/dev-python/delegator/delegator-0.1.1.ebuild @@ -1,15 +1,15 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 +PYTHON_COMPAT=( python3_{10..11} ) +PYPI_NO_NORMALIZE=1 +PYPI_PN=delegator.py +inherit distutils-r1 pypi DESCRIPTION="Subprocesses for Humans 2.0." HOMEPAGE="https://github.com/amitt001/delegator.py" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}.py/${PN}.py-${PV}.tar.gz" LICENSE="MIT" SLOT="0" diff --git a/dev-python/delegator/metadata.xml b/dev-python/delegator/metadata.xml index aaa27d18e..57368da50 100644 --- a/dev-python/delegator/metadata.xml +++ b/dev-python/delegator/metadata.xml @@ -9,13 +9,8 @@ <email>sci@gentoo.org</email> <name>Gentoo Science Project</name> </maintainer> - <longdescription lang="en"> - The num2words library converts numbers like 42 to words like forty-two. - It supports multiple languages (see the list below for full list of - languages) and can even generate ordinal numbers like forty-second - (although this last feature is a bit buggy for some languages at the moment). - </longdescription> <upstream> - <remote-id type="github">savoirefairelinux/num2words</remote-id> + <remote-id type="github">amitt001/delegator.py</remote-id> + <remote-id type="pypi">delegator.py</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/dijitso/Manifest b/dev-python/dijitso/Manifest deleted file mode 100644 index d822cce7e..000000000 --- a/dev-python/dijitso/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST dijitso-2017.1.0.tar.gz 51223 BLAKE2B dd36d97ae3051779a4a21f277fddd02460f3572029b70a1fa5a799a54749cbd807bf9e12a41f2138cc917dfa3ea43368a96bb079dc2e99b6be6900f735e425ce SHA512 994c3d88ca207b3d3065f9376546580492a06eda51a340fc16bbd768248dc26a2984af064e9d970657509b003e403db329aea9ca9cca2f428764b7ec0a367040 diff --git a/dev-python/dijitso/dijitso-2017.1.0.ebuild b/dev-python/dijitso/dijitso-2017.1.0.ebuild deleted file mode 100644 index cef1e1eb7..000000000 --- a/dev-python/dijitso/dijitso-2017.1.0.ebuild +++ /dev/null @@ -1,26 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7,8,9} ) -DISTUTILS_USE_SETUPTOOLS=rdepend - -inherit distutils-r1 - -DESCRIPTION="Python module for distributed just-in-time shared library building" -HOMEPAGE="https://bitbucket.org/fenics-project/dijitso/" -SRC_URI="https://bitbucket.org/fenics-project/dijitso/downloads/${P}.tar.gz" - -LICENSE="GPL-3" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - dev-python/mpi4py[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/six[${PYTHON_USEDEP}] -" -# TODO: fix this, seems to require self -#distutils_enable_sphinx doc/sphinx/source -distutils_enable_tests --install pytest diff --git a/dev-python/dijitso/metadata.xml b/dev-python/dijitso/metadata.xml deleted file mode 100644 index 483c5a2ef..000000000 --- a/dev-python/dijitso/metadata.xml +++ /dev/null @@ -1,17 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <longdescription lang="en"> -This module was written to improve a core component of the FEniCS -framework, namely the just in time compilation of C++ code that is -generated from Python modules, but is only called from within a C++ -library, and thus do not need wrapping in a nice Python interface. -</longdescription> - <upstream> - <remote-id type="bitbucket">fenics-project/dijitso</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/dnaio/Manifest b/dev-python/dnaio/Manifest deleted file mode 100644 index d56f36ebe..000000000 --- a/dev-python/dnaio/Manifest +++ /dev/null @@ -1,4 +0,0 @@ -DIST dnaio-0.4.2.tar.gz 125495 BLAKE2B 8034cbf2951345d7be0c0041d6ea24fc16d8e11669e04659216cd9551bc3da00b33a1c89e3b5453884e808c217b7d0ec232617da524037d834081ae3ae37f4e2 SHA512 9cd5d150fe49f6887bc3ac92975f2ec7d8f07370cfc8d8f8d556ad7b2143340c65bde87c80e02396358ea644a891dab39384641a143879e31328bfffff4c21b6 -DIST dnaio-0.4.3.tar.gz 126329 BLAKE2B 03c1f0d77d1c9452ec16e2fcf50312b24ac932fbe120462d2ac8cea26a0d0ed0f6b2f65c0a1570ba116e81fd59d57469e44b9a17112a03f704d6a906802528be SHA512 79a015c3ab61b9608cace1e435ca0d749ab67bf8b6acffb1b8cafcf2614061b46254c63583e44d7995ba4548bcd19e476297a66a20aa530eb98b6cda09690e64 -DIST dnaio-0.5.0.tar.gz 126321 BLAKE2B b26dc2e8f65efcc4aebe42f3ef252cc54a2c91beed65d060b51fbf4a6f3364325f884cf5d2e8269e1424d575200e4e716bc0a111c150ee403ead4cc176ed9ea6 SHA512 2e6a0dd04558b70ee08a81fd1d118525734df52701735cc27bab4c423c2030ec2fb6e83ddf02c491e1eb250c471d230b8fa72993c3a20ae844716c9542059c67 -DIST dnaio-0.5.1.tar.gz 126820 BLAKE2B d6e89ddceeb14ed50022f14e16c071e15af9bf832478dddfb4b6c086579822ea8b682f8e2c868a9f26a87637aae6959d822a8d9788ba980073740fe2e89c69fc SHA512 127e3dcc8291c21e8adce71211692e9c2284d49df336bb923c53fc5fea7dcb9d9b9f047f95642f3300240dac3d43cf6e987b3148b4ffa239d70f3b6c7ef043a5 diff --git a/dev-python/dnaio/dnaio-0.4.2.ebuild b/dev-python/dnaio/dnaio-0.4.2.ebuild deleted file mode 100644 index d5c738db4..000000000 --- a/dev-python/dnaio/dnaio-0.4.2.ebuild +++ /dev/null @@ -1,22 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) -inherit distutils-r1 - -DESCRIPTION="efficient reader for FASTA and FASTQ files" -HOMEPAGE="https://pypi.python.org/pypi/xopen" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - ${PYTHON_DEPS} - dev-python/xopen -" - -# no tests in package diff --git a/dev-python/dnaio/dnaio-0.4.3.ebuild b/dev-python/dnaio/dnaio-0.4.3.ebuild deleted file mode 100644 index d5c738db4..000000000 --- a/dev-python/dnaio/dnaio-0.4.3.ebuild +++ /dev/null @@ -1,22 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) -inherit distutils-r1 - -DESCRIPTION="efficient reader for FASTA and FASTQ files" -HOMEPAGE="https://pypi.python.org/pypi/xopen" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - ${PYTHON_DEPS} - dev-python/xopen -" - -# no tests in package diff --git a/dev-python/dnaio/dnaio-0.5.0.ebuild b/dev-python/dnaio/dnaio-0.5.0.ebuild deleted file mode 100644 index d5c738db4..000000000 --- a/dev-python/dnaio/dnaio-0.5.0.ebuild +++ /dev/null @@ -1,22 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) -inherit distutils-r1 - -DESCRIPTION="efficient reader for FASTA and FASTQ files" -HOMEPAGE="https://pypi.python.org/pypi/xopen" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - ${PYTHON_DEPS} - dev-python/xopen -" - -# no tests in package diff --git a/dev-python/dnaio/dnaio-0.5.1.ebuild b/dev-python/dnaio/dnaio-0.5.1.ebuild deleted file mode 100644 index 2a7885b90..000000000 --- a/dev-python/dnaio/dnaio-0.5.1.ebuild +++ /dev/null @@ -1,22 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) -inherit distutils-r1 - -DESCRIPTION="efficient reader for FASTA and FASTQ files" -HOMEPAGE="https://pypi.python.org/pypi/xopen" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - ${PYTHON_DEPS} - dev-python/xopen -" - -# no tests in package diff --git a/dev-python/docstring-parser/Manifest b/dev-python/docstring-parser/Manifest new file mode 100644 index 000000000..9f508a4f7 --- /dev/null +++ b/dev-python/docstring-parser/Manifest @@ -0,0 +1 @@ +DIST docstring_parser-0.16.tar.gz 26565 BLAKE2B 3785bc9176bc06624a43c50a147c3143e344b8093b9c2db90ab49baed807d598a3538344f79a3da7515c16fc2afc90813e26a3a8f3aa5deb6bc2bf1554303d2e SHA512 6bda195f0e60173c9e78f300a05f8ab2d51ec37848c6f3eddccf889f01abc7dd00b1987028bc59058056e2ab4a50e4631d4d0ec10e54180178372001d65c431f diff --git a/dev-python/docstring-parser/docstring-parser-0.16.ebuild b/dev-python/docstring-parser/docstring-parser-0.16.ebuild new file mode 100644 index 000000000..1d82de77c --- /dev/null +++ b/dev-python/docstring-parser/docstring-parser-0.16.ebuild @@ -0,0 +1,18 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=poetry +PYTHON_COMPAT=( python3_{10..12} ) + +inherit distutils-r1 pypi + +DESCRIPTION="Parse Python docstrings in various flavors" +HOMEPAGE="https://github.com/rr-/docstring_parser" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~x86" + +distutils_enable_tests pytest diff --git a/dev-python/docstring-parser/metadata.xml b/dev-python/docstring-parser/metadata.xml new file mode 100644 index 000000000..140ee785a --- /dev/null +++ b/dev-python/docstring-parser/metadata.xml @@ -0,0 +1,16 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>gentoo@chymera.eu</email> + <name>Horea Christian</name> + </maintainer> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <upstream> + <remote-id type="pypi">docstring-parser</remote-id> + <remote-id type="github">rr-/docstring_parser</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/dpath/Manifest b/dev-python/dpath/Manifest new file mode 100644 index 000000000..81aa6ca1c --- /dev/null +++ b/dev-python/dpath/Manifest @@ -0,0 +1 @@ +DIST dpath-2.1.6.tar.gz 28142 BLAKE2B 78cb4a8eb7278cd0c1818ffba9d77a917d89f3454a047a82d9031028b34ea2969fe98ed7086d26f6697a166b81cd50439b7b3bd545ab7e6cadcd0606c24be61e SHA512 2f2dac39b6e1ad2effd8d61ac4acf6619205423389ecebc54061aa10ec11ce3236ea666b632a7dca349e9b7a6579815c97e01c930eaa1a99d965e37b9825b82c diff --git a/dev-python/dpath/dpath-2.1.6.ebuild b/dev-python/dpath/dpath-2.1.6.ebuild new file mode 100644 index 000000000..55da56b96 --- /dev/null +++ b/dev-python/dpath/dpath-2.1.6.ebuild @@ -0,0 +1,18 @@ +# Copyright 1999-2018 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..12} ) + +inherit pypi distutils-r1 + +DESCRIPTION="Accessing and searching dictionaries via /slashed/paths" +HOMEPAGE="https://pypi.org/project/dpath/" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux" + +distutils_enable_tests pytest diff --git a/dev-python/dpath/metadata.xml b/dev-python/dpath/metadata.xml new file mode 100644 index 000000000..347155fb7 --- /dev/null +++ b/dev-python/dpath/metadata.xml @@ -0,0 +1,16 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>mschu.dev@gmail.com</email> + <name>Michael Schubert</name> + </maintainer> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <upstream> + <remote-id type="github">dpath-maintainers/dpath-python</remote-id> + <remote-id type="pypi">dpath</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/dpctl/Manifest b/dev-python/dpctl/Manifest index aab57723a..d402c3e9e 100644 --- a/dev-python/dpctl/Manifest +++ b/dev-python/dpctl/Manifest @@ -1,2 +1,2 @@ -DIST dpctl-0.13.0.gh.tar.gz 363708 BLAKE2B 82eaf296cb0aaaad1a9c23334b027d4b38ef8d580c43a6ea1fb7542b20f5511c09edf7fdd3bd98a5b48cdf55176fcaeea787c6d93ef65fc6c94004cbb0c61255 SHA512 5ddefe9671ef77e0ff507e3c92c80b147a4f19f50ee9b64dd940960e181edea16b5dbbdb990aa3dc37da80e6015979f702fba60210b8677a83780224cdd30e76 -DIST dpctl-0.14.0.gh.tar.gz 399378 BLAKE2B 3a9cbea965941c8c0a85938f0736705fd0bbdc611e02a44363a670119555ff95fbae130526caa25f42ee499d5b36c83b8c574db1b2368a1cbe7855b84fabe9f1 SHA512 37d76653112556ebeadec846cc6b156cb84e7b82bc6a9477072a3721b3a830c5fcb7d6e92e76aa7c7449547e925b07d5dda42d2777813e7d1db1d97ea852e22a +DIST dpctl-0.14.1_rc2.gh.tar.gz 409028 BLAKE2B 481be08bb6a7b1a439580d600b0e14036f10793e568314f9373ffa46daad7d3e43d33fc66c3c48ec7e3de71e9d0a7256cdfdd984c38fa7f1694dcc0227dae93f SHA512 91ab20a51893e3afc9e140ab9dfd1aa19b24e58227a001faefb9ceba6ffc4aa235214663c7456e977acf556796be097eabacc9b01b94eb42e8c70677a2f2dd9d +DIST dpctl-0.14.5.gh.tar.gz 552066 BLAKE2B f668ceea99125dad1e0a6989db5bd59df087840d09b1a1538c38cddd0f482f4fc4053ef400e86ddedee4b1906575a441fb97d2caaf3c3718d8aac503d942c0b5 SHA512 6df39eec93da38b86df4cdfdf90350ff11f95d4884bb762289af9b0a6e240d45ed7cc7243677ca7403b042f8938f8acfa42a974d6cff673cd846c0b0f22d0803 diff --git a/dev-python/dpctl/dpctl-0.14.0.ebuild b/dev-python/dpctl/dpctl-0.14.1_rc2.ebuild index 0bab26875..4ef429b97 100644 --- a/dev-python/dpctl/dpctl-0.14.0.ebuild +++ b/dev-python/dpctl/dpctl-0.14.1_rc2.ebuild @@ -3,13 +3,14 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..11} ) +PYTHON_COMPAT=( python3_{10..12} ) DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 DESCRIPTION="Data Parallel Control " HOMEPAGE="https://github.com/IntelPython/dpctl" -SRC_URI="https://github.com/IntelPython/dpctl/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" +SRC_URI="https://github.com/IntelPython/dpctl/archive/refs/tags/${PV//_rc/dev}.tar.gz -> ${P}.gh.tar.gz" +S="${WORKDIR}/${PN}-${PV//_rc/dev}" LICENSE="Apache-2.0" SLOT="0" @@ -20,7 +21,7 @@ BDEPEND=" dev-python/scikit-build[${PYTHON_USEDEP}] dev-python/pybind11[${PYTHON_USEDEP}] dev-python/versioneer[${PYTHON_USEDEP}] - dev-util/cmake + dev-build/cmake dev-vcs/git sys-devel/DPC++ " @@ -36,10 +37,10 @@ DEPEND=" RDEPEND="${DEPEND}" PATCHES=( - "${FILESDIR}/${P}-find-opencl.patch" - "${FILESDIR}/${P}-dont-fetch-level-zero.patch" - "${FILESDIR}/${P}-dont-fetch-pybind.patch" - "${FILESDIR}/${P}-include-tuple.patch" + "${FILESDIR}/${PN}-0.14.0-find-opencl.patch" + "${FILESDIR}/${PN}-0.14.1_rc2-dont-fetch-level-zero.patch" + "${FILESDIR}/${PN}-0.14.1_rc2-dont-fetch-pybind.patch" + #"${FILESDIR}/${PN}-0.14.1_rc2-include-tuple.patch" ) distutils_enable_tests pytest @@ -60,3 +61,9 @@ python_prepare_all() { distutils-r1_python_prepare_all } + +python_test() { + export PYTHONPATH="${BUILD_DIR}/install/usr/lib/${EPYTHON}/site-packages" + # We don't use epytest because it overwrites our PYTHONPATH + pytest -vv || die +} diff --git a/dev-python/dpctl/dpctl-0.13.0.ebuild b/dev-python/dpctl/dpctl-0.14.5.ebuild index 4c240bfb1..4ef429b97 100644 --- a/dev-python/dpctl/dpctl-0.13.0.ebuild +++ b/dev-python/dpctl/dpctl-0.14.5.ebuild @@ -3,13 +3,14 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..11} ) +PYTHON_COMPAT=( python3_{10..12} ) DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 DESCRIPTION="Data Parallel Control " HOMEPAGE="https://github.com/IntelPython/dpctl" -SRC_URI="https://github.com/IntelPython/dpctl/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" +SRC_URI="https://github.com/IntelPython/dpctl/archive/refs/tags/${PV//_rc/dev}.tar.gz -> ${P}.gh.tar.gz" +S="${WORKDIR}/${PN}-${PV//_rc/dev}" LICENSE="Apache-2.0" SLOT="0" @@ -20,7 +21,7 @@ BDEPEND=" dev-python/scikit-build[${PYTHON_USEDEP}] dev-python/pybind11[${PYTHON_USEDEP}] dev-python/versioneer[${PYTHON_USEDEP}] - dev-util/cmake + dev-build/cmake dev-vcs/git sys-devel/DPC++ " @@ -31,13 +32,15 @@ DEPEND=" dev-python/numpy[${PYTHON_USEDEP}] dev-python/wheel[${PYTHON_USEDEP}] sci-libs/oneDAL - sys-devel/DPC++:0/5 + sys-devel/DPC++:0/6 " RDEPEND="${DEPEND}" PATCHES=( - "${FILESDIR}/${PN}-0.14.0-dont-fetch-level-zero.patch" - "${FILESDIR}/${PN}-0.13.0-dont-fetch-pybind.patch" + "${FILESDIR}/${PN}-0.14.0-find-opencl.patch" + "${FILESDIR}/${PN}-0.14.1_rc2-dont-fetch-level-zero.patch" + "${FILESDIR}/${PN}-0.14.1_rc2-dont-fetch-pybind.patch" + #"${FILESDIR}/${PN}-0.14.1_rc2-include-tuple.patch" ) distutils_enable_tests pytest @@ -48,15 +51,19 @@ python_prepare_all() { export CXX="${ESYSROOT}/usr/lib/llvm/intel/bin/clang++" export DPCPPROOT="${ESYSROOT}/usr/lib/llvm/intel" - # For some reason this is required to build successfully - mkdir -p _skbuild/linux-x86_64-3.8/setuptools/lib.linux-x86_64-cpython-38/dpctl || die - cp dpctl/_version.py _skbuild/linux-x86_64-3.8/setuptools/lib.linux-x86_64-cpython-38/dpctl || die - mkdir -p _skbuild/linux-x86_64-3.9/setuptools/lib.linux-x86_64-cpython-39/dpctl || die - cp dpctl/_version.py _skbuild/linux-x86_64-3.9/setuptools/lib.linux-x86_64-cpython-39/dpctl || die - mkdir -p _skbuild/linux-x86_64-3.10/setuptools/lib.linux-x86_64-cpython-310/dpctl || die - cp dpctl/_version.py _skbuild/linux-x86_64-3.10/setuptools/lib.linux-x86_64-cpython-310/dpctl || die - mkdir -p _skbuild/linux-x86_64-3.11/setuptools/lib.linux-x86_64-cpython-311/dpctl || die - cp dpctl/_version.py _skbuild/linux-x86_64-3.11/setuptools/lib.linux-x86_64-cpython-311/dpctl || die + # Build system reads version from git tag + git init -q || die + git config --global user.email "larry@gentoo.org" || die + git config --global user.name "Larry the Cow" || die + git add . || die + git commit -qm "init" || die + git tag -a "${PV}" -m "${PN} version ${PV}" || die distutils-r1_python_prepare_all } + +python_test() { + export PYTHONPATH="${BUILD_DIR}/install/usr/lib/${EPYTHON}/site-packages" + # We don't use epytest because it overwrites our PYTHONPATH + pytest -vv || die +} diff --git a/dev-python/dpctl/files/dpctl-0.14.0-dont-fetch-pybind.patch b/dev-python/dpctl/files/dpctl-0.14.0-dont-fetch-pybind.patch deleted file mode 100644 index b2b8c5d81..000000000 --- a/dev-python/dpctl/files/dpctl-0.14.0-dont-fetch-pybind.patch +++ /dev/null @@ -1,21 +0,0 @@ -diff --git a/CMakeLists.txt b/CMakeLists.txt -index da138c1..ecab139 100644 ---- a/CMakeLists.txt -+++ b/CMakeLists.txt -@@ -28,15 +28,7 @@ install(FILES ${_dpctl_capi_headers} - # Define CMAKE_INSTALL_xxx: LIBDIR, INCLUDEDIR - include(GNUInstallDirs) - --# Fetch pybind11 --include(FetchContent) -- --FetchContent_Declare( -- pybind11 -- URL https://github.com/pybind/pybind11/archive/refs/tags/v2.10.1.tar.gz -- URL_HASH SHA256=111014b516b625083bef701df7880f78c2243835abdb263065b6b59b960b6bad --) --FetchContent_MakeAvailable(pybind11) -+include(/usr/share/cmake/pybind11/pybind11Config.cmake) - - add_subdirectory(dpctl) - diff --git a/dev-python/dpctl/files/dpctl-0.14.0-include-tuple.patch b/dev-python/dpctl/files/dpctl-0.14.0-include-tuple.patch deleted file mode 100644 index 44b950cb6..000000000 --- a/dev-python/dpctl/files/dpctl-0.14.0-include-tuple.patch +++ /dev/null @@ -1,47 +0,0 @@ -From d0d3e6f1a9ffbac91f24cc06abce6dcad6509a6b Mon Sep 17 00:00:00 2001 -From: Julien Jerphanion <git@jjerphan.xyz> -Date: Tue, 6 Dec 2022 10:24:26 +0100 -Subject: [PATCH 1/2] MAINT Include tuple in 'utils/strided_iters.hpp' - -This include directive seems to have been forgotten and it is impossible -for me to compile dpctl without it. ---- - dpctl/tensor/libtensor/include/utils/strided_iters.hpp | 1 + - 1 file changed, 1 insertion(+) - -diff --git a/dpctl/tensor/libtensor/include/utils/strided_iters.hpp b/dpctl/tensor/libtensor/include/utils/strided_iters.hpp -index c24ed54941..595ad3f4a7 100644 ---- a/dpctl/tensor/libtensor/include/utils/strided_iters.hpp -+++ b/dpctl/tensor/libtensor/include/utils/strided_iters.hpp -@@ -30,6 +30,7 @@ - #include <array> - #include <numeric> // std::iota - #include <vector> -+#include <tuple> - - /* An N-dimensional array can be stored in a single - * contiguous chunk of memory by contiguously laying - -From f75ccd8c8aeaae92f0cb03874f93be5e7a63a6a7 Mon Sep 17 00:00:00 2001 -From: Julien Jerphanion <git@jjerphan.xyz> -Date: Tue, 6 Dec 2022 14:45:40 +0100 -Subject: [PATCH 2/2] Make clang-format happy - ---- - dpctl/tensor/libtensor/include/utils/strided_iters.hpp | 2 +- - 1 file changed, 1 insertion(+), 1 deletion(-) - -diff --git a/dpctl/tensor/libtensor/include/utils/strided_iters.hpp b/dpctl/tensor/libtensor/include/utils/strided_iters.hpp -index 595ad3f4a7..0abd7f4f2a 100644 ---- a/dpctl/tensor/libtensor/include/utils/strided_iters.hpp -+++ b/dpctl/tensor/libtensor/include/utils/strided_iters.hpp -@@ -29,8 +29,8 @@ - #include <algorithm> // sort - #include <array> - #include <numeric> // std::iota --#include <vector> - #include <tuple> -+#include <vector> - - /* An N-dimensional array can be stored in a single - * contiguous chunk of memory by contiguously laying diff --git a/dev-python/dpctl/files/dpctl-0.14.0-dont-fetch-level-zero.patch b/dev-python/dpctl/files/dpctl-0.14.1_rc2-dont-fetch-level-zero.patch index ac0301886..a7a4adf8b 100644 --- a/dev-python/dpctl/files/dpctl-0.14.0-dont-fetch-level-zero.patch +++ b/dev-python/dpctl/files/dpctl-0.14.1_rc2-dont-fetch-level-zero.patch @@ -1,5 +1,5 @@ diff --git a/libsyclinterface/cmake/modules/GetLevelZeroHeaders.cmake b/libsyclinterface/cmake/modules/GetLevelZeroHeaders.cmake -index 2929c33..731f054 100644 +index fe109fc..55595e9 100644 --- a/libsyclinterface/cmake/modules/GetLevelZeroHeaders.cmake +++ b/libsyclinterface/cmake/modules/GetLevelZeroHeaders.cmake @@ -26,76 +26,10 @@ @@ -19,7 +19,7 @@ index 2929c33..731f054 100644 - - if(NOT result EQUAL 0) - message(FATAL_ERROR -- "Could not update Level Zero sources." +- "Could not update Level Zero sources. Return code: ${result}" - ) - endif() - else() @@ -34,7 +34,7 @@ index 2929c33..731f054 100644 - - if(NOT result EQUAL 0) - message(FATAL_ERROR -- "Could not clone Level Zero sources from github.com/oneapi-src/level-zero." +- "Could not clone Level Zero sources from github.com/oneapi-src/level-zero. Return code: ${result}" - ) - endif() - endif() @@ -52,7 +52,7 @@ index 2929c33..731f054 100644 - - if(NOT result EQUAL 0) - message(FATAL_ERROR -- "Could not get the name for the latest release." +- "Could not get the name for the latest release. Return code: ${result}" - ) - endif() - @@ -68,7 +68,7 @@ index 2929c33..731f054 100644 - - if(NOT result EQUAL 0) - message(FATAL_ERROR -- "Could not checkout the latest release." +- "Could not checkout the latest release. Return code: ${result}" - ) - endif() - diff --git a/dev-python/dpctl/files/dpctl-0.13.0-dont-fetch-pybind.patch b/dev-python/dpctl/files/dpctl-0.14.1_rc2-dont-fetch-pybind.patch index b7dab5c75..d56dc27b3 100644 --- a/dev-python/dpctl/files/dpctl-0.13.0-dont-fetch-pybind.patch +++ b/dev-python/dpctl/files/dpctl-0.14.1_rc2-dont-fetch-pybind.patch @@ -1,8 +1,8 @@ diff --git a/CMakeLists.txt b/CMakeLists.txt -index 23ae1dd..e144e90 100644 +index d97ca9a..3914bd9 100644 --- a/CMakeLists.txt +++ b/CMakeLists.txt -@@ -26,15 +26,7 @@ install(FILES ${_dpctl_capi_headers} +@@ -32,15 +32,7 @@ install(FILES ${_dpctl_capi_headers} # Define CMAKE_INSTALL_xxx: LIBDIR, INCLUDEDIR include(GNUInstallDirs) @@ -11,8 +11,8 @@ index 23ae1dd..e144e90 100644 - -FetchContent_Declare( - pybind11 -- URL https://github.com/pybind/pybind11/archive/refs/tags/v2.9.2.tar.gz -- URL_HASH SHA256=6bd528c4dbe2276635dc787b6b1f2e5316cf6b49ee3e150264e455a0d68d19c1 +- URL https://github.com/pybind/pybind11/archive/refs/tags/v2.10.2.tar.gz +- URL_HASH SHA256=93bd1e625e43e03028a3ea7389bba5d3f9f2596abc074b068e70f4ef9b1314ae -) -FetchContent_MakeAvailable(pybind11) +include(/usr/share/cmake/pybind11/pybind11Config.cmake) diff --git a/dev-python/dpnp/Manifest b/dev-python/dpnp/Manifest index a2dfe5862..0286f1b8e 100644 --- a/dev-python/dpnp/Manifest +++ b/dev-python/dpnp/Manifest @@ -1,2 +1 @@ -DIST dpnp-0.10.0.gh.tar.gz 443009 BLAKE2B c15cce02d1cdd99217f4ee6dca853138d16318695075509e4042bd21cb098c13abf3b8351cc537ca1d1f2d875bfa51675431183665f87c8bd381c347766bc29c SHA512 3ecff347a371ff2173ce4573444afe1201fe2b1a9a75a8a68879fe1930b15b979875391b29d0c57e4e97d860e94f2af2b75bbb6dbf2232011bed92812c8ba01b -DIST dpnp-0.11.0.gh.tar.gz 477797 BLAKE2B e33d63c9334e56e69efe73ab37d14fa133869eae518b484f1627587ea8cb869c7f3039d8d7ecc7656fec4e70d8ddc182d3e757f20cc497c6f497d29c851daafb SHA512 ca4697773bc92260a763861581009c60489694e31effb452d7ce3bf7961345b4cbdfdb5797f8d345caa838032b7d8e74eac935116c99d3b2fe019bbb6da1d92a +DIST dpnp-0.11.1_rc1.gh.tar.gz 495726 BLAKE2B 13e9696195abd21f41b1a8e6f235f840cd22a4eb1b67f7bbedfdc775f0cb7832157af51309b1d8a5f2d1cde78250c70730a2794f11b01f8bd572e7a1e29f2b47 SHA512 ef58591aaed330123b78268c7b0b04222efc8e688e1bfe2426e13836fe23ae84572f3337d7084525a6dd5e5fcf91dd68c501643b922ebebc7f0fb94115f92749 diff --git a/dev-python/dpnp/dpnp-0.10.0.ebuild b/dev-python/dpnp/dpnp-0.10.0.ebuild deleted file mode 100644 index 51e17faa0..000000000 --- a/dev-python/dpnp/dpnp-0.10.0.ebuild +++ /dev/null @@ -1,57 +0,0 @@ -# Copyright 2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..11} ) -# Breaks the installation of the backend library -#DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 - -DESCRIPTION="Data Parallel Extension for NumPy" -HOMEPAGE="https://github.com/IntelPython/dpnp" -SRC_URI="https://github.com/IntelPython/dpnp/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" - -LICENSE="Apache-2.0" -SLOT="0" -KEYWORDS="~amd64" - -BDEPEND=" - dev-python/cython[${PYTHON_USEDEP}] - dev-util/cmake - sys-devel/DPC++ -" - -RDEPEND=" - dev-cpp/tbb - dev-python/dpctl[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - sci-libs/mkl - sys-devel/DPC++:= -" -DEPEND="${RDEPEND} - sys-devel/oneDPL -" - -distutils_enable_tests pytest - -PATCHES=( - "${FILESDIR}/${P}-fix-compile.patch" -) - -python_prepare_all() { - # DPC++ compiler required for full functionality - export CC="${ESYSROOT}/usr/lib/llvm/intel/bin/clang" - export CXX="${ESYSROOT}/usr/lib/llvm/intel/bin/clang++" - export DPCPPROOT="${ESYSROOT}/usr/lib/llvm/intel" - export DPL_ROOT="${ESYSROOT}/usr/include/include/oneapi/dpl" - # Parallel build broken - export MAKEOPTS="-j1" - - distutils-r1_python_prepare_all -} - -python_compile() { - export BUILD_DIR_LIBS="${BUILD_DIR}/lib/dpnp" - distutils-r1_python_compile -} diff --git a/dev-python/dpnp/dpnp-0.11.0.ebuild b/dev-python/dpnp/dpnp-0.11.1_rc1.ebuild index 51e17faa0..5d25d62d1 100644 --- a/dev-python/dpnp/dpnp-0.11.0.ebuild +++ b/dev-python/dpnp/dpnp-0.11.1_rc1.ebuild @@ -3,14 +3,15 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..11} ) -# Breaks the installation of the backend library +PYTHON_COMPAT=( python3_{10..12} ) +# Breaks library installation #DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 DESCRIPTION="Data Parallel Extension for NumPy" HOMEPAGE="https://github.com/IntelPython/dpnp" -SRC_URI="https://github.com/IntelPython/dpnp/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" +SRC_URI="https://github.com/IntelPython/dpnp/archive/refs/tags/${PV//_rc/dev}.tar.gz -> ${P}.gh.tar.gz" +S="${WORKDIR}/${PN}-${PV//_rc/dev}" LICENSE="Apache-2.0" SLOT="0" @@ -18,7 +19,7 @@ KEYWORDS="~amd64" BDEPEND=" dev-python/cython[${PYTHON_USEDEP}] - dev-util/cmake + dev-build/cmake sys-devel/DPC++ " @@ -33,12 +34,12 @@ DEPEND="${RDEPEND} sys-devel/oneDPL " -distutils_enable_tests pytest - PATCHES=( "${FILESDIR}/${P}-fix-compile.patch" ) +distutils_enable_tests pytest + python_prepare_all() { # DPC++ compiler required for full functionality export CC="${ESYSROOT}/usr/lib/llvm/intel/bin/clang" @@ -55,3 +56,10 @@ python_compile() { export BUILD_DIR_LIBS="${BUILD_DIR}/lib/dpnp" distutils-r1_python_compile } + +python_test() { + export PYTHONPATH="${BUILD_DIR}/lib" + elog $PYTHONPATH + # We don't use epytest because it overwrites our PYTHONPATH + pytest -vv || die +} diff --git a/dev-python/dpnp/files/dpnp-0.10.0-fix-compile.patch b/dev-python/dpnp/files/dpnp-0.10.0-fix-compile.patch deleted file mode 100644 index deaa95d0b..000000000 --- a/dev-python/dpnp/files/dpnp-0.10.0-fix-compile.patch +++ /dev/null @@ -1,97 +0,0 @@ -diff --git a/0.build.sh b/0.build.sh -index c089b1d..3bb0739 100755 ---- a/0.build.sh -+++ b/0.build.sh -@@ -10,14 +10,14 @@ python setup.py clean - DPLROOT=/opt/intel/oneapi/dpl/latest python setup.py build_clib - - # inplace build --CC=dpcpp python setup.py build_ext --inplace -+CC=${CC} python setup.py build_ext --inplace - - # development build. Root privileges needed - # python setup.py develop - - echo - echo =========example3============== --dpcpp -g -fPIC dpnp/backend/examples/example3.cpp -Idpnp -Idpnp/backend/include -Ldpnp -Wl,-rpath='$ORIGIN'/dpnp -ldpnp_backend_c -o example3 -+${CXX} -g -fPIC dpnp/backend/examples/example3.cpp -Idpnp -Idpnp/backend/include -Ldpnp -Wl,-rpath='$ORIGIN'/dpnp -ldpnp_backend_c -o example3 - # LD_DEBUG=libs,bindings,symbols ./example3 - ./example3 - -diff --git a/dpnp/backend/CMakeLists.txt b/dpnp/backend/CMakeLists.txt -index 81f073c..bcc4ecc 100644 ---- a/dpnp/backend/CMakeLists.txt -+++ b/dpnp/backend/CMakeLists.txt -@@ -88,24 +88,6 @@ if (CMAKE_VERSION VERSION_EQUAL 3.19.1) - ) - endif() - --if(UNIX) -- set(CMAKE_CXX_COMPILER "dpcpp") -- # add_compile_options(-fPIC) --elseif(WIN32) -- set(CMAKE_CXX_COMPILER "dpcpp") -- # set(CMAKE_SHARED_LINKER_FLAGS_INIT "-fuse-ld=lld-link") -- # set(CMAKE_LINKER "lld-link") -- # include (Platform/Windows-Clang) -- # set(CMAKE_LINKER "dpcpp") -- # set(CMAKE_AR "llvm-ar") -- # set(CMAKE_RANLIB "llvm-ranlib") -- # set(CMAKE_CXX_FLAGS "/EHsc") -- -- add_compile_options(/EHsc) # /Ox /W3 /GL /DNDEBUG /MD /EHsc --else() -- message(FATAL_ERROR "Unsupported system ${CMAKE_SYSTEM} in compiler selection case") --endif() -- - # set language version - set(CMAKE_CXX_STANDARD 17) - set(CMAKE_CXX_STANDARD_REQUIRED ON) -@@ -280,6 +262,7 @@ endif() - # set_target_properties(dpnp_backend_c PROPERTIES VERSION ${DPNP_VERSION} SOVERSION ${DPNP_API_VERSION}) - - install(TARGETS dpnp_backend_c -+ DESTINATION ${DPNP_INSTALL_PREFIX} - PERMISSIONS OWNER_WRITE OWNER_READ OWNER_EXECUTE GROUP_READ GROUP_EXECUTE WORLD_READ WORLD_EXECUTE - ) - -diff --git a/utils/command_build_clib.py b/utils/command_build_clib.py -index dc9f322..35432fa 100644 ---- a/utils/command_build_clib.py -+++ b/utils/command_build_clib.py -@@ -60,8 +60,8 @@ else: - Set compiler for the project - """ - # default variables (for Linux) --_project_compiler = "dpcpp" --_project_linker = "dpcpp" -+_project_compiler = os.environ.get("CXX") -+_project_linker = os.environ.get("CXX") - _project_cmplr_flag_sycl_devel = ["-fsycl-device-code-split=per_kernel"] - _project_cmplr_flag_sycl = ["-fsycl"] - _project_cmplr_flag_stdcpp_static = [] # This brakes TBB ["-static-libstdc++", "-static-libgcc"] -@@ -113,8 +113,8 @@ except ImportError: - - # other OS specific - if IS_WIN: -- _project_compiler = "dpcpp" -- _project_linker = "lld-link" -+ _project_compiler = os.environ.get("CXX") -+ _project_linker = os.environ.get("CXX") - _project_cmplr_flag_sycl = [] - _project_cmplr_flag_stdcpp_static = [] - _project_cmplr_flag_compatibility = [] -diff --git a/utils/command_build_cmake_clib.py b/utils/command_build_cmake_clib.py -index 0ef0e24..84f2469 100644 ---- a/utils/command_build_cmake_clib.py -+++ b/utils/command_build_cmake_clib.py -@@ -112,7 +112,7 @@ class custom_build_cmake_clib(build_clib.build_clib): - "-S" + backend_directory, - "-B" + abs_build_temp_path, - "-DCMAKE_BUILD_TYPE=" + config, -- "-DDPNP_INSTALL_PREFIX=" + install_directory.replace(os.sep, "/"), # adjust to cmake requirenments -+ "-DDPNP_INSTALL_PREFIX=" + os.environ.get('BUILD_DIR_LIBS'), # adjust to cmake requirenments - "-DDPNP_INSTALL_STRUCTURED=OFF", - # "-DCMAKE_LIBRARY_OUTPUT_DIRECTORY=" + install_directory, - "-DDPNP_SYCL_QUEUE_MGR_ENABLE:BOOL=" + _dpctrl_exists, diff --git a/dev-python/dpnp/files/dpnp-0.11.0-fix-compile.patch b/dev-python/dpnp/files/dpnp-0.11.1_rc1-fix-compile.patch index 2ccc0a6b8..25c0d3484 100644 --- a/dev-python/dpnp/files/dpnp-0.11.0-fix-compile.patch +++ b/dev-python/dpnp/files/dpnp-0.11.1_rc1-fix-compile.patch @@ -1,16 +1,16 @@ diff --git a/dpnp/backend/CMakeLists.txt b/dpnp/backend/CMakeLists.txt -index 409a29f..11d21f1 100644 +index baee709..3202662 100644 --- a/dpnp/backend/CMakeLists.txt +++ b/dpnp/backend/CMakeLists.txt -@@ -98,30 +98,7 @@ string(CONCAT COMMON_LINK_FLAGS +@@ -99,30 +99,6 @@ string(CONCAT COMMON_LINK_FLAGS "-fsycl " "-fsycl-device-code-split=per_kernel " ) -if(UNIX) -- set(CMAKE_CXX_COMPILER "dpcpp") +- set(CMAKE_CXX_COMPILER "icpx") - # add_compile_options(-fPIC) -elseif(WIN32) -- set(CMAKE_CXX_COMPILER "dpcpp") +- set(CMAKE_CXX_COMPILER "icx") - # set(CMAKE_SHARED_LINKER_FLAGS_INIT "-fuse-ld=lld-link") - # set(CMAKE_LINKER "lld-link") - # include (Platform/Windows-Clang) @@ -18,8 +18,8 @@ index 409a29f..11d21f1 100644 - # set(CMAKE_AR "llvm-ar") - # set(CMAKE_RANLIB "llvm-ranlib") - # set(CMAKE_CXX_FLAGS "/EHsc") - -- string(APPEND COMMON_COMPILER_FLAGS +- +- string(APPEND COMMON_COMPILE_FLAGS - "/EHsc " -# "/Ox " -# "/W3 " @@ -33,7 +33,7 @@ index 409a29f..11d21f1 100644 # set language version set(CMAKE_CXX_STANDARD 17) -@@ -327,6 +304,7 @@ endif() +@@ -334,6 +310,7 @@ endif() # set_target_properties(dpnp_backend_c PROPERTIES VERSION ${DPNP_VERSION} SOVERSION ${DPNP_API_VERSION}) install(TARGETS dpnp_backend_c @@ -42,29 +42,20 @@ index 409a29f..11d21f1 100644 ) diff --git a/utils/command_build_clib.py b/utils/command_build_clib.py -index 3d1177b..d8fbdac 100644 +index d16bab3..7fd2afa 100644 --- a/utils/command_build_clib.py +++ b/utils/command_build_clib.py @@ -61,8 +61,8 @@ else: Set compiler for the project """ # default variables (for Linux) --_project_compiler = "dpcpp" --_project_linker = "dpcpp" +-_project_compiler = "icpx" +-_project_linker = "icpx" +_project_compiler = os.environ.get("CXX") +_project_linker = os.environ.get("CXX") - _project_cmplr_flag_sycl_devel = ["-fsycl-device-code-split=per_kernel", "-fno-approx-func"] + _project_cmplr_flag_sycl_devel = ["-fsycl-device-code-split=per_kernel", "-fno-approx-func", "-fno-finite-math-only"] _project_cmplr_flag_sycl = ["-fsycl"] _project_cmplr_flag_stdcpp_static = [] # This brakes TBB ["-static-libstdc++", "-static-libgcc"] -@@ -114,7 +114,7 @@ except ImportError: - - # other OS specific - if IS_WIN: -- _project_compiler = "dpcpp" -+ _project_compiler = os.environ.get("CXX") - _project_linker = "lld-link" - _project_cmplr_flag_sycl = [] - _project_cmplr_flag_stdcpp_static = [] diff --git a/utils/command_build_cmake_clib.py b/utils/command_build_cmake_clib.py index 0ef0e24..84f2469 100644 --- a/utils/command_build_cmake_clib.py diff --git a/dev-python/extension-helpers/Manifest b/dev-python/extension-helpers/Manifest index b80cb117c..33d56a849 100644 --- a/dev-python/extension-helpers/Manifest +++ b/dev-python/extension-helpers/Manifest @@ -1 +1 @@ -DIST extension-helpers-0.1.tar.gz 24306 BLAKE2B 8fa5134bd26f4c5b9a66694d1c057c969607bfe9a05d5c470cdccda87bbff329174916bccc390ff80fdce72af5b764d0b3a7c34b632c01e33e3c84f913c6527b SHA512 d8394f5f0de28dfa2c204b918a39b5f3b990057bfdb7a21907b0b9ae3bacd5b95c5f25b32a08a50606fbae35b93629dcfe1fee512c6aa4f4e7c08c22bcfd3fbb +DIST extension-helpers-1.0.0.tar.gz 23463 BLAKE2B 0b1edffabc112120ac85c6445255986145143da9552221390a0827516a20e2877cad47e5968f6c7d293550db566574f86c877758d6233e51ca0762c3ff2e9327 SHA512 30234591100e5e8b7bda4392d72421911773a3aabb40c003367e8b335edcea3285f79fd962edd3d09b96ed7b4b936a97086376dfff50b18df85b55c612d61f8d diff --git a/dev-python/extension-helpers/extension-helpers-0.1.ebuild b/dev-python/extension-helpers/extension-helpers-1.0.0.ebuild index 976e33986..4532642fa 100644 --- a/dev-python/extension-helpers/extension-helpers-0.1.ebuild +++ b/dev-python/extension-helpers/extension-helpers-1.0.0.ebuild @@ -3,13 +3,14 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +PYPI_NO_NORMALIZE=1 -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Utilities for building and installing packages in the Astropy ecosystem" HOMEPAGE="https://github.com/astropy/astropy-helpers" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" diff --git a/dev-python/extension-helpers/metadata.xml b/dev-python/extension-helpers/metadata.xml index 4f4367037..9f1bfe0c4 100644 --- a/dev-python/extension-helpers/metadata.xml +++ b/dev-python/extension-helpers/metadata.xml @@ -5,4 +5,8 @@ <email>sci-astronomy@gentoo.org</email> <name>Gentoo Astronomy Project</name> </maintainer> + <upstream> + <remote-id type="github">astropy/astropy-helpers</remote-id> + <remote-id type="pypi">extension-helpers</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/ezdxf/ezdxf-0.16.5.ebuild b/dev-python/ezdxf/ezdxf-0.16.5.ebuild index 27c8ff04b..b3a0148f7 100644 --- a/dev-python/ezdxf/ezdxf-0.16.5.ebuild +++ b/dev-python/ezdxf/ezdxf-0.16.5.ebuild @@ -5,12 +5,11 @@ EAPI=8 #FIXME: Upstream explicitly supports "pypy3", but Gentoo dependencies do not. PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Python interface to DXF" -HOMEPAGE="https://pypi.org/project/ezdxf" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.zip" +HOMEPAGE="https://pypi.org/project/ezdxf/" +SRC_URI="$(pypi_sdist_url ${PN} ${PV} .zip)" LICENSE="MIT" SLOT="0" diff --git a/dev-python/ffc/Manifest b/dev-python/ffc/Manifest deleted file mode 100644 index 266151bd7..000000000 --- a/dev-python/ffc/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST ffc-2019.1.0.tar.gz 1365806 BLAKE2B a9c2e03f3cc178d279fea89eb95090a8417351ccde61f1a357e14610d952dd20870617bf32daf1bf79d2535997d4ce7e1a8971d9b03a0ee2636d4e18d208bd17 SHA512 c7deaeb5a0deadd998ba7809b7725e2d28a84bf82706427b5273310292d50380d132088ca04bc9a3945b543709226b7c2c2cbb28dde63fc06033f9d1f123433e diff --git a/dev-python/ffc/ffc-2019.1.0.ebuild b/dev-python/ffc/ffc-2019.1.0.ebuild deleted file mode 100644 index a164e1356..000000000 --- a/dev-python/ffc/ffc-2019.1.0.ebuild +++ /dev/null @@ -1,23 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7,8,9} ) - -inherit distutils-r1 - -DESCRIPTION="Compiler for multilinear forms by generating C or C++ code" -HOMEPAGE="https://bitbucket.org/fenics-project/ffc/" -SRC_URI="https://bitbucket.org/fenics-project/ffc/downloads/${P}.tar.gz" - -LICENSE="GPL-3" -SLOT="0" -KEYWORDS="~amd64 ~x86" -IUSE="" - -RDEPEND=" - ~dev-python/ufl-${PV}[${PYTHON_USEDEP}] - ~dev-python/fiat-${PV}[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - " diff --git a/dev-python/ffc/metadata.xml b/dev-python/ffc/metadata.xml deleted file mode 100644 index 744ca900c..000000000 --- a/dev-python/ffc/metadata.xml +++ /dev/null @@ -1,19 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <longdescription lang="en"> -FFC works as a compiler for multilinear forms by generating code (C or -C++) for the evaluation of a multilinear form given in mathematical -notation. This new approach to form evaluation makes it possible to -combine generality with efficiency; the form can be given in -mathematical notation and the generated code is as efficient as -hand-optimized code. -</longdescription> - <upstream> - <remote-id type="bitbucket">fenics-project/ffc</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/fiat/Manifest b/dev-python/fiat/Manifest deleted file mode 100644 index 17a7b25c7..000000000 --- a/dev-python/fiat/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST fiat-2019.1.0.tar.gz 108440 BLAKE2B ebf4f9e342e063be3be51daf28d433274a3238f6dda7515e350d374427157490d86dfbfd4faba13fef1def58623ff38ed3df445815b5cbe2e1f6afd4b0dfa374 SHA512 15de17b2a28ba5071c0dd9ecc05ec36eeae76de3aa9f068577d43b7526778116e2ded412fa8c26189e7c505881dd2b68b2c45704c8446d9ef9d9d3797c3592e6 diff --git a/dev-python/fiat/fiat-2019.1.0.ebuild b/dev-python/fiat/fiat-2019.1.0.ebuild deleted file mode 100644 index b50646eb3..000000000 --- a/dev-python/fiat/fiat-2019.1.0.ebuild +++ /dev/null @@ -1,19 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7,8,9} ) - -inherit distutils-r1 - -DESCRIPTION="FInite element Automatic Tabulator" -HOMEPAGE="https://github.com/FEniCS/fiat" -SRC_URI="https://github.com/FEniCS/fiat/archive/2019.1.0.tar.gz -> ${P}.tar.gz" - -LICENSE="LGPL-3" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND="dev-python/numpy[${PYTHON_USEDEP}]" -DEPEND="${RDEPEND}" diff --git a/dev-python/fiat/metadata.xml b/dev-python/fiat/metadata.xml deleted file mode 100644 index 23d9fd64c..000000000 --- a/dev-python/fiat/metadata.xml +++ /dev/null @@ -1,22 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <longdescription lang="en"> -The FInite element Automatic Tabulator FIAT supports generation of -arbitrary order instances of the Lagrange elements on lines, triangles, -and tetrahedra. It is also capable of generating arbitrary order -instances of Jacobi-type quadrature rules on the same element shapes. -Further, H(div) and H(curl) conforming finite element spaces such as the -families of Raviart-Thomas, Brezzi-Douglas-Marini and Nedelec are -supported on triangles and tetrahedra. Upcoming versions will also -support Hermite and nonconforming elements. -</longdescription> - <upstream> - <remote-id type="bitbucket">fenics-project/fiat</remote-id> - <remote-id type="github">FEniCS/fiat</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/fiona/Manifest b/dev-python/fiona/Manifest index 2140ef1a5..bed2fa4ce 100644 --- a/dev-python/fiona/Manifest +++ b/dev-python/fiona/Manifest @@ -1,2 +1 @@ -DIST fiona-1.8.21.tar.gz 270166 BLAKE2B 752957f3cc3ed6a35713536e90cdbc542d73de9718e878a449f71c9b9a2150b4ead90ff5d9ce254a6adcfcf7deb61b4483e7cf5bfee12997e581fd0a3ffc767e SHA512 c77cedae67fb7e2b6b6a84aeef39ce5424ccb38b13774f7c2e9bd5934836a6abe6759eeea1d4a8cfc83c5111442f2028d18dd79af209e11618789de2149e7885 - +DIST fiona-1.9.0.gh.tar.gz 290797 BLAKE2B 1cd2a4a26d23d057433889937b4fecefb1e1585dc6b507e297ef3bab8cf72f734bc080bab8487d58c636312bca1330960f78fc2916d27c9a7247df087818c9b3 SHA512 f59d148cfc4f1cab6d89660146522920fab8b6fb1120ad8f3d3e8349d5fa823860984f8fd331e2fc3183a4a186a165508db8dcbcbdf4b943a7dad82d8d51d866 diff --git a/dev-python/fiona/fiona-1.8.21.ebuild b/dev-python/fiona/fiona-1.9.0.ebuild index 231038559..7bc415b14 100644 --- a/dev-python/fiona/fiona-1.8.21.ebuild +++ b/dev-python/fiona/fiona-1.9.0.ebuild @@ -3,13 +3,14 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) DISTUTILS_USE_PEP517="setuptools" inherit distutils-r1 DESCRIPTION="API for reading/writing vector geospatial data" HOMEPAGE="https://github.com/Toblerity/fiona" -SRC_URI="https://github.com/Toblerity/${PN}/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" +SRC_URI="https://github.com/Toblerity/${PN}/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" +S="${WORKDIR}/Fiona-${PV}" LICENSE="BSD" SLOT="0" @@ -21,7 +22,6 @@ RDEPEND=" dev-python/click-plugins[${PYTHON_USEDEP}] dev-python/cligj[${PYTHON_USEDEP}] dev-python/munch[${PYTHON_USEDEP}] - dev-python/six[${PYTHON_USEDEP}] dev-python/certifi[${PYTHON_USEDEP}] " @@ -33,8 +33,6 @@ BDEPEND=" ) " -S="${WORKDIR}/Fiona-${PV}" - distutils_enable_tests pytest python_test() { diff --git a/dev-python/fscacher/Manifest b/dev-python/fscacher/Manifest index 67c5c736e..779c470e4 100644 --- a/dev-python/fscacher/Manifest +++ b/dev-python/fscacher/Manifest @@ -1,2 +1,2 @@ -DIST fscacher-0.1.4.tar.gz 35097 BLAKE2B 32cd904d9d3bd36b4b14a55a4d618a99f73afda2807a1f655931b8b26e8ce0b1126773c5b242af824e2014cf634200a17f95d547c75ec4f6a3dd959ee5c37e23 SHA512 e3e85cee4c446552215b6d7092bdc72c31709e05dee7efb52fc6fc985992a3ece338c5a0dee54ed7e6aec797d4b7e2bd77b00f634112134c61f402b604103b5c -DIST fscacher-0.2.0.tar.gz 37693 BLAKE2B 4e6493d5ec1bb56b53ab72842b6861fbfb916698b80021bbb5c8a8c89be9d90661c78bef9f5b09d3f681b40e45fa52b06dc93231df2228e3a00ee13f913544d8 SHA512 eca32e84f2b317b57aca749644fb76e6c7a0e65384903def29ff70d23740cf2cac8c29e78985dc516f2e01544a0173846fe700e3abb1543fd47c17e9a44ceb9e +DIST fscacher-0.1.4.gh.tar.gz 35097 BLAKE2B 32cd904d9d3bd36b4b14a55a4d618a99f73afda2807a1f655931b8b26e8ce0b1126773c5b242af824e2014cf634200a17f95d547c75ec4f6a3dd959ee5c37e23 SHA512 e3e85cee4c446552215b6d7092bdc72c31709e05dee7efb52fc6fc985992a3ece338c5a0dee54ed7e6aec797d4b7e2bd77b00f634112134c61f402b604103b5c +DIST fscacher-0.2.0.gh.tar.gz 37693 BLAKE2B 4e6493d5ec1bb56b53ab72842b6861fbfb916698b80021bbb5c8a8c89be9d90661c78bef9f5b09d3f681b40e45fa52b06dc93231df2228e3a00ee13f913544d8 SHA512 eca32e84f2b317b57aca749644fb76e6c7a0e65384903def29ff70d23740cf2cac8c29e78985dc516f2e01544a0173846fe700e3abb1543fd47c17e9a44ceb9e diff --git a/dev-python/fscacher/fscacher-0.1.4.ebuild b/dev-python/fscacher/fscacher-0.1.4.ebuild index b15c37615..50dcd6914 100644 --- a/dev-python/fscacher/fscacher-0.1.4.ebuild +++ b/dev-python/fscacher/fscacher-0.1.4.ebuild @@ -1,14 +1,14 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) inherit distutils-r1 DESCRIPTION="Cache results of operations on heavy file trees" HOMEPAGE="https://github.com/con/fscacher" -SRC_URI="https://github.com/con/fscacher/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" +SRC_URI="https://github.com/con/fscacher/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" SLOT="0" LICENSE="MIT" diff --git a/dev-python/fscacher/fscacher-0.2.0.ebuild b/dev-python/fscacher/fscacher-0.2.0.ebuild index 8bb00f6f4..f466d0675 100644 --- a/dev-python/fscacher/fscacher-0.2.0.ebuild +++ b/dev-python/fscacher/fscacher-0.2.0.ebuild @@ -1,14 +1,14 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) inherit distutils-r1 DESCRIPTION="Cache results of operations on heavy file trees" HOMEPAGE="https://github.com/con/fscacher" -SRC_URI="https://github.com/con/fscacher/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" +SRC_URI="https://github.com/con/fscacher/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" SLOT="0" LICENSE="MIT" diff --git a/dev-python/fslpy/files/fslpy-2.7.0-coverage.patch b/dev-python/fslpy/files/fslpy-2.7.0-coverage.patch deleted file mode 100644 index 3de6d92f1..000000000 --- a/dev-python/fslpy/files/fslpy-2.7.0-coverage.patch +++ /dev/null @@ -1,16 +0,0 @@ -diff --git a/setup.cfg b/setup.cfg -index 9ea1ddb..00eb59b 100644 ---- a/setup.cfg -+++ b/setup.cfg -@@ -18,8 +18,8 @@ markers = - - - testpaths = tests --addopts = -v --niters=50 --cov=fsl -m "not longtest" -+addopts = -v --niters=50 -m "not longtest" - - - [flake8] --ignore = E127,E201,E203,E221,E222,E241,E271,E272,E301,E302,E303,E701,W504 -\ No newline at end of file -+ignore = E127,E201,E203,E221,E222,E241,E271,E272,E301,E302,E303,E701,W504 diff --git a/dev-python/fslpy/fslpy-3.10.0.ebuild b/dev-python/fslpy/fslpy-3.10.0.ebuild index ce3b7008f..3f6262707 100644 --- a/dev-python/fslpy/fslpy-3.10.0.ebuild +++ b/dev-python/fslpy/fslpy-3.10.0.ebuild @@ -1,9 +1,9 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 virtualx @@ -18,7 +18,7 @@ KEYWORDS="~amd64 ~x86" RDEPEND=" dev-python/dill[${PYTHON_USEDEP}] >=dev-python/h5py-2.9[${PYTHON_USEDEP}] - >=dev-python/indexed_gzip-0.7.0[${PYTHON_USEDEP}] + >=dev-python/indexed-gzip-0.7.0[${PYTHON_USEDEP}] >=dev-python/numpy-1[${PYTHON_USEDEP}] >=dev-python/pillow-3.2.0[${PYTHON_USEDEP}] >=dev-python/trimesh-2.37.29[${PYTHON_USEDEP}] @@ -29,7 +29,7 @@ RDEPEND=" " distutils_enable_tests pytest -distutils_enable_sphinx doc dev-python/sphinx_rtd_theme +distutils_enable_sphinx doc dev-python/sphinx-rtd-theme python_prepare_all() { # Do not depend on coverage diff --git a/dev-python/gammapy/Manifest b/dev-python/gammapy/Manifest index 4645ef4fd..6cd1ed25d 100644 --- a/dev-python/gammapy/Manifest +++ b/dev-python/gammapy/Manifest @@ -1 +1 @@ -DIST gammapy-0.18.2.tar.gz 2077004 BLAKE2B 1dd22566d92d73bb9ef5f0cca455096caa014353a570dfa111c22db174dd52ebe93752347fc37d086a6f16b567227a45a18f2212f5078639793593c0fa77ec39 SHA512 b500756a90eb29fd3c275166b6d980249b2db48fd007f25a43a53d5d63a9e1e53fb16e4a4707313616ece2abdfa3e8d339e99f8f4c2f0bb9b3bd9287c86ce958 +DIST gammapy-1.0.tar.gz 3548471 BLAKE2B c6f66a5fe3158d42fefbae3e14a659d2d637b935cede97e0dfefad32d0aa39a3d5ece23b19e95436deb1299e60b472c7ed01bd5c9c4c1e009618d8dead8b1951 SHA512 acf8f7940b910cdd1277a876e14fde9e962c40d7742610dd8c37b7769b132485bb0aa6fadbd0f68af37858c110985d34679e6f3f4fe52c28a11bd4d56dcf3699 diff --git a/dev-python/gammapy/gammapy-0.18.2.ebuild b/dev-python/gammapy/gammapy-1.0.ebuild index c26732aed..6357014ed 100644 --- a/dev-python/gammapy/gammapy-0.18.2.ebuild +++ b/dev-python/gammapy/gammapy-1.0.ebuild @@ -1,16 +1,15 @@ # Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=7 +EAPI=8 -PYTHON_COMPAT=( python3_{7,8,9} ) -DISTUTILS_USE_SETUPTOOLS=rdepend +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 optfeature +inherit distutils-r1 pypi optfeature DESCRIPTION="A Python package for gamma-ray astronomy" HOMEPAGE="https://github.com/gammapy/gammapy" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" @@ -48,7 +47,7 @@ pkg_postinst() { optfeature "Plotting" dev-python/matplotlib optfeature "Plotting Astronomical Images" dev-python/aplpy optfeature "Read/write CVS files" dev-python/pandas - optfeature "Image Processing" sci-libs/scikit-image + optfeature "Image Processing" dev-python/scikit-image optfeature "Conversion helper functions" dev-python/rootpy # In science overlay: diff --git a/dev-python/gammapy/metadata.xml b/dev-python/gammapy/metadata.xml index a9f88e7d8..f4a01e639 100644 --- a/dev-python/gammapy/metadata.xml +++ b/dev-python/gammapy/metadata.xml @@ -12,5 +12,6 @@ H.E.S.S, and CTA in primarily Galactic plane survey studies. </longdescription> <upstream> <remote-id type="github">gammapy/gammapy</remote-id> + <remote-id type="pypi">gammapy</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/geopandas/Manifest b/dev-python/geopandas/Manifest index 2abc44bd1..037a125d3 100644 --- a/dev-python/geopandas/Manifest +++ b/dev-python/geopandas/Manifest @@ -1 +1 @@ -DIST geopandas-0.12.1.gh.tar.gz 6358329 BLAKE2B a1d16656e19284b855338379e4329e964772db32ed833cce65118c9f03519a69b3be090af66829b39c2afdf520a8e98773de3ceebc0aef818c586cba913b81ea SHA512 42f70d7d919e819e0ab5872d7389ede769868599221c1717ea18c0f4fe24ec3cc736ef7c7b26766c43abaa456e46a4f9283ab9f4364d13ae171aaf705ff3d168 +DIST geopandas-0.13.2.gh.tar.gz 6388249 BLAKE2B 910f32ea7d798bbdeee77be190c57daf7bdc719901a2183b5328ec13619ff9b4145d1717afed8fc71da154d84f388ce2bc30c541478f95ed121c7d8681c691ae SHA512 4dff4bfeca2490081c02c41edf92037fa8a8f4b030b6f6a0cdc231b3119f829604af39277125db9535c66aac0698d2d4dcfac2bb58b92d31bea83f0ee296e21a diff --git a/dev-python/geopandas/geopandas-0.12.1.ebuild b/dev-python/geopandas/geopandas-0.13.2.ebuild index 1fd17dda0..921c13417 100644 --- a/dev-python/geopandas/geopandas-0.12.1.ebuild +++ b/dev-python/geopandas/geopandas-0.13.2.ebuild @@ -3,12 +3,12 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) -DISTUTILS_USE_PEP517="setuptools" +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 optfeature DESCRIPTION="Python tools for geographic data" -HOMEPAGE="https://github.com/geopandas/geopandas" +HOMEPAGE="https://github.com/geopandas/geopandas https://pypi.org/project/geopandas/" SRC_URI="https://github.com/geopandas/${PN}/archive/refs/tags/v${PV}.tar.gz -> ${P}.gh.tar.gz" LICENSE="BSD" @@ -25,9 +25,10 @@ distutils_enable_tests pytest python_test() { local deselect=( - # disable tests due to networking being blocked - geopandas/io/tests/test_file.py::test_read_file_remote_zipfile_url - geopandas/io/tests/test_file.py::test_read_file_remote_geojson_url + # needs network access + geopandas/io/tests/test_file.py::test_read_file_url + # fails with RuntimeError thrown by matplotlib + geopandas/tests/test_plotting.py::TestGeoplotAccessor::test_pandas_kind ) epytest ${deselect[@]/#/--deselect } @@ -37,4 +38,5 @@ pkg_postinst() { optfeature "plotting" dev-python/matplotlib optfeature "spatial indexes and spatial joins" sci-libs/rtree optfeature "geocoding" sci-geosciences/geopy + optfeature "geodatabase access" dev-python/psycopg dev-python/sqlalchemy } diff --git a/dev-python/gffpandas/Manifest b/dev-python/gffpandas/Manifest index 8d84e74c6..1a3ae3b5f 100644 --- a/dev-python/gffpandas/Manifest +++ b/dev-python/gffpandas/Manifest @@ -1 +1 @@ -DIST gffpandas-1.2.0.tar.gz 32040 BLAKE2B 66f53357876d417997366cdcbacd778f2b17e7df113d21f2a836b082719f549ede5e06a9a6c46e9c5bee2d86946871e68ab1f9b7af0defcaa8a55ae8ef93b274 SHA512 feb67ea93a078547103c1c6b8f32bd6bbd69ab669b93b90aa5f48bc0ebc25ea23e35130976bf1a89ff5e92fdbd054c4df98cc961278c7caaf28b48c202a662d7 +DIST gffpandas-1.2.0.gh.tar.gz 32040 BLAKE2B 66f53357876d417997366cdcbacd778f2b17e7df113d21f2a836b082719f549ede5e06a9a6c46e9c5bee2d86946871e68ab1f9b7af0defcaa8a55ae8ef93b274 SHA512 feb67ea93a078547103c1c6b8f32bd6bbd69ab669b93b90aa5f48bc0ebc25ea23e35130976bf1a89ff5e92fdbd054c4df98cc961278c7caaf28b48c202a662d7 diff --git a/dev-python/gffpandas/gffpandas-1.2.0.ebuild b/dev-python/gffpandas/gffpandas-1.2.0.ebuild index 96ed950c1..e0fe2f621 100644 --- a/dev-python/gffpandas/gffpandas-1.2.0.ebuild +++ b/dev-python/gffpandas/gffpandas-1.2.0.ebuild @@ -1,7 +1,7 @@ -# Copyright 2021 Gentoo Authors +# Copyright 2021-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=7 +EAPI=8 PYTHON_COMPAT=( python3_10 ) @@ -10,7 +10,7 @@ inherit distutils-r1 DESCRIPTION="Python library to Filter and sort GFF3 annotations" HOMEPAGE="https://github.com/foerstner-lab/gffpandas https://gffpandas.readthedocs.io/en/latest/" -SRC_URI="https://github.com/foerstner-lab/${PN}/archive/v${PV}.tar.gz -> ${P}.tar.gz" +SRC_URI="https://github.com/foerstner-lab/${PN}/archive/v${PV}.tar.gz -> ${P}.gh.tar.gz" LICENSE="ISC" SLOT="0" @@ -19,7 +19,7 @@ KEYWORDS="~amd64 ~x86" RDEPEND="dev-python/pandas[${PYTHON_USEDEP}]" distutils_enable_tests pytest -distutils_enable_sphinx docs/source dev-python/sphinx_rtd_theme +distutils_enable_sphinx docs/source dev-python/sphinx-rtd-theme python_prepare_all() { # Do not depend on pytest-runner diff --git a/dev-python/gmsh_interop/gmsh_interop-2021.1.1.ebuild b/dev-python/gmsh_interop/gmsh_interop-2021.1.1.ebuild index 88e1a333a..3185102ba 100644 --- a/dev-python/gmsh_interop/gmsh_interop-2021.1.1.ebuild +++ b/dev-python/gmsh_interop/gmsh_interop-2021.1.1.ebuild @@ -4,12 +4,10 @@ EAPI=8 PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Interoperability with Gmsh for Python" HOMEPAGE="https://github.com/inducer/gmsh_interop/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" SLOT="0" diff --git a/dev-python/gmsh_interop/metadata.xml b/dev-python/gmsh_interop/metadata.xml index 2f2c0b51c..ed015f298 100644 --- a/dev-python/gmsh_interop/metadata.xml +++ b/dev-python/gmsh_interop/metadata.xml @@ -9,4 +9,8 @@ <email>sci@gentoo.org</email> <name>Gentoo Science Project</name> </maintainer> + <upstream> + <remote-id type="pypi">gmsh_interop</remote-id> + <remote-id type="github">inducer/gmsh_interop</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/google-cloud-storage/Manifest b/dev-python/google-cloud-storage/Manifest new file mode 100644 index 000000000..6bd5af5b0 --- /dev/null +++ b/dev-python/google-cloud-storage/Manifest @@ -0,0 +1 @@ +DIST google-cloud-storage-2.7.0.tar.gz 5490914 BLAKE2B 582fcf9a84bedcff41de2b26558ccae96474cbbe91c86bbe6bf53ff6a2fe38d7eb8dbe396fccd36ad252f171ed7eda45974ca9e7867e3ee9542c85570a951aef SHA512 89c4208781735bb0e8b0978202877af324154d5233d7abafd1b2b14b4bb381c18572cfdc791e42577ad929f3c4ded0857d9bd9f4eb52a93ed74e8884d797b365 diff --git a/dev-python/google-cloud-storage/google-cloud-storage-2.7.0.ebuild b/dev-python/google-cloud-storage/google-cloud-storage-2.7.0.ebuild new file mode 100644 index 000000000..403f75dee --- /dev/null +++ b/dev-python/google-cloud-storage/google-cloud-storage-2.7.0.ebuild @@ -0,0 +1,25 @@ +# Copyright 2021 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +PYPI_NO_NORMALIZE=1 + +inherit distutils-r1 pypi + +DESCRIPTION="Google Cloud Storage API client library" +HOMEPAGE="https://github.com/googleapis/python-storage" + +LICENSE="Apache-2.0" +SLOT="0" +KEYWORDS="~amd64" + +RDEPEND=" + dev-python/google-auth[${PYTHON_USEDEP}] + dev-python/google-api-core[${PYTHON_USEDEP}] + dev-python/requests[${PYTHON_USEDEP}] +" + +distutils_enable_tests pytest diff --git a/dev-python/google-cloud-storage/metadata.xml b/dev-python/google-cloud-storage/metadata.xml new file mode 100644 index 000000000..d67c6b09f --- /dev/null +++ b/dev-python/google-cloud-storage/metadata.xml @@ -0,0 +1,12 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <upstream> + <remote-id type="github">googleapis/python-storage</remote-id> + <remote-id type="pypi">google-cloud-storage</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/grabbit/grabbit-0.2.6.ebuild b/dev-python/grabbit/grabbit-0.2.6.ebuild index c7e710a70..722048089 100644 --- a/dev-python/grabbit/grabbit-0.2.6.ebuild +++ b/dev-python/grabbit/grabbit-0.2.6.ebuild @@ -1,9 +1,9 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) inherit distutils-r1 diff --git a/dev-python/gwcs/Manifest b/dev-python/gwcs/Manifest index 91b72eae3..4e040149b 100644 --- a/dev-python/gwcs/Manifest +++ b/dev-python/gwcs/Manifest @@ -1,2 +1 @@ -DIST gwcs-0.16.1.tar.gz 171068 BLAKE2B 0406a7b8545b56d7811b8326c148f0d413dd6ae38f90c9e50d984fd9a35d2f130d61821a237acc2bec2746e012d199f4ed08231299520de46ffa1554fe4d860b SHA512 2414f1c40be632e7b7cdb6657f54869a2aa8aefce6074ff0e6c5c277fd6c125d72c42b76e9344f100367f810bfcd5dc49b4e6ec6318b08a975799a918debb9cc DIST gwcs-0.18.3.tar.gz 184361 BLAKE2B a4afcf3d6281f65f1ff6733bb83f82ba089fc56d2a21c2d6f5fd8370ef518b97376ebe718a9e4f9fa34ae80fc66baecf9e32835bb18f1737bf3f47e972e31118 SHA512 51aac4dd1f3b835b274f265cf26d4f9cf757435bb8355d43a31b7eba665991c233b46f9e0a87d22985c04fdabc0455958b99f37aeb55a04a9c0b4901d5069891 diff --git a/dev-python/gwcs/gwcs-0.16.1.ebuild b/dev-python/gwcs/gwcs-0.18.3-r1.ebuild index c75d7b534..eef5aeb36 100644 --- a/dev-python/gwcs/gwcs-0.16.1.ebuild +++ b/dev-python/gwcs/gwcs-0.18.3-r1.ebuild @@ -3,13 +3,13 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..10} ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Generalized World Coordinate System" HOMEPAGE="https://gwcs.readthedocs.io/en/latest/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" @@ -18,7 +18,7 @@ KEYWORDS="~amd64 ~x86" # https://github.com/spacetelescope/gwcs/issues/437 RESTRICT=test -BDEPEND="dev-python/setuptools_scm[${PYTHON_USEDEP}] +BDEPEND="dev-python/setuptools-scm[${PYTHON_USEDEP}] test? ( dev-python/pytest-doctestplus[${PYTHON_USEDEP}] ) @@ -38,5 +38,5 @@ distutils_enable_tests pytest python_test() { # discovers things in docs dir if we do not # explicitly set it to run on the tests dir - pytest -vv gwcs/tests || die " Tests failed with ${EPYTHON}" + epytest gwcs/tests } diff --git a/dev-python/gwcs/gwcs-0.18.3.ebuild b/dev-python/gwcs/gwcs-0.18.3.ebuild deleted file mode 100644 index c75d7b534..000000000 --- a/dev-python/gwcs/gwcs-0.18.3.ebuild +++ /dev/null @@ -1,42 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..10} ) - -inherit distutils-r1 - -DESCRIPTION="Generalized World Coordinate System" -HOMEPAGE="https://gwcs.readthedocs.io/en/latest/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~x86" -# Tests do not pass, reported upstream: -# https://github.com/spacetelescope/gwcs/issues/437 -RESTRICT=test - -BDEPEND="dev-python/setuptools_scm[${PYTHON_USEDEP}] - test? ( - dev-python/pytest-doctestplus[${PYTHON_USEDEP}] - ) -" - -RDEPEND=" - dev-python/asdf[${PYTHON_USEDEP}] - >=dev-python/astropy-4.1[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] -" - -# TODO: package stsci-rtd-theme -#distutils_enable_sphinx docs dev-python/sphinx-astropy dev-python/sphinx-automodapi dev-python/sphinx_rtd_theme -distutils_enable_tests pytest - -python_test() { - # discovers things in docs dir if we do not - # explicitly set it to run on the tests dir - pytest -vv gwcs/tests || die " Tests failed with ${EPYTHON}" -} diff --git a/dev-python/gwcs/metadata.xml b/dev-python/gwcs/metadata.xml index 4f4367037..d7b713ef5 100644 --- a/dev-python/gwcs/metadata.xml +++ b/dev-python/gwcs/metadata.xml @@ -5,4 +5,7 @@ <email>sci-astronomy@gentoo.org</email> <name>Gentoo Astronomy Project</name> </maintainer> + <upstream> + <remote-id type="pypi">gwcs</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/hdbscan/Manifest b/dev-python/hdbscan/Manifest index b162353da..7ffc42c8b 100644 --- a/dev-python/hdbscan/Manifest +++ b/dev-python/hdbscan/Manifest @@ -1,2 +1 @@ -DIST hdbscan-0.8.26.tar.gz 10776639 BLAKE2B 7f1cb7b479746e3ff262cce90d48cca42dccabc131a60300ae5448455260eb27387ab2eeeee19257930ee646d06df80fa2997cf1819da18178c5522a8a27a30c SHA512 7337f4246511d22e8e11308e7776aad6929f26674daecc1e174b01673782837815a40820a6565406315b1ae14ed059c4945810ac997abfde9e24abda352de622 DIST hdbscan-0.8.29.tar.gz 11666106 BLAKE2B de324386d7d2178f74ea958fa75e5eccb9dcdeba3d85cecce1150930e2d687caecbc79469de6ad62806c5bd860962bba57f27323c69f3abc6b0d4694a553656d SHA512 fd349c1c6c09f0288a9a2501eb7794fb03139c11261a835d90f1c9cd80955a4d8d075ff3864ddb9cfcbc204a3d0662011074bdb29b66b72d5469f76bc4f7ecca diff --git a/dev-python/hdbscan/hdbscan-0.8.26.ebuild b/dev-python/hdbscan/hdbscan-0.8.26.ebuild deleted file mode 100644 index 91e83eb87..000000000 --- a/dev-python/hdbscan/hdbscan-0.8.26.ebuild +++ /dev/null @@ -1,33 +0,0 @@ -# Copyright 2021-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..11} ) -DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 - -DESCRIPTION="A high performance implementation of HDBSCAN clustering." -HOMEPAGE="https://github.com/scikit-learn-contrib/hdbscan" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~x86" -IUSE="test" -RESTRICT="test" -# Tests fail, reported to upstream -# https://github.com/scikit-learn-contrib/hdbscan/issues/501 - -DEPEND="" -RDEPEND=" - dev-python/cython[${PYTHON_USEDEP}] - dev-python/joblib[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - dev-python/six[${PYTHON_USEDEP}] - sci-libs/scikit-learn[${PYTHON_USEDEP}] -" -BDEPEND="" - -distutils_enable_tests pytest diff --git a/dev-python/hdbscan/hdbscan-0.8.29.ebuild b/dev-python/hdbscan/hdbscan-0.8.29.ebuild index e13b6da0e..33947fd22 100644 --- a/dev-python/hdbscan/hdbscan-0.8.29.ebuild +++ b/dev-python/hdbscan/hdbscan-0.8.29.ebuild @@ -5,11 +5,10 @@ EAPI=8 PYTHON_COMPAT=( python3_{10..11} ) DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="A high performance implementation of HDBSCAN clustering." HOMEPAGE="https://github.com/scikit-learn-contrib/hdbscan" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" diff --git a/dev-python/hdf5storage/Manifest b/dev-python/hdf5storage/Manifest index dee5fa709..caea5df39 100644 --- a/dev-python/hdf5storage/Manifest +++ b/dev-python/hdf5storage/Manifest @@ -1,2 +1 @@ -DIST hdf5storage-0.1.17.tar.gz 91008 BLAKE2B 7956573a1b9531146f5e5509788a9894317e77afcc4c12faf9ba197744bc4a1e2cc28e063bb51f94bcebbc26d876edefdc2f113dbf4ad26d559d77cefcf8cc1d SHA512 5a0781ac93bfc486025022c04aa6d7253910194b2d4b5e00d2a396a5865e1eccb6bde1565c66dde5a9798d16441461c539586a7a67f039ca960bce1cdcb8bbd9 -DIST hdf5storage-0.1.18.tar.gz 91599 BLAKE2B 822dde832ab5abb0def1d6b478e6b02cbe5597b009a3be9c76f1d0583f44aa28bfc0cedb10eadac6619daabc08d4642815779e1380e69d601e8e55500cba595e SHA512 5c8df3768b3fca0cd600acff65b96faf29e517e2375ed2dd7c1a516f30929ec21c70a6c9dc8b17271d5643ea94ffa01e8ed9963a2fa161e2af14aab57851b59e +DIST hdf5storage-0.1.19.tar.gz 92294 BLAKE2B b4379e9c6b69af1c205072d0d8b29f6322c3271cc1f5e56ab81a4ec3c09db9f9ac107b912e4d74772253ade269db589ed4ac140cde6cfd95346de7fcdc6dc752 SHA512 0ea4068be1af2521bba3fba3b0b020c0faff64be487644c46350ef19f4f3997593af90438db5b0d9b80ac303ff99755a0f59504ad34cfa27f1bc8c7881f024ce diff --git a/dev-python/hdf5storage/hdf5storage-0.1.17.ebuild b/dev-python/hdf5storage/hdf5storage-0.1.17.ebuild deleted file mode 100644 index edafef12b..000000000 --- a/dev-python/hdf5storage/hdf5storage-0.1.17.ebuild +++ /dev/null @@ -1,24 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 - -DESCRIPTION="Read/write Python types to/from HDF5 files, including MATLAB v7.3 MAT files" -HOMEPAGE="https://github.com/frejanordsiek/hdf5storage" - -SRC_URI="https://github.com/frejanordsiek/hdf5storage/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" -KEYWORDS="~amd64 ~x86" - -LICENSE="BSD" -SLOT="0" - -RDEPEND=" - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/h5py[${PYTHON_USEDEP}] -" -DEPEND="${RDEPEND}" - -distutils_enable_tests nose diff --git a/dev-python/hdf5storage/hdf5storage-0.1.18.ebuild b/dev-python/hdf5storage/hdf5storage-0.1.19.ebuild index edafef12b..ab64fefbc 100644 --- a/dev-python/hdf5storage/hdf5storage-0.1.18.ebuild +++ b/dev-python/hdf5storage/hdf5storage-0.1.19.ebuild @@ -2,14 +2,15 @@ # Distributed under the terms of the GNU General Public License v2 EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 DESCRIPTION="Read/write Python types to/from HDF5 files, including MATLAB v7.3 MAT files" HOMEPAGE="https://github.com/frejanordsiek/hdf5storage" -SRC_URI="https://github.com/frejanordsiek/hdf5storage/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" +SRC_URI="https://github.com/frejanordsiek/hdf5storage/archive/refs/tags/v${PV}.tar.gz -> ${P}.tar.gz" KEYWORDS="~amd64 ~x86" LICENSE="BSD" @@ -21,4 +22,4 @@ RDEPEND=" " DEPEND="${RDEPEND}" -distutils_enable_tests nose +distutils_enable_tests pytest diff --git a/dev-python/hdf5storage/hdf5storage-9999.ebuild b/dev-python/hdf5storage/hdf5storage-9999.ebuild index f88ed9f94..1bcf35a57 100644 --- a/dev-python/hdf5storage/hdf5storage-9999.ebuild +++ b/dev-python/hdf5storage/hdf5storage-9999.ebuild @@ -2,7 +2,8 @@ # Distributed under the terms of the GNU General Public License v2 EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 @@ -28,4 +29,4 @@ RDEPEND=" " DEPEND="${RDEPEND}" -distutils_enable_tests nose +distutils_enable_tests pytest diff --git a/dev-python/hdmf-zarr/Manifest b/dev-python/hdmf-zarr/Manifest new file mode 100644 index 000000000..6b7d2418b --- /dev/null +++ b/dev-python/hdmf-zarr/Manifest @@ -0,0 +1 @@ +DIST hdmf_zarr-0.5.0.tar.gz 3095566 BLAKE2B f824b480bb99ffbf495b18505d561a3511af60f654df66f89c2c5c081ba49889512e29cb31b6eb617ef7abac58472fa4b6d9f23cd9c33be436a77ceb2d54130a SHA512 205dd5b2de1a403fc7098e7ba26e4bbba1949b8f50641173ea614011e821a77a461ab255f19afefddcd5fa019ed0e7c047fd7c940a2d09a1f63c5de5f1ac50cb diff --git a/dev-python/hdmf-zarr/files/hdmf-zarr-0.5.0-coverage.patch b/dev-python/hdmf-zarr/files/hdmf-zarr-0.5.0-coverage.patch new file mode 100644 index 000000000..d82c30960 --- /dev/null +++ b/dev-python/hdmf-zarr/files/hdmf-zarr-0.5.0-coverage.patch @@ -0,0 +1,28 @@ +diff --git a/pyproject.toml b/pyproject.toml +index 4008b3b..40e281a 100644 +--- a/pyproject.toml ++++ b/pyproject.toml +@@ -62,9 +62,6 @@ exclude = [".git_archival.txt"] + [tool.hatch.build.targets.wheel] + packages = ["src/hdmf_zarr"] + +-[tool.pytest.ini_options] +-addopts = "--cov --cov-report html" +- + [tool.codespell] + skip = "htmlcov,.git,.mypy_cache,.pytest_cache,.coverage,*.pdf,*.svg,venvs,.tox,./docs/_build/*,*.ipynb" + ignore-words-list = "datas" +diff --git a/tox.ini b/tox.ini +index 720a97f..66d0df3 100644 +--- a/tox.ini ++++ b/tox.ini +@@ -28,8 +28,7 @@ commands = + [testenv:localcoverage] + basepython = python3.11 + commands = +- pytest --cov=hdmf_zarr +- coverage html -d tests/coverage/htmlcov ++ pytest + + # Test with python 3.11; pinned dev and optional reqs + [testenv:py311-optional] diff --git a/dev-python/hdmf-zarr/hdmf-zarr-0.5.0.ebuild b/dev-python/hdmf-zarr/hdmf-zarr-0.5.0.ebuild new file mode 100644 index 000000000..692197867 --- /dev/null +++ b/dev-python/hdmf-zarr/hdmf-zarr-0.5.0.ebuild @@ -0,0 +1,32 @@ +# Copyright 1999-2022 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=hatchling + +inherit distutils-r1 pypi + +DESCRIPTION="Zarr I/O backend for HDMF" +HOMEPAGE="https://github.com/hdmf-dev/hdmf-zarr" +#SRC_URI="https://github.com/hdmf-dev/hdmf-zarr/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" +KEYWORDS="~amd64 ~x86" + +LICENSE="BSD" +SLOT="0" + +RDEPEND=" + dev-python/hdmf[${PYTHON_USEDEP}] + dev-python/numcodecs[${PYTHON_USEDEP}] + dev-python/numpy[${PYTHON_USEDEP}] + dev-python/pynwb[${PYTHON_USEDEP}] + dev-python/threadpoolctl[${PYTHON_USEDEP}] + dev-python/zarr[${PYTHON_USEDEP}] +" +DEPEND="${RDEPEND}" + +PATCHES=( + "${FILESDIR}/${P}-coverage.patch" +) + +distutils_enable_tests pytest diff --git a/dev-python/numba/metadata.xml b/dev-python/hdmf-zarr/metadata.xml index 63bc398e0..1ced471a1 100644 --- a/dev-python/numba/metadata.xml +++ b/dev-python/hdmf-zarr/metadata.xml @@ -2,15 +2,15 @@ <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> <pkgmetadata> <maintainer type="person"> - <email>gentoo@aisha.cc</email> - <name>Aisha Tammy</name> + <email>gentoo@chymera.eu</email> + <name>Horea Christian</name> </maintainer> <maintainer type="project"> <email>sci@gentoo.org</email> <name>Gentoo Science Project</name> </maintainer> <upstream> - <remote-id type="github">numba/numba</remote-id> - <remote-id type="pypi">numba</remote-id> + <remote-id type="github">hdmf-dev/hdmf-zarr</remote-id> + <remote-id type="pypi">hdmf-zarr</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/hdmf/Manifest b/dev-python/hdmf/Manifest index 3b3f4cf45..204753b4e 100644 --- a/dev-python/hdmf/Manifest +++ b/dev-python/hdmf/Manifest @@ -1,4 +1 @@ -DIST hdmf-3.3.2.tar.gz 312991 BLAKE2B 6765f1543e73746fd07279104d70ccf069795140781375427b14586d4ab0d433f7769051436618791db7d2eb09cf4515d983c0232c76aa8a67bacd65b9e9bc2a SHA512 b769216b048df8f9fb220c38053d2f1c7976b0ad9cfcac5f36656fcf5cabfab25f910c9a1fec7fbb20ad919bf4c791751e92e485e02b3e26314e7f396e45549b -DIST hdmf-3.4.7.tar.gz 319714 BLAKE2B 189b7629b818371bea002f4c340149e5807a5da9e2b27301574b74c50eda575b711ffbffac997ee2c2d25c30c926ada13d84319e054bf796e5bd74516d84be21 SHA512 c5b6b9dfeace0ea140bcd2cf822f9b45007ea7acefd6eca950b4b023731e31b8ebc592da0e3633e41a41e377a33565f6f5c04a88852a190816c95e89b49efa02 -DIST hdmf-3.5.0.tar.gz 324330 BLAKE2B 256fd974230fb750c5329fbf2cece0f151b6d7366aea26ffd08bafff0601ba6fde789dc906f4de5dbb1a02e9a0d21965a17eda76083df03d3a3afdacf9a7ba70 SHA512 8e1244f70c75f01d18d2d09b6c481efcab59bd02e69392f3da46d2e4541073fccaa9606907cee1ca0873221011e9ce8040668f2affd2ef4ee98fd35bd6356ff4 -DIST hdmf-3.5.1.tar.gz 324778 BLAKE2B b82d2389466be8e8b4acd843beaafe69b731a38045abab0a741fb7a6143e8ed8f60d570603629c7485f7f7a261047bcc9e21ebeb61802e6d81b35aa276d09af0 SHA512 1545f0c1c6b2bac66437941e631adaa45a42c18436ed68d5ee21a7cafe950a85e2843a4b2258b3f5c0ece5fd6d3ef6f0fd596a83bacd208750bfb5b78a1d5815 +DIST hdmf-3.13.0.tar.gz 15855926 BLAKE2B 8eb386540768a83954745c02f7142d2a0b466ef670baaf13a1dfee0ce02261f0f89a9b173dfb8d2673d1f538c35e800117f6f0fe2ca77e5ca6a94b01e9908917 SHA512 5d6f97abb28b46136b3a62f915f8c14cc48e49c1ec3d44e3d863b1c3e7aebb1cfea428b77311ca51dbf5ef9a1e529e73cdb477d863e3d0cd6641fbf79a043f20 diff --git a/dev-python/hdmf/files/hdmf-3.1.1-versions.patch b/dev-python/hdmf/files/hdmf-3.1.1-versions.patch deleted file mode 100644 index 58822989d..000000000 --- a/dev-python/hdmf/files/hdmf-3.1.1-versions.patch +++ /dev/null @@ -1,21 +0,0 @@ ---- a/setup.py 2022-01-31 02:48:24.645837186 -0500 -+++ b/setup.py 2022-01-31 02:49:55.066949247 -0500 -@@ -12,12 +12,12 @@ - schema_dir = 'common/hdmf-common-schema/common' - - reqs = [ -- 'h5py>=2.10,<4', -- 'numpy>=1.16,<1.22', -- 'scipy>=1.1,<2', -- 'pandas>=1.0.5,<2', -- 'ruamel.yaml>=0.16,<1', -- 'jsonschema>=2.6.0,<4', -+ 'h5py', -+ 'numpy', -+ 'scipy', -+ 'pandas', -+ 'ruamel.yaml', -+ 'jsonschema', - 'setuptools', - ] - diff --git a/dev-python/hdmf/files/hdmf-3.11.0-no_test_coverage.patch b/dev-python/hdmf/files/hdmf-3.11.0-no_test_coverage.patch new file mode 100644 index 000000000..e44a68902 --- /dev/null +++ b/dev-python/hdmf/files/hdmf-3.11.0-no_test_coverage.patch @@ -0,0 +1,10 @@ +--- a/pyproject.toml 2020-02-01 19:00:00.000000000 -0500 ++++ b/pyproject.toml 2023-12-11 12:00:19.368474488 -0500 +@@ -76,7 +76,6 @@ + # verbose = 1 + + [tool.pytest.ini_options] +-addopts = "--cov --cov-report html" + norecursedirs = "tests/unit/helpers" + + [tool.codespell] diff --git a/dev-python/hdmf/files/hdmf-3.3.2-versions.patch b/dev-python/hdmf/files/hdmf-3.3.2-versions.patch deleted file mode 100644 index aaf62e115..000000000 --- a/dev-python/hdmf/files/hdmf-3.3.2-versions.patch +++ /dev/null @@ -1,20 +0,0 @@ ---- a/setup.py 2022-01-31 02:48:24.645837186 -0500 -+++ b/setup.py 2022-01-31 02:49:55.066949247 -0500 -@@ -18,12 +18,12 @@ - schema_dir = 'common/hdmf-common-schema/common' - - reqs = [ -- 'h5py>=2.10,<4', -- 'jsonschema>=2.6.0,<5', -- 'numpy>=1.16,<1.23', -- 'pandas>=1.0.5,<2', -- 'ruamel.yaml>=0.16,<1', -- 'scipy>=1.1,<2', -+ 'h5py', -+ 'jsonschema', -+ 'numpy', -+ 'pandas', -+ 'ruamel.yaml', -+ 'scipy', - 'setuptools', - ] diff --git a/dev-python/hdmf/files/hdmf-3.5.0-open_links.patch b/dev-python/hdmf/files/hdmf-3.5.0-open_links.patch deleted file mode 100644 index 544bf8f4b..000000000 --- a/dev-python/hdmf/files/hdmf-3.5.0-open_links.patch +++ /dev/null @@ -1,170 +0,0 @@ -From 184b4a6711c60d90e073828ddcd3a6d328ee6a5e Mon Sep 17 00:00:00 2001 -From: Oliver Ruebel <oruebel@lbl.gov> -Date: Wed, 18 Jan 2023 16:05:57 -0800 -Subject: [PATCH 1/5] Fix #817 Check that __open_links exists before trying to - clsoe links - ---- - src/hdmf/backends/hdf5/h5tools.py | 13 +++++++++---- - 1 file changed, 9 insertions(+), 4 deletions(-) - -diff --git a/src/hdmf/backends/hdf5/h5tools.py b/src/hdmf/backends/hdf5/h5tools.py -index ba8946c60..acf2061ad 100644 ---- a/src/hdmf/backends/hdf5/h5tools.py -+++ b/src/hdmf/backends/hdf5/h5tools.py -@@ -746,10 +746,15 @@ def close_linked_files(self): - not, which prevents the linked-to file from being deleted or truncated. Use this method to close all opened, - linked-to files. - """ -- for obj in self.__open_links: -- if obj: -- obj.file.close() -- self.__open_links = [] -+ # Make sure -+ try: -+ for obj in self.__open_links: -+ if obj: -+ obj.file.close() -+ except AttributeError: # In case that self.__open_links does not exist on delete -+ pass -+ finally: -+ self.__open_links = [] - - @docval({'name': 'builder', 'type': GroupBuilder, 'doc': 'the GroupBuilder object representing the HDF5 file'}, - {'name': 'link_data', 'type': bool, - -From c12ea0851f4632c59ecdd626556bee6ddc22b632 Mon Sep 17 00:00:00 2001 -From: Oliver Ruebel <oruebel@lbl.gov> -Date: Wed, 18 Jan 2023 17:32:20 -0800 -Subject: [PATCH 2/5] Catch possible missing HDF5IO.__file error - ---- - src/hdmf/backends/hdf5/h5tools.py | 19 +++++++++++++++---- - 1 file changed, 15 insertions(+), 4 deletions(-) - -diff --git a/src/hdmf/backends/hdf5/h5tools.py b/src/hdmf/backends/hdf5/h5tools.py -index acf2061ad..75044a64a 100644 ---- a/src/hdmf/backends/hdf5/h5tools.py -+++ b/src/hdmf/backends/hdf5/h5tools.py -@@ -736,8 +736,15 @@ def close(self, close_links=True): - """ - if close_links: - self.close_linked_files() -- if self.__file is not None: -- self.__file.close() -+ try: -+ if self.__file is not None: -+ self.__file.close() -+ except AttributeError: -+ # Do not do anything in case that self._file does not exist. This -+ # may happen in case that an error occurs before HDF5IO has been fully -+ # setup in __init__, e.g,. if a child class such as NWBHDF5IO raises -+ # and error before self.__file has been created -+ warnings.warn("HDF5IO was not fully initialized before close. Missing self.__file") - - def close_linked_files(self): - """Close all opened, linked-to files. -@@ -751,8 +758,12 @@ def close_linked_files(self): - for obj in self.__open_links: - if obj: - obj.file.close() -- except AttributeError: # In case that self.__open_links does not exist on delete -- pass -+ except AttributeError: -+ # Do not do anything in case that self.__open_links does not exist. This -+ # may happen in case that an error occurs before HDF5IO has been fully -+ # setup in __init__, e.g,. if a child class such as NWBHDF5IO raises -+ # and error before self.__open_links has been created. -+ warnings.warn("HDF5IO was not fully initialized before close. Missing self.__open_links.") - finally: - self.__open_links = [] - - -From a43e65d13726936aa2ab49169e265a42c5a1be7f Mon Sep 17 00:00:00 2001 -From: Oliver Ruebel <oruebel@lbl.gov> -Date: Wed, 18 Jan 2023 17:32:55 -0800 -Subject: [PATCH 3/5] Add unit test for case where HDF5IO.close is called - before HDF5IO.__init__ is complete - ---- - tests/unit/test_io_hdf5_h5tools.py | 34 ++++++++++++++++++++++++++++++ - 1 file changed, 34 insertions(+) - -diff --git a/tests/unit/test_io_hdf5_h5tools.py b/tests/unit/test_io_hdf5_h5tools.py -index 8c03e72f8..0f2f81e31 100644 ---- a/tests/unit/test_io_hdf5_h5tools.py -+++ b/tests/unit/test_io_hdf5_h5tools.py -@@ -826,6 +826,40 @@ def test_constructor(self): - self.assertEqual(io.manager, self.manager) - self.assertEqual(io.source, self.path) - -+ def test_delete_with_incomplete_construction_missing_file(self): -+ """ -+ Here we test what happens when close is called before HDF5IO.__init__ has -+ bee completed. In this case self.__file is missing -+ """ -+ class MyHDF5IO(HDF5IO): -+ def __init__(self): -+ raise ValueError("test error") -+ with self.assertWarnsWith(warn_type=UserWarning, -+ exc_msg="HDF5IO was not fully initialized before close. Missing self.__file"): -+ try: -+ with MyHDF5IO() as _: -+ pass -+ except ValueError: -+ pass -+ -+ def test_delete_with_incomplete_construction_missing_open_files(self): -+ """ -+ Here we test what happens when close is called before HDF5IO.__init__ has -+ bee completed. In this case self.__open_file is missing -+ """ -+ -+ class MyHDF5IO(HDF5IO): -+ def __init__(self): -+ raise ValueError("test error") -+ -+ with self.assertWarnsWith(warn_type=UserWarning, -+ exc_msg="HDF5IO was not fully initialized before close. Missing self.__open_links."): -+ try: -+ with MyHDF5IO() as _: -+ pass -+ except ValueError: -+ pass -+ - def test_set_file_mismatch(self): - self.file_obj = File(get_temp_filepath(), 'w') - err_msg = ("You argued %s as this object's path, but supplied a file with filename: %s" - -From f79b3a26bdfaee22b8d24bd3094c93be77e5595f Mon Sep 17 00:00:00 2001 -From: Oliver Ruebel <oruebel@lbl.gov> -Date: Thu, 19 Jan 2023 13:54:33 -0800 -Subject: [PATCH 5/5] Move init of __file and __openlink up to prevent warning - during close - ---- - src/hdmf/backends/hdf5/h5tools.py | 4 +++- - 1 file changed, 3 insertions(+), 1 deletion(-) - -diff --git a/src/hdmf/backends/hdf5/h5tools.py b/src/hdmf/backends/hdf5/h5tools.py -index 75044a64a..44b9c612c 100644 ---- a/src/hdmf/backends/hdf5/h5tools.py -+++ b/src/hdmf/backends/hdf5/h5tools.py -@@ -55,6 +55,9 @@ def __init__(self, **kwargs): - path, manager, mode, comm, file_obj, driver = popargs('path', 'manager', 'mode', 'comm', 'file', 'driver', - kwargs) - -+ self.__open_links = [] # keep track of other files opened from links in this file -+ self.__file = None # This will be set below, but set to None first in case an error occurs and we need to close -+ - if path is None and file_obj is None: - raise ValueError("You must supply either a path or a file.") - -@@ -89,7 +92,6 @@ def __init__(self, **kwargs): - self.__dci_queue = HDF5IODataChunkIteratorQueue() # a queue of DataChunkIterators that need to be exhausted - ObjectMapper.no_convert(Dataset) - self._written_builders = WriteStatusTracker() # track which builders were written (or read) by this IO object -- self.__open_links = [] # keep track of other files opened from links in this file - - @property - def comm(self): diff --git a/dev-python/hdmf/hdmf-3.4.7.ebuild b/dev-python/hdmf/hdmf-3.13.0.ebuild index 2d05ea71a..7068afb01 100644 --- a/dev-python/hdmf/hdmf-3.4.7.ebuild +++ b/dev-python/hdmf/hdmf-3.13.0.ebuild @@ -3,13 +3,13 @@ EAPI=8 -DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_{10..11} ) -inherit distutils-r1 +DISTUTILS_USE_PEP517=hatchling +PYTHON_COMPAT=( python3_{10..12} ) +inherit distutils-r1 pypi DESCRIPTION="The Hierarchical Data Modeling Framework" HOMEPAGE="https://github.com/hdmf-dev/hdmf" -SRC_URI="https://github.com/hdmf-dev/hdmf/releases/download/${PV}/${P}.tar.gz" +SRC_URI="$(pypi_sdist_url hdmf)" SLOT="0" LICENSE="BSD" @@ -23,10 +23,9 @@ RDEPEND=" dev-python/ruamel-yaml[${PYTHON_USEDEP}] dev-python/scipy[${PYTHON_USEDEP}] " -BDEPEND="" -#PATCHES=( -# "${FILESDIR}/${P}-versions.patch" -#) +PATCHES=( + "${FILESDIR}/${PN}-3.11.0-no_test_coverage.patch" + ) distutils_enable_tests pytest diff --git a/dev-python/hdmf/hdmf-3.3.2-r1.ebuild b/dev-python/hdmf/hdmf-3.3.2-r1.ebuild deleted file mode 100644 index 0efdd8f92..000000000 --- a/dev-python/hdmf/hdmf-3.3.2-r1.ebuild +++ /dev/null @@ -1,32 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_{10..11} ) -inherit distutils-r1 - -DESCRIPTION="The Hierarchical Data Modeling Framework" -HOMEPAGE="https://github.com/hdmf-dev/hdmf" -SRC_URI="https://github.com/hdmf-dev/hdmf/releases/download/${PV}/${P}.tar.gz" - -SLOT="0" -LICENSE="BSD" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - dev-python/h5py[${PYTHON_USEDEP}] - dev-python/jsonschema[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/pandas[${PYTHON_USEDEP}] - dev-python/ruamel-yaml[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - " -BDEPEND="" - -PATCHES=( - "${FILESDIR}/${P}-versions.patch" -) - -distutils_enable_tests pytest diff --git a/dev-python/hdmf/hdmf-3.5.0_p1.ebuild b/dev-python/hdmf/hdmf-3.5.0_p1.ebuild deleted file mode 100644 index 053831f8d..000000000 --- a/dev-python/hdmf/hdmf-3.5.0_p1.ebuild +++ /dev/null @@ -1,37 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_{10..11} ) -inherit distutils-r1 - -MY_PV="${PV//_p*/}" -MY_P="${PN}-${MY_PV}" - -DESCRIPTION="The Hierarchical Data Modeling Framework" -HOMEPAGE="https://github.com/hdmf-dev/hdmf" -SRC_URI="https://github.com/hdmf-dev/hdmf/releases/download/${MY_PV}/${MY_P}.tar.gz" - -SLOT="0" -LICENSE="BSD" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - dev-python/h5py[${PYTHON_USEDEP}] - dev-python/jsonschema[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/pandas[${PYTHON_USEDEP}] - dev-python/ruamel-yaml[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - " -BDEPEND="" - -PATCHES=( - "${FILESDIR}/${MY_P}-open_links.patch" -) - -distutils_enable_tests pytest - -S="${WORKDIR}/${MY_P}" diff --git a/dev-python/hdmf/hdmf-3.5.1.ebuild b/dev-python/hdmf/hdmf-3.5.1.ebuild deleted file mode 100644 index 2d05ea71a..000000000 --- a/dev-python/hdmf/hdmf-3.5.1.ebuild +++ /dev/null @@ -1,32 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_{10..11} ) -inherit distutils-r1 - -DESCRIPTION="The Hierarchical Data Modeling Framework" -HOMEPAGE="https://github.com/hdmf-dev/hdmf" -SRC_URI="https://github.com/hdmf-dev/hdmf/releases/download/${PV}/${P}.tar.gz" - -SLOT="0" -LICENSE="BSD" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - dev-python/h5py[${PYTHON_USEDEP}] - dev-python/jsonschema[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/pandas[${PYTHON_USEDEP}] - dev-python/ruamel-yaml[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - " -BDEPEND="" - -#PATCHES=( -# "${FILESDIR}/${P}-versions.patch" -#) - -distutils_enable_tests pytest diff --git a/dev-python/heudiconv/Manifest b/dev-python/heudiconv/Manifest index 55669a6ad..fe38a3307 100644 --- a/dev-python/heudiconv/Manifest +++ b/dev-python/heudiconv/Manifest @@ -1 +1,2 @@ -DIST heudiconv-0.11.6.tar.gz 9070519 BLAKE2B df6c66080bbaa89f74490f136674eabd64e9b2844ae7daef82ef4b4ef8c42ed16d3ae3b790534cc13ec121e63de8486838eb7e7becbcdbffff2df6e8bd2bd54c SHA512 c4d1f0caaed9713360ad2614bc276f2cc0e356c54b1b37c8912d762db429313c75d0f081886cb6ea0b8fd171bc5fc5a338fd3b670a8b10a3fbed0c6f9dfb7477 +DIST heudiconv-0.13.0.tar.gz 9158053 BLAKE2B 9f87fbcd5ea8ccca39cc029f1bdd84906412a22e5d18e2afe280d19737f0dda4c03248ba93f58c06aae4b15366477e8a5d1c41d09d1b1d3a10ff673aaa050e26 SHA512 b867ee0a60ad98099a3802e290ebb24b858befbd45e93772fafe437a87ea867c5076680ea3ed7856272397267c740ef2eade9f64ffc0d4216d4a37be39add158 +DIST heudiconv-1.0.0.tar.gz 9158631 BLAKE2B af5b3dee2448a025a231fad0ac9692b13d431288ea0ca19b4919d9ae83c86a7c72cf11f9bd3a0ec6b18259d2f8e8cecf9372a0fae605ecb5e9cac0bd4975693a SHA512 165bd814e3c7f25b51ed8884bddde45b82dc226ee93af5984b822aa53ad5e7504aae57088cd1f777c62835669e8816d95dbf84de7fb379038308dca7871d8739 diff --git a/dev-python/heudiconv/files/pynwb-2.0.0-versions.patch b/dev-python/heudiconv/files/pynwb-2.0.0-versions.patch deleted file mode 100644 index d09c50594..000000000 --- a/dev-python/heudiconv/files/pynwb-2.0.0-versions.patch +++ /dev/null @@ -1,21 +0,0 @@ -diff --git a/setup.py b/tmp/setup.py -index 39e75824..f7948f64 100755 ---- a/setup.py -+++ b/setup.py -@@ -19,11 +19,11 @@ print('found these packages:', pkgs) - schema_dir = 'nwb-schema/core' - - reqs = [ -- 'h5py>=2.9,<4', -- 'hdmf>=3.1.1,<4', -- 'numpy>=1.16,<1.22', -- 'pandas>=1.0.5,<2', -- 'python-dateutil>=2.7,<3', -+ 'h5py', -+ 'hdmf', -+ 'numpy', -+ 'pandas', -+ 'python-dateutil', - 'setuptools' - ] - diff --git a/dev-python/heudiconv/files/pynwb-2.1.0-versions.patch b/dev-python/heudiconv/files/pynwb-2.1.0-versions.patch deleted file mode 100644 index 8c816d226..000000000 --- a/dev-python/heudiconv/files/pynwb-2.1.0-versions.patch +++ /dev/null @@ -1,21 +0,0 @@ -diff --git a/setup.py b/tmp/setup.py -index 39e75824..f7948f64 100755 ---- a/setup.py -+++ b/setup.py -@@ -19,11 +19,11 @@ print('found these packages:', pkgs) - schema_dir = 'nwb-schema/core' - - reqs = [ -- 'h5py>=2.10,<4', -- 'hdmf>=3.3.2,<4', -- 'numpy>=1.16,<1.23', -- 'pandas>=1.0.5,<2', -- 'python-dateutil>=2.7,<3', -+ 'h5py', -+ 'hdmf', -+ 'numpy', -+ 'pandas', -+ 'python-dateutil', - 'setuptools' - ] - diff --git a/dev-python/heudiconv/files/pynwb-2.2.0-versions.patch b/dev-python/heudiconv/files/pynwb-2.2.0-versions.patch deleted file mode 100644 index 6141f629a..000000000 --- a/dev-python/heudiconv/files/pynwb-2.2.0-versions.patch +++ /dev/null @@ -1,21 +0,0 @@ -diff --git a/setup.py b/tmp/setup.py -index 39e75824..f7948f64 100755 ---- a/setup.py -+++ b/setup.py -@@ -19,11 +19,11 @@ print('found these packages:', pkgs) - schema_dir = 'nwb-schema/core' - - reqs = [ -- 'h5py>=2.10,<4', -- 'hdmf>=3.4.2,<4', -- 'numpy>=1.16,<1.24', -- 'pandas>=1.1.5,<2', -- 'python-dateutil>=2.7.3,<3', -+ 'h5py', -+ 'hdmf', -+ 'numpy', -+ 'pandas', -+ 'python-dateutil', - 'setuptools' - ] - diff --git a/dev-python/heudiconv/heudiconv-0.11.6.ebuild b/dev-python/heudiconv/heudiconv-0.11.6.ebuild deleted file mode 100644 index 6c3c6b59d..000000000 --- a/dev-python/heudiconv/heudiconv-0.11.6.ebuild +++ /dev/null @@ -1,51 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) -inherit distutils-r1 - -DESCRIPTION="Flexible DICOM conversion to structured directory layouts" -HOMEPAGE=" - https://github.com/nipy/heudiconv - https://heudiconv.readthedocs.io/en/latest/ -" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -SLOT="0" -LICENSE="Apache-2.0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - sci-libs/nibabel[${PYTHON_USEDEP}] - sci-libs/pydicom[${PYTHON_USEDEP}] - sci-libs/nipype[${PYTHON_USEDEP}] - sci-biology/dcmstack[${PYTHON_USEDEP}] - dev-python/filelock[${PYTHON_USEDEP}] - dev-python/versioningit[${PYTHON_USEDEP}] - " -BDEPEND=" - test? ( - dev-python/six[${PYTHON_USEDEP}] - ) -" - -# Reported upstream: -# https://github.com/nipy/heudiconv/issues/627 -EPYTEST_DESELECT=( - "heudiconv/tests/test_convert.py::test_b0dwi_for_fmap" - "heudiconv/tests/test_dicoms.py::test_embed_dicom_and_nifti_metadata" - "heudiconv/tests/test_heuristics.py::test_reproin_largely_smoke" - "heudiconv/tests/test_heuristics.py::test_scans_keys_reproin" - "heudiconv/tests/test_heuristics.py::test_scout_conversion" - "heudiconv/tests/test_heuristics.py::test_notop[bidsoptions0]" - "heudiconv/tests/test_heuristics.py::test_notop[bidsoptions1]" - "heudiconv/tests/test_heuristics.py::test_phoenix_doc_conversion" - "heudiconv/tests/test_main.py::test_prepare_for_datalad" - "heudiconv/tests/test_main.py::test_cache" - "heudiconv/tests/test_regression.py::test_grouping[merged]" -) - -distutils_enable_tests pytest diff --git a/dev-python/heudiconv/heudiconv-0.13.0.ebuild b/dev-python/heudiconv/heudiconv-0.13.0.ebuild new file mode 100644 index 000000000..7f7db0b0e --- /dev/null +++ b/dev-python/heudiconv/heudiconv-0.13.0.ebuild @@ -0,0 +1,42 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..11} ) +inherit distutils-r1 pypi + +DESCRIPTION="Flexible DICOM conversion to structured directory layouts" +HOMEPAGE=" + https://github.com/nipy/heudiconv + https://heudiconv.readthedocs.io/en/latest/ +" + +SLOT="0" +LICENSE="Apache-2.0" +KEYWORDS="~amd64 ~x86" + +RDEPEND=" + dev-python/filelock[${PYTHON_USEDEP}] + dev-python/versioningit[${PYTHON_USEDEP}] + sci-biology/dcm2niix + sci-biology/dcmstack[${PYTHON_USEDEP}] + sci-libs/nibabel[${PYTHON_USEDEP}] + sci-libs/nipype[${PYTHON_USEDEP}] + sci-libs/pydicom[${PYTHON_USEDEP}] + " +BDEPEND=" + test? ( + dev-python/mock[${PYTHON_USEDEP}] + dev-python/six[${PYTHON_USEDEP}] + ) +" + +# Reported upstream: +# https://github.com/nipy/heudiconv/issues/679 +EPYTEST_DESELECT=( + heudiconv/tests/test_main.py::test_prepare_for_datalad +) + +distutils_enable_tests pytest diff --git a/dev-python/heudiconv/heudiconv-1.0.0.ebuild b/dev-python/heudiconv/heudiconv-1.0.0.ebuild new file mode 100644 index 000000000..7f7db0b0e --- /dev/null +++ b/dev-python/heudiconv/heudiconv-1.0.0.ebuild @@ -0,0 +1,42 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..11} ) +inherit distutils-r1 pypi + +DESCRIPTION="Flexible DICOM conversion to structured directory layouts" +HOMEPAGE=" + https://github.com/nipy/heudiconv + https://heudiconv.readthedocs.io/en/latest/ +" + +SLOT="0" +LICENSE="Apache-2.0" +KEYWORDS="~amd64 ~x86" + +RDEPEND=" + dev-python/filelock[${PYTHON_USEDEP}] + dev-python/versioningit[${PYTHON_USEDEP}] + sci-biology/dcm2niix + sci-biology/dcmstack[${PYTHON_USEDEP}] + sci-libs/nibabel[${PYTHON_USEDEP}] + sci-libs/nipype[${PYTHON_USEDEP}] + sci-libs/pydicom[${PYTHON_USEDEP}] + " +BDEPEND=" + test? ( + dev-python/mock[${PYTHON_USEDEP}] + dev-python/six[${PYTHON_USEDEP}] + ) +" + +# Reported upstream: +# https://github.com/nipy/heudiconv/issues/679 +EPYTEST_DESELECT=( + heudiconv/tests/test_main.py::test_prepare_for_datalad +) + +distutils_enable_tests pytest diff --git a/dev-python/hist/Manifest b/dev-python/hist/Manifest new file mode 100644 index 000000000..722ab9aa8 --- /dev/null +++ b/dev-python/hist/Manifest @@ -0,0 +1 @@ +DIST hist-2.7.2.tar.gz 991866 BLAKE2B 6785114e1a5b3e38b9917c5d8b660e6d03dbe56d7a3238c971686ffc03ec1e9c6361ea6ed73ed61b10a4074b13d4ad785b676a61a856069ba23789985949787e SHA512 92a320a80509eaeaa496c2713b349e3b1442c46a7aeda04e362fdd692aea3f43f06e5bdb35293ca70f9b24536c24494fa1c806e9f9e8573559c13abeee22c4ce diff --git a/dev-python/hist/hist-2.7.2.ebuild b/dev-python/hist/hist-2.7.2.ebuild new file mode 100644 index 000000000..082844a5f --- /dev/null +++ b/dev-python/hist/hist-2.7.2.ebuild @@ -0,0 +1,26 @@ +EAPI=8 + +PYTHON_COMPAT=( python3_{10..12} ) +DISTUTILS_USE_PEP517=hatchling +SETUPTOOLS_SCM_PRETEND_VERSION=${PV} +inherit distutils-r1 pypi + +DESCRIPTION="Histogramming for analysis powered by boost-histogram " +HOMEPAGE="https://github.com/scikit-hep/hist" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64" + +RDEPEND=" + >=dev-python/boost-histogram-1.3.1[${PYTHON_USEDEP}] + >=dev-python/histoprint-2.2.0[${PYTHON_USEDEP}] + >=dev-python/numpy-1.14.5[${PYTHON_USEDEP}] +" +BDEPEND=" + dev-python/hatch-vcs[${PYTHON_USEDEP}] +" + +RESTRICT="test" +# needs mplhep and dask_histogram ... +#distutils_enable_tests pytest diff --git a/dev-python/matrix2latex/metadata.xml b/dev-python/hist/metadata.xml index 744e5412e..566083fe3 100644 --- a/dev-python/matrix2latex/metadata.xml +++ b/dev-python/hist/metadata.xml @@ -1,19 +1,19 @@ <?xml version="1.0" encoding="UTF-8"?> <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> <pkgmetadata> - <maintainer type="person"> - <email>gentoo@chymera.eu</email> - <name>Horea Christian</name> - </maintainer> <maintainer type="project"> <email>sci@gentoo.org</email> <name>Gentoo Science Project</name> </maintainer> + <maintainer type="person"> + <email>alexander@neuwirth-informatik.de</email> + <name>Alexander Puck Neuwirth</name> + </maintainer> <longdescription lang="en"> - A tool for converting Python or MATLAB matrices to LaTeX tables, that - can optionally create self-sustained LATeX documents and compile them. + Hist is an analyst-friendly front-end for boost-histogram, designed for Python 3.7+ (3.6 users get version 2.4) </longdescription> <upstream> - <remote-id type="github">TheChymera/matrix2latex</remote-id> + <remote-id type="pypi">hist</remote-id> + <remote-id type="github">scikit-hep/hist</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/histoprint/Manifest b/dev-python/histoprint/Manifest new file mode 100644 index 000000000..2914a2419 --- /dev/null +++ b/dev-python/histoprint/Manifest @@ -0,0 +1 @@ +DIST histoprint-2.4.0.tar.gz 359154 BLAKE2B f10abcff02875f1a27b31256c5daf00500e0177986052f3fc9b013a0be0f63daf58f9d9b7bf2b6b5510758e080a118c6ad07801b055019e7e226ee631da57154 SHA512 bbf7c90acb66c298588304a15c7ae3ec0536fb01a468b4aa7b944115e242a0ef3e2ef21c181e8476845f5d7611a944f43de0c9cf80faeab2ddbb8422432e2fa6 diff --git a/dev-python/histoprint/histoprint-2.4.0.ebuild b/dev-python/histoprint/histoprint-2.4.0.ebuild new file mode 100644 index 000000000..b6395b898 --- /dev/null +++ b/dev-python/histoprint/histoprint-2.4.0.ebuild @@ -0,0 +1,20 @@ +EAPI=8 + +PYTHON_COMPAT=( python3_{10..12} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 pypi + +DESCRIPTION="Pretty print histograms to the console" +HOMEPAGE="https://github.com/scikit-hep/histoprint" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64" + +RDEPEND=" + dev-python/numpy[${PYTHON_USEDEP}] + >=dev-python/click-7.0.0[${PYTHON_USEDEP}] + >=dev-python/uhi-0.2.1[${PYTHON_USEDEP}] +" + +distutils_enable_tests pytest diff --git a/dev-python/histoprint/metadata.xml b/dev-python/histoprint/metadata.xml new file mode 100644 index 000000000..78373f05f --- /dev/null +++ b/dev-python/histoprint/metadata.xml @@ -0,0 +1,19 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <maintainer type="person"> + <email>alexander@neuwirth-informatik.de</email> + <name>Alexander Puck Neuwirth</name> + </maintainer> + <longdescription lang="en"> + Histoprint uses a mix of terminal color codes and Unicode trickery (i.e. combining characters) to plot overlaying histograms. Some terminals are not able to display Unicode combining characters correctly. Histoprint can still be used in those terminals, but the character set needs to be constrained to the non-combining ones (see below). + </longdescription> + <upstream> + <remote-id type="pypi">histoprint</remote-id> + <remote-id type="github">scikit-hep/histoprint</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/holoviews/Manifest b/dev-python/holoviews/Manifest index 806b0513d..ec3bb1815 100644 --- a/dev-python/holoviews/Manifest +++ b/dev-python/holoviews/Manifest @@ -1,2 +1 @@ -DIST holoviews-1.14.2.tar.gz 6929549 BLAKE2B 72746a846ea7628b45e61b892ea940df4b2d7886efda054eedb859caac5dc3b66ed1c0aa9a4df8766905e35a973f6ee9226558cf6fb68394d17fe7c2f77982b2 SHA512 473a344f36c6ab1abc0847df46f4dc015fe225b9285a86152a78e13402770d5e7fdbd51aef21ff5cc53fbab89898237a260bea86dadef91ccb30bbce9344daf0 DIST holoviews-1.15.3.tar.gz 6905214 BLAKE2B 60bb7008dd5af474295245eb0dbce240cfb4dcaf4122bc6073561e829c506b670201ac7d2b7ae1eea640929eb0993148c22c1a3e8d8ccb8e00582a2fbd3e696b SHA512 b1d4b64503511c61ede67d6d45472acde1afb854e19f7a30acb35d7fab2400ffe1e43db7b6e85eefe542b8353982af9cb41d505412bb0674cb20926c24f76494 diff --git a/dev-python/holoviews/holoviews-1.14.2.ebuild b/dev-python/holoviews/holoviews-1.14.2.ebuild deleted file mode 100644 index 4c8af05d9..000000000 --- a/dev-python/holoviews/holoviews-1.14.2.ebuild +++ /dev/null @@ -1,31 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..10} ) - -# HoloViews imports from "distutils" at runtime. -DISTUTILS_USE_SETUPTOOLS=rdepend - -inherit distutils-r1 - -DESCRIPTION="Make data analysis and visualization seamless and simple" -HOMEPAGE="https://holoviews.org" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -DEPEND=" - >=dev-python/param-1.9.3[${PYTHON_USEDEP}] - >=dev-python/pyct-0.4.4[${PYTHON_USEDEP}] -" -RDEPEND="${DEPEND} - dev-python/colorcet[${PYTHON_USEDEP}] - dev-python/pandas[${PYTHON_USEDEP}] - >=dev-python/numpy-1.0.0[${PYTHON_USEDEP}] - >=dev-python/panel-0.8.0[${PYTHON_USEDEP}] - >=dev-python/pyviz_comms-0.7.4[${PYTHON_USEDEP}] -" diff --git a/dev-python/holoviews/holoviews-1.15.3.ebuild b/dev-python/holoviews/holoviews-1.15.3.ebuild index 425290441..154b7195d 100644 --- a/dev-python/holoviews/holoviews-1.15.3.ebuild +++ b/dev-python/holoviews/holoviews-1.15.3.ebuild @@ -3,20 +3,19 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..10} ) +PYTHON_COMPAT=( python3_{10..11} ) # HoloViews imports from "distutils" at runtime. DISTUTILS_USE_SETUPTOOLS=rdepend -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Make data analysis and visualization seamless and simple" HOMEPAGE="https://holoviews.org" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" -KEYWORDS="~amd64 ~x86" +KEYWORDS="~amd64" # Reported upstream: # https://github.com/holoviz/holoviews/issues/5592 RESTRICT="test" diff --git a/dev-python/hopcroftkarp/hopcroftkarp-1.2.5_p1.ebuild b/dev-python/hopcroftkarp/hopcroftkarp-1.2.5_p1-r1.ebuild index 341aa57f2..29c57f90a 100644 --- a/dev-python/hopcroftkarp/hopcroftkarp-1.2.5_p1.ebuild +++ b/dev-python/hopcroftkarp/hopcroftkarp-1.2.5_p1-r1.ebuild @@ -3,7 +3,8 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..10} ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 diff --git a/dev-python/imageutils/Manifest b/dev-python/imageutils/Manifest deleted file mode 100644 index ccb3920ff..000000000 --- a/dev-python/imageutils/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST imageutils-0.3.8.tar.gz 3531 BLAKE2B 58b8248faa79f36cb24451c5d174fba421cc4c8664d9093047dfd4460f0c80941912859fe6507d2f2a0814f00d6a64631617ad6731e1dddb7525e6ed087ad825 SHA512 5399fe0586929b5fa4e3d70177179f3c050527115f32ac84d16c0ace1d650c789555329cc86a533fa38778cce5bcb0b6c12886195876e7103535b74b508998f6 diff --git a/dev-python/imageutils/imageutils-0.3.8.ebuild b/dev-python/imageutils/imageutils-0.3.8.ebuild deleted file mode 100644 index 09db367f1..000000000 --- a/dev-python/imageutils/imageutils-0.3.8.ebuild +++ /dev/null @@ -1,16 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7,8,9} ) - -inherit distutils-r1 - -DESCRIPTION="Various utilities for working with images" -HOMEPAGE="https://pypi.org/project/imageutils/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="public-domain" -SLOT="0" -KEYWORDS="~amd64 ~x86" diff --git a/dev-python/imageutils/metadata.xml b/dev-python/imageutils/metadata.xml deleted file mode 100644 index b75b1ab3a..000000000 --- a/dev-python/imageutils/metadata.xml +++ /dev/null @@ -1,16 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci-astronomy@gentoo.org</email> - <name>Gentoo Astronomy Project</name> - </maintainer> - <longdescription lang="en"> -imageutils is a collection of image processing utilities that are generally -useful to astronomers. These will likely become part of the core AstroPy -package before the 1.0 release. -</longdescription> - <upstream> - <remote-id type="github">astropy/imageutils</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/interleave/interleave-0.2.0.ebuild b/dev-python/interleave/interleave-0.2.0.ebuild index 7dbb9d5c9..4434b8fdd 100644 --- a/dev-python/interleave/interleave-0.2.0.ebuild +++ b/dev-python/interleave/interleave-0.2.0.ebuild @@ -1,16 +1,15 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10) +PYTHON_COMPAT=( python3_{10..11} ) -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Yield from multiple iterators as values become available" HOMEPAGE="https://github.com/jwodder/interleave" -SRC_URI="mirror://pypi/${P:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" SLOT="0" diff --git a/dev-python/jacobi/Manifest b/dev-python/jacobi/Manifest new file mode 100644 index 000000000..be04d75f2 --- /dev/null +++ b/dev-python/jacobi/Manifest @@ -0,0 +1,2 @@ +DIST jacobi-0.8.1.tar.gz 997020 BLAKE2B ba54654e8a202976242674afa79de06d486d03c6d78b5566711df7df4ddcf5bbaa0e536eb9feeb0b0d6aaa9a444f677dfbbfa9928e38431aa9377c97132d4a26 SHA512 4a9a280cfae81926563c9736bf1805a3fe379809fe51421bdd0659651008d07d9f772df5006a1b796959311956822839791289eacb03af39823dd5a671b3845a +DIST jacobi-0.9.2.tar.gz 998268 BLAKE2B 93ed0a03e8984143229929d04dd7b166c71bf10e98b98d396c58a5cea556b2b8da7977538a419cfbff26a5f681885df2f952a7aef98822dea885b408e12033a7 SHA512 ef91d8aceab8823913820c46e33db43a3daba90bfacf640167987cd92006c4b253ec17166fc1750902afec69385d35559fede17a8ed227dab582f1490711bff1 diff --git a/dev-python/jacobi/jacobi-0.8.1.ebuild b/dev-python/jacobi/jacobi-0.8.1.ebuild new file mode 100644 index 000000000..93afcbf16 --- /dev/null +++ b/dev-python/jacobi/jacobi-0.8.1.ebuild @@ -0,0 +1,24 @@ +EAPI=8 + +PYTHON_COMPAT=( python3_{10..12} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 pypi + +DESCRIPTION="Numerical derivatives for analytic functions with arbitrary precision." +HOMEPAGE="https://github.com/HDembinski/jacobi" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64" + +RDEPEND=" + >=dev-python/numpy-1.10[${PYTHON_USEDEP}] +" +DEPEND="${RDEPEND}" + +distutils_enable_tests pytest + +EPYTEST_IGNORE=( + tests/bench.py +) + diff --git a/dev-python/jacobi/jacobi-0.9.2.ebuild b/dev-python/jacobi/jacobi-0.9.2.ebuild new file mode 100644 index 000000000..806967a38 --- /dev/null +++ b/dev-python/jacobi/jacobi-0.9.2.ebuild @@ -0,0 +1,26 @@ +EAPI=8 + +PYTHON_COMPAT=( python3_{11..12} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 pypi + +DESCRIPTION="Numerical derivatives for analytic functions with arbitrary precision." +HOMEPAGE="https://github.com/HDembinski/jacobi" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64" + +RDEPEND=" + >=dev-python/numpy-1.10[${PYTHON_USEDEP}] +" +DEPEND="${RDEPEND}" + +distutils_enable_tests pytest + +python_test() { + local EPYTEST_IGNORE=( + tests/bench.py + ) + epytest +} diff --git a/dev-python/jacobi/metadata.xml b/dev-python/jacobi/metadata.xml new file mode 100644 index 000000000..ebbabb06c --- /dev/null +++ b/dev-python/jacobi/metadata.xml @@ -0,0 +1,21 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <maintainer type="person"> + <email>alexander@neuwirth-informatik.de</email> + <name>Alexander Puck Neuwirth</name> + </maintainer> + <longdescription lang="en"> + Robustly compute the generalised Jacobi matrix for an arbitrary real analytic mapping ℝⁿ → ℝⁱ¹ × ... × ℝⁱⁿ + Returns error estimates for derivatives + Perform statistical error propagation based on numerically computed jacobian + </longdescription> + <upstream> + <remote-id type="pypi">jacobi</remote-id> + <remote-id type="github">HDembinski/jacobi</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/json_tricks/Manifest b/dev-python/json_tricks/Manifest deleted file mode 100644 index 24618b3f4..000000000 --- a/dev-python/json_tricks/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST json_tricks-3.15.5.tar.gz 41517 BLAKE2B beca160278281161ad480848da7971b4bcd0c3624ada8e1092edaf5c56abedf3fb4f5bc96c4efbd714cbdc07c3ba5d63fa4e97efcd040f1f6bc5406d6a841580 SHA512 e43ead9ffd3966f5c548f70bacd58baa275d63e3a55fbd49d84d477fc0bea30cbeaeac46c308b6251bc141efb949c2e73444432c14608d9a8fc5dfc6c7c246d6 diff --git a/dev-python/json_tricks/json_tricks-3.15.5.ebuild b/dev-python/json_tricks/json_tricks-3.15.5.ebuild deleted file mode 100644 index f659a2a18..000000000 --- a/dev-python/json_tricks/json_tricks-3.15.5.ebuild +++ /dev/null @@ -1,21 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7,8,9} ) - -inherit distutils-r1 - -DESCRIPTION="Extra features for Python's JSON" -HOMEPAGE="https://github.com/mverleg/pyjson_tricks" -SRC_URI="https://github.com/mverleg/pyjson_tricks/archive/v${PV}.tar.gz -> ${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -S="${WORKDIR}/py${PN}-${PV}" - -distutils_enable_tests pytest -distutils_enable_sphinx docs diff --git a/dev-python/json_tricks/metadata.xml b/dev-python/json_tricks/metadata.xml deleted file mode 100644 index 2967a86bd..000000000 --- a/dev-python/json_tricks/metadata.xml +++ /dev/null @@ -1,26 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="person"> - <email>gentoo@chymera.eu</email> - <name>Horea Christian</name> - </maintainer> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <longdescription lang="en"> - The json-tricks package brings several pieces of functionality to - Python handling of json files: (1) Store and load numpy arrays in - human-readable format; (2) Store and load class instances both - generic and customized; (3) Store and load date/times as a - dictionary (including timezone); (4) Preserve map order {} using - OrderedDict; (5) Allow for comments in json files by starting lines - with #; (6) Sets, complex numbers, Decimal, Fraction, enums, - compression, duplicate keys, pathlib Paths ... - </longdescription> - <upstream> - <remote-id type="pypi">json-tricks</remote-id> - <remote-id type="github">mverleg/pyjson_tricks</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/jupyterlab_launcher/Manifest b/dev-python/jupyterlab_launcher/Manifest deleted file mode 100644 index c1d49b101..000000000 --- a/dev-python/jupyterlab_launcher/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST jupyterlab_launcher-0.13.1.tar.gz 20418 BLAKE2B 1cfe0e357da0926468a7dfb8b6b2d6eb870593b6bb9ac5c798a90f876c76b82c07cca7948bbdfdc0f4e49cefb67c0ba56edc0d7334e969a76cec2407353afd63 SHA512 f7b4267379fd21e80688e565f788277b92aad748971c077e694246ae01c7f56b5a6a50d4fa9d3bfecc561b723d6bcbbb988f019268d2752076ec6293f9960406 diff --git a/dev-python/jupyterlab_launcher/jupyterlab_launcher-0.13.1.ebuild b/dev-python/jupyterlab_launcher/jupyterlab_launcher-0.13.1.ebuild deleted file mode 100644 index 80abd3be5..000000000 --- a/dev-python/jupyterlab_launcher/jupyterlab_launcher-0.13.1.ebuild +++ /dev/null @@ -1,26 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{8..9} ) - -inherit distutils-r1 - -DESCRIPTION="Jupyter Launcher" -HOMEPAGE="https://jupyter.org/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64" - -# TODO: fix this -RESTRICT="test" - -RDEPEND=" - >=dev-python/jsonschema-2.6.0[${PYTHON_USEDEP}] - >=dev-python/notebook-4.2.0[${PYTHON_USEDEP}] -" - -distutils_enable_tests pytest diff --git a/dev-python/jupyterlab_launcher/metadata.xml b/dev-python/jupyterlab_launcher/metadata.xml deleted file mode 100644 index ae9640ffb..000000000 --- a/dev-python/jupyterlab_launcher/metadata.xml +++ /dev/null @@ -1,8 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> -</pkgmetadata> diff --git a/dev-python/kmapper/Manifest b/dev-python/kmapper/Manifest index 61c31630b..0eeec60f6 100644 --- a/dev-python/kmapper/Manifest +++ b/dev-python/kmapper/Manifest @@ -1,2 +1 @@ -DIST kmapper-1.4.1.tar.gz 100655 BLAKE2B 7321266be9fea509da054a481328178bd5bb5403b60f09b64ece4ef1fa54713a5f9b292553b87385464b52e82407461659575d7bd5d2b6038b69d500b934da77 SHA512 dc760c7b3c838d44f4b96ba744f03482e4495bb4341380aa4448c57a1292c6d8d95a9e7fb8bd9171a26e56677e578c1a8002fd429166fe87a60a8313fada7e4a -DIST kmapper-2.0.1.tar.gz 6686101 BLAKE2B 8afa79a2479370c335debb4cee7375b0d47b0e79d02649ff53681d006e2a80cd6175f8aeb3c3a6fa0ac32d0cf30ba8217d348f6158b9ee1bc7c683d0a5b4290e SHA512 751f02ee3f5a55eb74b55b0a9204e54d05c9af2a816f8070082a73d4213c1fb7842e41e3e27316d69efaa2cf3e2f9b2d967870905ace8d9e9a3e67f9ea181ed2 +DIST kmapper-2.0.1.gh.tar.gz 6686101 BLAKE2B 8afa79a2479370c335debb4cee7375b0d47b0e79d02649ff53681d006e2a80cd6175f8aeb3c3a6fa0ac32d0cf30ba8217d348f6158b9ee1bc7c683d0a5b4290e SHA512 751f02ee3f5a55eb74b55b0a9204e54d05c9af2a816f8070082a73d4213c1fb7842e41e3e27316d69efaa2cf3e2f9b2d967870905ace8d9e9a3e67f9ea181ed2 diff --git a/dev-python/kmapper/kmapper-1.4.1.ebuild b/dev-python/kmapper/kmapper-1.4.1.ebuild deleted file mode 100644 index 763a962de..000000000 --- a/dev-python/kmapper/kmapper-1.4.1.ebuild +++ /dev/null @@ -1,41 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) - -inherit distutils-r1 - -DESCRIPTION="Python implementation of Mapper algorithm for Topological Data Analysis" -HOMEPAGE="https://kepler-mapper.scikit-tda.org" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND="${PYTHON_DEPS} - dev-python/jinja[${PYTHON_USEDEP}] - dev-python/joblib[${PYTHON_USEDEP}] - dev-python/markupsafe[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/plotly[${PYTHON_USEDEP}] - dev-python/python-igraph[${PYTHON_USEDEP}] - sci-libs/scikit-learn[${PYTHON_USEDEP}] -" -DEPEND="${RDEPEND}" -BDEPEND=" - test? ( - dev-python/networkx[${PYTHON_USEDEP}] - dev-python/matplotlib[${PYTHON_USEDEP}] - dev-python/ipywidgets[${PYTHON_USEDEP}] - ) -" - -distutils_enable_tests pytest - -python_prepare_all() { - rm "${S}"/test/test_plotly.py || die - distutils-r1_python_prepare_all -} diff --git a/dev-python/kmapper/kmapper-2.0.1.ebuild b/dev-python/kmapper/kmapper-2.0.1-r1.ebuild index 2099fa4db..22f35fbda 100644 --- a/dev-python/kmapper/kmapper-2.0.1.ebuild +++ b/dev-python/kmapper/kmapper-2.0.1-r1.ebuild @@ -1,20 +1,21 @@ # Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=7 +EAPI=8 -PYTHON_COMPAT=( python3_{7..9} ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 DESCRIPTION="Python implementation of Mapper algorithm for Topological Data Analysis" HOMEPAGE="https://kepler-mapper.scikit-tda.org" -SRC_URI="https://github.com/scikit-tda/kepler-mapper/archive/refs/tags/v${PV}.tar.gz -> ${P}.tar.gz" +SRC_URI="https://github.com/scikit-tda/kepler-mapper/archive/refs/tags/v${PV}.tar.gz -> ${P}.gh.tar.gz" S="${WORKDIR}"/kepler-mapper-${PV} LICENSE="MIT" SLOT="0" -KEYWORDS="~amd64 ~x86" +KEYWORDS="~amd64" RDEPEND="${PYTHON_DEPS} dev-python/jinja[${PYTHON_USEDEP}] diff --git a/dev-python/kmapper/metadata.xml b/dev-python/kmapper/metadata.xml index 006b418f5..4dee7702f 100644 --- a/dev-python/kmapper/metadata.xml +++ b/dev-python/kmapper/metadata.xml @@ -11,5 +11,6 @@ </maintainer> <upstream> <remote-id type="github">scikit-tda/kepler-mapper</remote-id> + <remote-id type="pypi">kmapper</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/lazy_ops/Manifest b/dev-python/lazy_ops/Manifest new file mode 100644 index 000000000..b5b4cce5e --- /dev/null +++ b/dev-python/lazy_ops/Manifest @@ -0,0 +1 @@ +DIST lazy_ops-0.2.0.tar.gz 5284 BLAKE2B ba8747ba9028103fad7e0cab5eb53ebfefca5e886dcd39a499c8c8c6c8c466dcdb85438fc012f32cff7b98e486fe8154ef4e3c08241c3c9c738f0a399a6f91af SHA512 b0c7e49d37553f56f491d7e7aaeee8e6e18d44f6f34f7148ed98a596573dc26523e9cbc7bb6dce04bae99dbe59cecd35759173985fc203d7e59dfa61592e6955 diff --git a/dev-python/lazy_ops/lazy_ops-0.2.0.ebuild b/dev-python/lazy_ops/lazy_ops-0.2.0.ebuild new file mode 100644 index 000000000..d624fb2aa --- /dev/null +++ b/dev-python/lazy_ops/lazy_ops-0.2.0.ebuild @@ -0,0 +1,26 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 pypi + +DESCRIPTION="Lazy transposing and slicing of h5py and Zarr data" +HOMEPAGE="https://github.com/catalystneuro/lazy_ops" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64 ~x86" +IUSE="test" +# There are no source archive with tests available: +# https://github.com/catalystneuro/lazy_ops/issues/29 +RESTRICT="test" + +RDEPEND=" + dev-python/h5py[${PYTHON_USEDEP}] + dev-python/zarr[${PYTHON_USEDEP}] +" + +distutils_enable_tests pytest diff --git a/dev-python/lazy_ops/metadata.xml b/dev-python/lazy_ops/metadata.xml new file mode 100644 index 000000000..d5101128a --- /dev/null +++ b/dev-python/lazy_ops/metadata.xml @@ -0,0 +1,16 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>gentoo@chymera.eu</email> + <name>Horea Christian</name> + </maintainer> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <upstream> + <remote-id type="github">catalystneuro/lazy_ops</remote-id> + <remote-id type="pypi">lazy_ops</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/linesep/Manifest b/dev-python/linesep/Manifest new file mode 100644 index 000000000..99369e648 --- /dev/null +++ b/dev-python/linesep/Manifest @@ -0,0 +1 @@ +DIST linesep-0.5.0.tar.gz 23979 BLAKE2B 78413c41b5002c8d4edf28c97eb8867416710ed5164d872bce845debfd4d17ac6aa03d7f4a36ef3e22160f517913e1f57c2d99a1ef4963941001892211f0386f SHA512 fe91aea8f4f36e722edc025fbfc452488bcef9a8dfef85b36a446f33a5a0c079102538a0f141ec7474325d5948214082790c53a928d1b7453d7d1e56622714fb diff --git a/dev-python/linesep/files/linesep-0.5.0-nocov.patch b/dev-python/linesep/files/linesep-0.5.0-nocov.patch new file mode 100644 index 000000000..a27bbd4b8 --- /dev/null +++ b/dev-python/linesep/files/linesep-0.5.0-nocov.patch @@ -0,0 +1,12 @@ +diff --git a/tox.ini b/tox.ini +index 4d45597..cdd9e18 100644 +--- a/tox.ini ++++ b/tox.ini +@@ -31,7 +31,6 @@ commands = + mypy src test + + [pytest] +-addopts = --cov=linesep --no-cov-on-fail + asyncio_mode = strict + doctest_optionflags = IGNORE_EXCEPTION_DETAIL + filterwarnings = error diff --git a/dev-python/linesep/linesep-0.5.0.ebuild b/dev-python/linesep/linesep-0.5.0.ebuild new file mode 100644 index 000000000..148ff0883 --- /dev/null +++ b/dev-python/linesep/linesep-0.5.0.ebuild @@ -0,0 +1,25 @@ +# Copyright 1999-2022 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..12} ) +inherit distutils-r1 pypi + +DESCRIPTION="Handling lines with arbitrary separators" +HOMEPAGE="https://github.com/jwodder/linesep" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~x86" + +BDEPEND=" + test? ( + dev-python/pytest-subtests[${PYTHON_USEDEP}] + ) +" + +PATCHES=( "${FILESDIR}/${P}-nocov.patch" ) + +distutils_enable_tests pytest diff --git a/dev-python/linesep/metadata.xml b/dev-python/linesep/metadata.xml new file mode 100644 index 000000000..017856905 --- /dev/null +++ b/dev-python/linesep/metadata.xml @@ -0,0 +1,16 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>gentoo@chymera.eu</email> + <name>Horea Christian</name> + </maintainer> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <upstream> + <remote-id type="github">jwodder/linesep</remote-id> + <remote-id type="pypi">linesep</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/llvmlite/Manifest b/dev-python/llvmlite/Manifest deleted file mode 100644 index 86f967801..000000000 --- a/dev-python/llvmlite/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST llvmlite-0.39.1.gh.tar.gz 237119 BLAKE2B c2538994a6b9116d9a124ad8b8fff9c06d654bcdd345fb25251505b7577c6dffdfa56c9226250dbc2de6253cf6154523ec0d3cd849697a66cabf5b522c5e76ca SHA512 16b341300e4034aff4ce9553fec6b5923b9f4cb261c1ec0ee2cef6d87addcbebe8f4805dbc2fb30f357800fa029c3b6fc8ed62a5fdaad7c262e723c3b9c4ad32 diff --git a/dev-python/llvmlite/files/llvmlite-0.39.1-allow-py3.11.patch b/dev-python/llvmlite/files/llvmlite-0.39.1-allow-py3.11.patch deleted file mode 100644 index d35979ebc..000000000 --- a/dev-python/llvmlite/files/llvmlite-0.39.1-allow-py3.11.patch +++ /dev/null @@ -1,13 +0,0 @@ -diff --git a/setup.py b/setup.py -index 02b1604..a45c9b8 100644 ---- a/setup.py -+++ b/setup.py -@@ -33,7 +33,7 @@ except ImportError: - - - min_python_version = "3.7" --max_python_version = "3.11" # exclusive -+max_python_version = "3.12" # exclusive - - - def _guard_py_ver(): diff --git a/dev-python/llvmlite/files/llvmlite-0.39.1-llvm12.patch b/dev-python/llvmlite/files/llvmlite-0.39.1-llvm12.patch deleted file mode 100644 index 17eb80e87..000000000 --- a/dev-python/llvmlite/files/llvmlite-0.39.1-llvm12.patch +++ /dev/null @@ -1,97 +0,0 @@ -From 1d928ebcd59b23b5050234a2bf71f9be7f5f6bd1 Mon Sep 17 00:00:00 2001 -From: Richard Barnes <rbarnes@umn.edu> -Date: Wed, 1 Dec 2021 10:29:08 -0700 -Subject: [PATCH] Enable LLVM-12 and LLVM-13 - ---- - ffi/build.py | 5 ++--- - ffi/targets.cpp | 2 ++ - llvmlite/tests/test_binding.py | 19 ++++++++++++++++--- - 3 files changed, 20 insertions(+), 6 deletions(-) - -Index: llvmlite-0.39.0/ffi/build.py -=================================================================== ---- llvmlite-0.39.0.orig/ffi/build.py -+++ llvmlite-0.39.0/ffi/build.py -@@ -163,9 +163,8 @@ def main_posix(kind, library_ext): - print(msg) - print(warning + '\n') - else: -- -- if not out.startswith('11'): -- msg = ("Building llvmlite requires LLVM 11.x.x, got " -+ if not (out.startswith('11') or out.startswith('12') or out.startswith('13')): -+ msg = ("Building llvmlite requires LLVM 11-13.x.x, got " - "{!r}. Be sure to set LLVM_CONFIG to the right executable " - "path.\nRead the documentation at " - "http://llvmlite.pydata.org/ for more information about " -Index: llvmlite-0.39.0/ffi/targets.cpp -=================================================================== ---- llvmlite-0.39.0.orig/ffi/targets.cpp -+++ llvmlite-0.39.0/ffi/targets.cpp -@@ -204,7 +204,9 @@ LLVMPY_CreateTargetMachine(LLVMTargetRef - rm = Reloc::DynamicNoPIC; - - TargetOptions opt; -+#if LLVM_VERSION_MAJOR < 12 - opt.PrintMachineCode = PrintMC; -+#endif - opt.MCOptions.ABIName = ABIName; - - bool jit = JIT; -Index: llvmlite-0.39.0/llvmlite/tests/test_binding.py -=================================================================== ---- llvmlite-0.39.0.orig/llvmlite/tests/test_binding.py -+++ llvmlite-0.39.0/llvmlite/tests/test_binding.py -@@ -18,6 +18,16 @@ from llvmlite.binding import ffi - from llvmlite.tests import TestCase - - -+def clean_string_whitespace(x: str) -> str: -+ # Remove trailing whitespace from the end of each line -+ x = re.sub(r"\s+$", "", x, flags=re.MULTILINE) -+ # Remove intermediate blank lines -+ x = re.sub(r"\n\s*\n", r"\n", x, flags=re.MULTILINE) -+ # Remove extraneous whitespace from the beginning and end of the string -+ x = x.strip() -+ return x -+ -+ - # arvm7l needs extra ABI symbols to link successfully - if platform.machine() == 'armv7l': - llvm.load_library_permanently('libgcc_s.so.1') -@@ -555,7 +565,10 @@ class TestMisc(BaseTest): - bd = ir.IRBuilder(fn.append_basic_block(name="<>!*''#")) - bd.ret(ir.Constant(ir.IntType(32), 12345)) - asm = str(mod) -- self.assertEqual(asm, asm_nonalphanum_blocklabel) -+ self.assertEqual( -+ clean_string_whitespace(asm), -+ clean_string_whitespace(asm_nonalphanum_blocklabel) -+ ) - - def test_global_context(self): - gcontext1 = llvm.context.get_global_context() -@@ -640,7 +653,7 @@ class TestMisc(BaseTest): - def test_version(self): - major, minor, patch = llvm.llvm_version_info - # one of these can be valid -- valid = [(11,)] -+ valid = [(11,), (12,), (13,)] - self.assertIn((major,), valid) - self.assertIn(patch, range(10)) - -Index: llvmlite-0.39.0/ffi/passmanagers.cpp -=================================================================== ---- llvmlite-0.39.0.orig/ffi/passmanagers.cpp -+++ llvmlite-0.39.0/ffi/passmanagers.cpp -@@ -17,9 +17,6 @@ - #include "llvm-c/Transforms/IPO.h" - #include "llvm-c/Transforms/Scalar.h" - #include "llvm/IR/LegacyPassManager.h" --#if LLVM_VERSION_MAJOR > 11 --#include "llvm/IR/RemarkStreamer.h" --#endif - #include "llvm/IR/LLVMRemarkStreamer.h" - #include "llvm/Remarks/RemarkStreamer.h" - #include "llvm/Transforms/IPO.h" diff --git a/dev-python/llvmlite/llvmlite-0.39.1.ebuild b/dev-python/llvmlite/llvmlite-0.39.1.ebuild deleted file mode 100644 index c95aa079d..000000000 --- a/dev-python/llvmlite/llvmlite-0.39.1.ebuild +++ /dev/null @@ -1,66 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..11} ) -DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 llvm - -DESCRIPTION="Python wrapper around the llvm C++ library" -HOMEPAGE="https://llvmlite.pydata.org/" -SRC_URI="https://github.com/numba/llvmlite/archive/v${PV/_/}.tar.gz -> ${P/_/}.gh.tar.gz" -S="${WORKDIR}/${P/_/}" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~arm ~arm64 ~x86" -IUSE="examples" - -LLVM_MAX_SLOT=13 - -RDEPEND=" - sys-devel/llvm:${LLVM_MAX_SLOT} - sys-libs/zlib:0= -" -DEPEND="${RDEPEND}" - -PATCHES=( - "${FILESDIR}/${P}-llvm12.patch" - "${FILESDIR}/${P}-allow-py3.11.patch" -) - -src_prepare() { - sed -i -e '/max_python/s:3\.10:3.11:' setup.py || die - distutils-r1_src_prepare -} - -python_configure_all() { - # upstream's build system is just horrible, and they ignored the PR - # fixing it, so let's build the shared lib properly using implicit - # make rules - - export LDLIBS=$(llvm-config --libs all) - export CXXFLAGS="$(llvm-config --cxxflags) -fPIC ${CXXFLAGS}" - export LDFLAGS="$(llvm-config --ldflags) ${LDFLAGS}" - - local files=( ffi/*.cpp ) - emake -f - <<EOF -ffi/libllvmlite.so: ${files[*]/.cpp/.o} - \$(CXX) -shared \$(CXXFLAGS) \$(LDFLAGS) -o \$@ \$^ \$(LDLIBS) -EOF - - export LLVMLITE_SKIP_LLVM_VERSION_CHECK=1 -} - -python_test() { - "${EPYTHON}" runtests.py -v || die "Tests failed under ${EPYTHON}" -} - -python_install_all() { - distutils-r1_python_install_all - if use examples; then - dodoc -r examples - docompress -x /usr/share/doc/${PF}/examples - fi -} diff --git a/dev-python/llvmlite/metadata.xml b/dev-python/llvmlite/metadata.xml deleted file mode 100644 index 0983f7a41..000000000 --- a/dev-python/llvmlite/metadata.xml +++ /dev/null @@ -1,18 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <longdescription> - llvmlite uses the LLVM library for JIT (just-in-time) compilation of - Python code into native machine instructions during runtime. Instead - of exposing large parts of the LLVM C++ API for direct calls into the - LLVM library, llvmlite follows a lightweight multi-layered approach. - </longdescription> - <upstream> - <remote-id type="pypi">llvmlite</remote-id> - <remote-id type="github">numba/llvmlite</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/logzero/logzero-1.7.0.ebuild b/dev-python/logzero/logzero-1.7.0.ebuild index 59f029e95..2c3f44eb1 100644 --- a/dev-python/logzero/logzero-1.7.0.ebuild +++ b/dev-python/logzero/logzero-1.7.0.ebuild @@ -4,12 +4,10 @@ EAPI=8 PYTHON_COMPAT=( python3_10 pypy3 ) - -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Robust and effective logging for Python 2 and 3" HOMEPAGE="https://pypi.org/project/logzero" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" SLOT="0" diff --git a/dev-python/looseversion/Manifest b/dev-python/looseversion/Manifest deleted file mode 100644 index 1fe929b12..000000000 --- a/dev-python/looseversion/Manifest +++ /dev/null @@ -1,2 +0,0 @@ -DIST looseversion-1.0.2.gh.tar.gz 8144 BLAKE2B 1c3b76c6f77499ac39863897771bbc2246e5d1ad47e3ae4f0c21d4bb6a717270ebe6550ea53b188740ed74bf5a7fef31d743486f0ee54ddb9758d2806374dbdf SHA512 d166c49a1788fe6453d4187af62a860f9c66ce7b71ec924ad3a6d19101d9619394bb81e17e52054b5a8e693051ca40c4269e415f4af513d35212eab678837569 -DIST looseversion-1.0.3.tar.gz 6874 BLAKE2B ce0cc5af699c7db85f180ba0e4b465411d15a1bd4f669fc34ede985f0ceca63a01d9ab7755b722018770633342bfe6eeeb59b98026616641aca1a522acd47f7b SHA512 262f6b33516020bf38878cdf0dfcd3e51507d20f40a348a8fcd8ba66c2eaef564738c275297c3efe8daf9ff5efc5b7dffa8d76f77626c3eefdac7b097db27f78 diff --git a/dev-python/looseversion/looseversion-1.0.2.ebuild b/dev-python/looseversion/looseversion-1.0.2.ebuild deleted file mode 100644 index 0150e69f5..000000000 --- a/dev-python/looseversion/looseversion-1.0.2.ebuild +++ /dev/null @@ -1,26 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_{10..11} ) -inherit distutils-r1 - -DESCRIPTION="A backwards/forwards-compatible fork of distutils' LooseVersion" -HOMEPAGE="https://github.com/effigies/looseversion" -SRC_URI="https://github.com/effigies/looseversion/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" - -LICENSE="PSF-2" -SLOT="0" -KEYWORDS="~amd64" -IUSE="" - -RDEPEND="" -BEPEND="" - -distutils_enable_tests pytest - -python_test() { - epytest tests.py -} diff --git a/dev-python/looseversion/looseversion-1.0.3.ebuild b/dev-python/looseversion/looseversion-1.0.3.ebuild deleted file mode 100644 index aa8ebcc32..000000000 --- a/dev-python/looseversion/looseversion-1.0.3.ebuild +++ /dev/null @@ -1,26 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_USE_PEP517=flit -PYTHON_COMPAT=( python3_{10..11} ) -inherit distutils-r1 - -DESCRIPTION="A backwards/forwards-compatible fork of distutils' LooseVersion" -HOMEPAGE="https://github.com/effigies/looseversion" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="PSF-2" -SLOT="0" -KEYWORDS="~amd64" -IUSE="" - -RDEPEND="" -BEPEND="" - -distutils_enable_tests pytest - -python_test() { - epytest tests.py -} diff --git a/dev-python/looseversion/metadata.xml b/dev-python/looseversion/metadata.xml deleted file mode 100644 index 20b71d2b7..000000000 --- a/dev-python/looseversion/metadata.xml +++ /dev/null @@ -1,25 +0,0 @@ -<?xml version='1.0' encoding='UTF-8'?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="person"> - <email>gentoo@chymera.eu</email> - <name>Horea Christian</name> - </maintainer> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <longdescription lang="en"> - A backwards/forwards-compatible fork of distutils.version.LooseVersion, for times - when PEP-440 isn't what you need. The goal of this package is to be a drop-in - replacement for the original LooseVersion. It implements an identical interface - and comparison logic to LooseVersion. The only major change is that a - looseversion.LooseVersion is comparable to a distutils.version.LooseVersion, - which means tools should not need to worry whether all dependencies that use - LooseVersion have migrated. - </longdescription> - <upstream> - <remote-id type="github">effigies/looseversion</remote-id> - <remote-id type="pypi">looseversion</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/lzstring/Manifest b/dev-python/lzstring/Manifest new file mode 100644 index 000000000..f44e5e773 --- /dev/null +++ b/dev-python/lzstring/Manifest @@ -0,0 +1 @@ +DIST lzstring-1.0.4.tar.gz 4256 BLAKE2B e1a205f980de050635114e26a86d7251e0822a4459c44042291e80d55129d815f0753ff2b45a179fb468e9020a0a6255748566bc4e62fc98e7e041b07ae073f3 SHA512 0d61fe04402aaa5325d3ab555b9b83132048124a2ff11ae3a947a188d5507f1043b0522fcb7024009d75cf3efd3afbb64d24c238c4c2181346a823c77cb4ea02 diff --git a/dev-python/lzstring/lzstring-1.0.4.ebuild b/dev-python/lzstring/lzstring-1.0.4.ebuild new file mode 100644 index 000000000..bfdb76a67 --- /dev/null +++ b/dev-python/lzstring/lzstring-1.0.4.ebuild @@ -0,0 +1,16 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..11} ) + +inherit pypi distutils-r1 + +DESCRIPTION="String encoding/decoding of binary data" +HOMEPAGE="https://pypi.org/project/lzstring/" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64 ~amd64-linux" diff --git a/dev-python/lzstring/metadata.xml b/dev-python/lzstring/metadata.xml new file mode 100644 index 000000000..4dde9fdd9 --- /dev/null +++ b/dev-python/lzstring/metadata.xml @@ -0,0 +1,12 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>mschu.dev@gmail.com</email> + <name>Michael Schubert</name> + </maintainer> + <upstream> + <remote-id type="github">gkovacs/lz-string-python</remote-id> + <remote-id type="pypi">lzstring</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/matlabengine/Manifest b/dev-python/matlabengine/Manifest new file mode 100644 index 000000000..8704c974e --- /dev/null +++ b/dev-python/matlabengine/Manifest @@ -0,0 +1 @@ +DIST matlabengine-9.13.7.tar.gz 18796 BLAKE2B ccc5dae8fb9bc7a7cf240021f6066d4779d86d266b76cad3a610ed1fb455e1eefbef00cc5b1fe425f1f4f033dcb7721c2d1d3856c026fba13d2155604bfbf81f SHA512 b8d5d4d99f657fd24226f2accab676340a34739464fd289f1ca1c2db28a22f4b1288dfe160e8e193926e5db3e4fda0fcbbbf67b67f9a509910429e023b9cc3fb diff --git a/dev-python/matlabengine/matlabengine-9.13.7.ebuild b/dev-python/matlabengine/matlabengine-9.13.7.ebuild new file mode 100644 index 000000000..d65b1c0e5 --- /dev/null +++ b/dev-python/matlabengine/matlabengine-9.13.7.ebuild @@ -0,0 +1,17 @@ +# Copyright 1999-2022 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_10 ) # No 3.11 according to setup.py +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 pypi + +DESCRIPTION="A module to call MATLAB from Python" +HOMEPAGE="https://github.com/mathworks/matlab-engine-for-python" + +LICENSE="MathWorks" +SLOT="0" +KEYWORDS="-* ~amd64" + +RESTRICT="bindist mirror" diff --git a/dev-python/dnaio/metadata.xml b/dev-python/matlabengine/metadata.xml index e97c4322a..83a61da06 100644 --- a/dev-python/dnaio/metadata.xml +++ b/dev-python/matlabengine/metadata.xml @@ -2,11 +2,11 @@ <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> <pkgmetadata> <maintainer type="person"> - <email>gentoo@aisha.cc</email> - <name>Aisha Tammy</name> - </maintainer> - <maintainer type="project"> <email>sci@gentoo.org</email> <name>Gentoo Science Project</name> </maintainer> + <upstream> + <remote-id type="pypi">matlabengine</remote-id> + <remote-id type="github">mathworks/matlab-engine-for-python</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/matrix2latex/Manifest b/dev-python/matrix2latex/Manifest deleted file mode 100644 index 996d52a66..000000000 --- a/dev-python/matrix2latex/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST matrix2latex-1.10.tar.gz 594004 BLAKE2B 0950af176071470781f45a37955ce4222299c0cae276ea7b0b767d372b3c5fc1eff4f67c26d3702dd0bc2a06c8eca5569e8fbb67b247c0bba698df2bdf8a762a SHA512 61570aa8dbb396b1c33fd327acae67b1c5b7c1655a60ad73da0ed01627c569f88f318aec92cbef1df25fc2da6e68ecf38fb1a94d26777bd50caffa694f587efe diff --git a/dev-python/matrix2latex/matrix2latex-1.10.ebuild b/dev-python/matrix2latex/matrix2latex-1.10.ebuild deleted file mode 100644 index 0d84ff9e9..000000000 --- a/dev-python/matrix2latex/matrix2latex-1.10.ebuild +++ /dev/null @@ -1,28 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7,8,9} ) - -inherit distutils-r1 - -DESCRIPTION="A tool to create LaTeX tables from python lists and arrays" -HOMEPAGE="https://github.com/TheChymera/matrix2latex" -SRC_URI="https://github.com/TheChymera/matrix2latex/archive/${PV}.tar.gz -> ${P}.tar.gz" - -LICENSE="GPL-3" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -S="${WORKDIR}/${PN}-${COMMIT}" - -distutils_enable_sphinx doc_sphinx -distutils_enable_tests pytest - -python_prepare_all() { - # this has been renamed in newer versions of sphinx - sed -i -e 's/sphinx.ext.pngmath/sphinx.ext.imgmath/g' doc_sphinx/conf.py - - distutils-r1_python_prepare_all -} diff --git a/dev-python/methodtools/Manifest b/dev-python/methodtools/Manifest new file mode 100644 index 000000000..f11018f95 --- /dev/null +++ b/dev-python/methodtools/Manifest @@ -0,0 +1 @@ +DIST methodtools-0.4.7.gh.tar.gz 6789 BLAKE2B 83da6aae76dc8fe7035e21a03396398c3c72ab7e94bf5850da233dbc95da0c549f2f64a24e3ace4cc093243e846f418e97a6427f66a8ad9ba910bafd11217d61 SHA512 78fbdd3232673159bbef0ea53d8bc1502d70335751e6e91106a02ff9ddea99d44a69037506516492b3e864137b80819b1679809b287049270e623b4ebe667554 diff --git a/dev-python/methodtools/files/methodtools-0.4.7-nocov.patch b/dev-python/methodtools/files/methodtools-0.4.7-nocov.patch new file mode 100644 index 000000000..e2ff8a4c1 --- /dev/null +++ b/dev-python/methodtools/files/methodtools-0.4.7-nocov.patch @@ -0,0 +1,9 @@ +--- a/setup.cfg 2023-02-05 08:15:17.000000000 -0500 ++++ b/setup.cfg 2024-05-06 11:19:57.822360100 -0400 +@@ -35,6 +35,5 @@ + [aliases] + test=pytest + [tool:pytest] +-addopts=--verbose --cov-config .coveragerc --cov methodtools + python_files = tests/test*.py + norecursedirs=.git py ci diff --git a/dev-python/methodtools/metadata.xml b/dev-python/methodtools/metadata.xml new file mode 100644 index 000000000..e85efd512 --- /dev/null +++ b/dev-python/methodtools/metadata.xml @@ -0,0 +1,16 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>gentoo@chymera.eu</email> + <name>Horea Christian</name> + </maintainer> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <upstream> + <remote-id type="github">youknowone/methodtools</remote-id> + <remote-id type="pypi">methodtools</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/methodtools/methodtools-0.4.7.ebuild b/dev-python/methodtools/methodtools-0.4.7.ebuild new file mode 100644 index 000000000..79e7739c5 --- /dev/null +++ b/dev-python/methodtools/methodtools-0.4.7.ebuild @@ -0,0 +1,24 @@ +# Copyright 1999-2022 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..12} ) +inherit distutils-r1 + +DESCRIPTION="Expand functools features to methods, classmethods, staticmethods" +HOMEPAGE="https://github.com/youknowone/methodtools" +# Not using PyPI archive because it misses test files: +# https://github.com/youknowone/methodtools/issues/24 +SRC_URI="https://github.com/youknowone/methodtools/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~x86" + +RDEPEND="dev-python/wirerope[${PYTHON_USEDEP}]" + +PATCHES=( "${FILESDIR}/${P}-nocov.patch" ) + +distutils_enable_tests pytest diff --git a/dev-python/neo/Manifest b/dev-python/neo/Manifest index e3b133b9e..346e022b8 100644 --- a/dev-python/neo/Manifest +++ b/dev-python/neo/Manifest @@ -1,2 +1,3 @@ DIST neo-0.11.0.tar.gz 9411608 BLAKE2B 9257fd8ff9eea8ec80b0a4eb701b63a9db10d51e6f145b704eb5e9a394dd13a5c6e567cb3469fa4d86f538637f80e9c660823d358bb7ddfd651291dc5df73450 SHA512 dab4832317c8dc6a794ffc9fb118124734fa2428c0527eb9c86bc3d35195a34bdb162bc0a44a3604cb8067fff7263ab5b106c0f9871007a093e7185df5ba9993 DIST neo-0.11.1.tar.gz 3906151 BLAKE2B 26b60c715d6f3ec017cdb909c1f54b1509db4862f0630ab6d60b4b07153d5cb8512fbf16dd9039d1998b08e0f9e828bb271d4f482cc2d34a5d17a010ef4d203b SHA512 1f93a9eea020ee40f792f038bef76e053ff4f6e05951f78afa70bf4009bac3da8222be57c2cee88ae5e7539c5c8978cf50bf52cce787dbacafe6d5450d5e1aa7 +DIST neo-0.12.0.tar.gz 28377158 BLAKE2B efc6ae96d8cf8325355367af482d4e6dcc0dc3e3c5f3d449076a1c3ef32f530f777a2b125c946360b05a070cd75ae3f04b31a9e63d9bee7fecf437c3a19fc284 SHA512 1849c5074afb71cba7e90a78fa51b9967b27cb3f0b6242cfbadc3c29faf7a4a13da0a15a1c43cf43df810a5c0ed0b45cf60b42f3ed83520689acc27d3bde07b9 diff --git a/dev-python/neo/neo-0.11.0.ebuild b/dev-python/neo/neo-0.11.0.ebuild index c66b2b951..dedbcea6e 100644 --- a/dev-python/neo/neo-0.11.0.ebuild +++ b/dev-python/neo/neo-0.11.0.ebuild @@ -3,15 +3,14 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..10} ) +PYTHON_COMPAT=( python3_{10..11} ) DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi MY_PN="python-neo" DESCRIPTION="Read and represent a wide range of neurophysiology file formats in Python" HOMEPAGE="https://github.com/NeuralEnsemble/python-neo" -SRC_URI="https://github.com/NeuralEnsemble/python-neo/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" LICENSE="MIT" SLOT="0" diff --git a/dev-python/neo/neo-0.11.1.ebuild b/dev-python/neo/neo-0.11.1.ebuild index c7a36d0e3..6f43494f8 100644 --- a/dev-python/neo/neo-0.11.1.ebuild +++ b/dev-python/neo/neo-0.11.1.ebuild @@ -3,14 +3,12 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..10} ) +PYTHON_COMPAT=( python3_{10..11} ) DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Read and represent a wide range of neurophysiology file formats in Python" HOMEPAGE="https://github.com/NeuralEnsemble/python-neo" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" -#SRC_URI="https://github.com/NeuralEnsemble/python-neo/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" LICENSE="MIT" SLOT="0" diff --git a/dev-python/neo/neo-0.12.0.ebuild b/dev-python/neo/neo-0.12.0.ebuild new file mode 100644 index 000000000..6e058728e --- /dev/null +++ b/dev-python/neo/neo-0.12.0.ebuild @@ -0,0 +1,57 @@ +# Copyright 2021-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 pypi + +DESCRIPTION="Read and represent a wide range of neurophysiology file formats in Python" +HOMEPAGE="https://github.com/NeuralEnsemble/python-neo" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64" +IUSE="test" + +RDEPEND=" + dev-python/numpy[${PYTHON_USEDEP}] + dev-python/quantities[${PYTHON_USEDEP}] +" +BDEPEND=" + test? ( + ${RDEPEND} + dev-python/scipy[${PYTHON_USEDEP}] + dev-python/h5py[${PYTHON_USEDEP}] + dev-python/matplotlib[${PYTHON_USEDEP}] + dev-python/pillow[${PYTHON_USEDEP}] + dev-python/probeinterface[${PYTHON_USEDEP}] + dev-python/pynwb[${PYTHON_USEDEP}] + dev-python/tqdm[${PYTHON_USEDEP}] + dev-vcs/datalad[${PYTHON_USEDEP}] + ) +" +# Testing deps also need: +# igor +# pyedflib https://github.com/holgern/pyedflib +# klusta +# nixio +# sonpy +# ipython + +distutils_enable_tests pytest + +python_test() { + # Reported upstream + # https://github.com/NeuralEnsemble/python-neo/issues/1037 + local EPYTEST_IGNORE=( + neo/test/iotest/* + neo/test/rawiotest/* + ) + # Requires dynamic data download + local EPYTEST_DESELECT=( + neo/test/utils/test_datasets.py::TestDownloadDataset::test_download_dataset + ) + epytest +} diff --git a/dev-python/nptyping/Manifest b/dev-python/nptyping/Manifest new file mode 100644 index 000000000..8a541f60d --- /dev/null +++ b/dev-python/nptyping/Manifest @@ -0,0 +1 @@ +DIST nptyping-2.5.0.gh.tar.gz 72870 BLAKE2B 16c6cb90c36bbf0b97da5ff74cee7030c641ef76d055cc5691b9d83adab2714d6e3515fd4e8616fece74606e109e6b115348964614b408df06b4f5c3cbccce37 SHA512 2cde9c5f7694d4f916b85c93b86df7f72709a70b2ffa91b7bbc98c5884236f5b36bb545a89c37e8c02a9b460065c97151d77c64f8d93b92fd93bcff406f039d9 diff --git a/dev-python/nptyping/metadata.xml b/dev-python/nptyping/metadata.xml new file mode 100644 index 000000000..45345f0dc --- /dev/null +++ b/dev-python/nptyping/metadata.xml @@ -0,0 +1,16 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <maintainer type="person"> + <email>gentoo@chymera.eu</email> + <name>Horea Christian</name> + </maintainer> + <upstream> + <remote-id type="pypi">nptyping</remote-id> + <remote-id type="github">ramonhagenaars/nptyping</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/nptyping/nptyping-2.5.0.ebuild b/dev-python/nptyping/nptyping-2.5.0.ebuild new file mode 100644 index 000000000..f6e8864df --- /dev/null +++ b/dev-python/nptyping/nptyping-2.5.0.ebuild @@ -0,0 +1,66 @@ +# Copyright 2022-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{9..11} ) + +inherit distutils-r1 + +DESCRIPTION="Type hints for Numpy" +HOMEPAGE=" + https://pypi.org/project/nptyping/ + https://github.com/ramonhagenaars/nptyping/ +" +SRC_URI=" + https://github.com/ramonhagenaars/nptyping/archive/v${PV}.tar.gz + -> ${P}.gh.tar.gz +" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64" + +RDEPEND=" + dev-python/numpy[${PYTHON_USEDEP}] +" +BDEPEND=" + test? ( + dev-python/mypy[${PYTHON_USEDEP}] + dev-python/pandas-stubs[${PYTHON_USEDEP}] + dev-python/typeguard[${PYTHON_USEDEP}] + dev-python/beartype[${PYTHON_USEDEP}] + ) +" + +EPYTEST_IGNORE=( + # requires pyright, which is not yet packaged + tests/test_pyright.py + # requires Internet + feedparser, meaningless for users + tests/test_package_info.py + # relying on Internet access to fetch packages for pip + tests/test_wheel.py + tests/pandas_/test_fork_sync.py +) + +EPYTEST_DESELECT=( + # Reported upstream: + # https://github.com/ramonhagenaars/nptyping/issues/113 + tests/test_mypy.py::MyPyTest::test_mypy_accepts_ndarray_with_any + tests/test_mypy.py::MyPyTest::test_mypy_accepts_ndarray_with_shape + tests/test_mypy.py::MyPyTest::test_mypy_accepts_ndarray_with_structure + tests/test_mypy.py::MyPyTest::test_mypy_accepts_ndarrays_as_function_arguments + tests/test_mypy.py::MyPyTest::test_mypy_accepts_ndarrays_as_variable_hints + tests/test_mypy.py::MyPyTest::test_mypy_accepts_nptyping_types + tests/test_mypy.py::MyPyTest::test_mypy_accepts_numpy_types + tests/test_mypy.py::MyPyTest::test_mypy_accepts_recarray_with_structure + tests/test_mypy.py::MyPyTest::test_mypy_disapproves_ndarray_with_wrong_function_arguments + tests/test_mypy.py::MyPyTest::test_mypy_knows_of_ndarray_methods + tests/test_typeguard.py::TypeguardTest::test_success + tests/pandas_/test_mypy_dataframe.py::MyPyDataFrameTest::test_mypy_accepts_dataframe + tests/pandas_/test_mypy_dataframe.py::MyPyDataFrameTest::test_mypy_disapproves_dataframe_with_wrong_function_arguments + tests/pandas_/test_mypy_dataframe.py::MyPyDataFrameTest::test_mypy_knows_of_dataframe_methods +) + +distutils_enable_tests pytest diff --git a/dev-python/num2words/metadata.xml b/dev-python/num2words/metadata.xml index aaa27d18e..f3e4e8fcd 100644 --- a/dev-python/num2words/metadata.xml +++ b/dev-python/num2words/metadata.xml @@ -16,6 +16,7 @@ (although this last feature is a bit buggy for some languages at the moment). </longdescription> <upstream> - <remote-id type="github">savoirefairelinux/num2words</remote-id> + <remote-id type="github">savoirfairelinux/num2words</remote-id> + <remote-id type="pypi">num2words</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/num2words/num2words-0.5.10.ebuild b/dev-python/num2words/num2words-0.5.10.ebuild index 858258d04..f57281b6e 100644 --- a/dev-python/num2words/num2words-0.5.10.ebuild +++ b/dev-python/num2words/num2words-0.5.10.ebuild @@ -1,15 +1,13 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 +PYTHON_COMPAT=( python3_{10..11} ) +inherit distutils-r1 pypi DESCRIPTION="Modules to convert numbers to words." HOMEPAGE="https://github.com/savoirfairelinux/num2words" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" SLOT="0" diff --git a/dev-python/numba-dpex/Manifest b/dev-python/numba-dpex/Manifest deleted file mode 100644 index 9cbab6ce8..000000000 --- a/dev-python/numba-dpex/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST numba-dpex-0.19.0.gh.tar.gz 207313 BLAKE2B 10cb770f13eb298f3808a326521066ea5c850a1712ece52d6cccb239c598220224afeb2c3d167d915082f3d9c020c22c0819da7d6ec1b5a3a19a1fad8cce0824 SHA512 328897a553e465563f835f86e443dc2695d66bcf23b40eb578886254a8476aa3d6321fdd3a657d0a7952df886f54b59609cf6ce0ccd44c94820d72675dc3fbc8 diff --git a/dev-python/numba-dpex/metadata.xml b/dev-python/numba-dpex/metadata.xml deleted file mode 100644 index c98aa52a0..000000000 --- a/dev-python/numba-dpex/metadata.xml +++ /dev/null @@ -1,12 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <upstream> - <remote-id type="github">IntelPython/numba-dpex</remote-id> - <remote-id type="pypi">numba-dpex</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/numba-dpex/numba-dpex-0.19.0.ebuild b/dev-python/numba-dpex/numba-dpex-0.19.0.ebuild deleted file mode 100644 index 8a8a343b6..000000000 --- a/dev-python/numba-dpex/numba-dpex-0.19.0.ebuild +++ /dev/null @@ -1,40 +0,0 @@ -# Copyright 2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_10 ) -DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 - -DESCRIPTION="Data Parallel Extension for Numba" -HOMEPAGE="https://github.com/IntelPython/numba-dpex" -SRC_URI="https://github.com/IntelPython/numba-dpex/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" - -LICENSE="Apache-2.0" -SLOT="0" -KEYWORDS="~amd64" - -BDEPEND=" - dev-python/cython[${PYTHON_USEDEP}] - sys-devel/DPC++ -" - -RDEPEND=" - dev-python/dpctl[${PYTHON_USEDEP}] - dev-python/dpnp[${PYTHON_USEDEP}] - dev-python/numba[${PYTHON_USEDEP}] - dev-python/packaging[${PYTHON_USEDEP}] -" -DEPEND="${RDEPEND}" - -distutils_enable_tests pytest - -python_prepare_all() { - # DPC++ compiler required for full functionality - export CC="${ESYSROOT}/usr/lib/llvm/intel/bin/clang" - export CXX="${ESYSROOT}/usr/lib/llvm/intel/bin/clang++" - export DPCPPROOT="${ESYSROOT}/usr/lib/llvm/intel" - - distutils-r1_python_prepare_all -} diff --git a/dev-python/numba/Manifest b/dev-python/numba/Manifest deleted file mode 100644 index 7f3f072b4..000000000 --- a/dev-python/numba/Manifest +++ /dev/null @@ -1,2 +0,0 @@ -DIST numba-0.56.3.tar.gz 2492552 BLAKE2B a8a3070ef6ca709594f308c751700a8c2cae1077c15b12291632a2022ca47460af245f02253555f4dfd4a93ef179c262baa36127b135158e48d60783f2ee0bb4 SHA512 42a1d9007ff89a58a79a80743e883e013a7a53b5035e1754b4c9f1ec715834a036eee32bff42ab0aa89132a7b6cb15decd9e918a9e49c42ce5a024e10ece3169 -DIST numba-0.56.4.gh.tar.gz 2492671 BLAKE2B c4669d15861bfea3d0fd187df9d2d4264a4b0c440fd5d46203f0494f3282ec89116fa31763550ce9593694bf2b264d6b086d206ced4aacb653d0910d2baa15d3 SHA512 15ed581cb34be30711e64e54289a29d845ceb841f8341bbbdac4d4cb7fa7cebfd4409cac7f0e0f5b1164c9bd142897b90761529ef3ad1c198a00d16ada38942e diff --git a/dev-python/numba/files/numba-0.52.0-skip_tests.patch b/dev-python/numba/files/numba-0.52.0-skip_tests.patch deleted file mode 100644 index f31af4bfb..000000000 --- a/dev-python/numba/files/numba-0.52.0-skip_tests.patch +++ /dev/null @@ -1,34 +0,0 @@ -Index: numba-0.52.0/numba/tests/test_jitclasses.py -=================================================================== ---- numba-0.52.0.orig/numba/tests/test_jitclasses.py -+++ numba-0.52.0/numba/tests/test_jitclasses.py -@@ -929,6 +929,7 @@ class TestJitClass(TestCase, MemoryLeakM - self.assertEqual(t[2:2:1], 2) - self.assertEqual(t[6:6:1], 3) - -+ @unittest.skip("Gentoo has not reverted the LLVM 'truncate longlabel' patch") - def test_jitclass_longlabel_not_truncated(self): - # See issue #3872, llvm 7 introduced a max label length of 1024 chars - # Numba ships patched llvm 7.1 (ppc64le) and patched llvm 8 to undo this -Index: numba-0.52.0/numba/tests/test_record_dtype.py -=================================================================== ---- numba-0.52.0.orig/numba/tests/test_record_dtype.py -+++ numba-0.52.0/numba/tests/test_record_dtype.py -@@ -796,7 +796,7 @@ class TestRecordDtype(unittest.TestCase) - # len(transformed) is generally 10, but could be longer if a large - # number of typecodes are in use. Checking <20 should provide enough - # tolerance. -- self.assertLess(len(transformed), 20) -+ self.assertLessEqual(len(transformed), 20) - - struct_arr = types.Array(rec, 1, 'C') - transformed = mangle_type(struct_arr) -@@ -804,7 +804,7 @@ class TestRecordDtype(unittest.TestCase) - self.assertNotIn('first', transformed) - self.assertNotIn('second', transformed) - # Length is usually 50 - 5 chars tolerance as above. -- self.assertLess(len(transformed), 50) -+ self.assertLessEqual(len(transformed), 50) - - def test_record_two_arrays(self): - """ diff --git a/dev-python/numba/files/numba-0.56.4-allow-py3.11.patch b/dev-python/numba/files/numba-0.56.4-allow-py3.11.patch deleted file mode 100644 index 07c1b5d88..000000000 --- a/dev-python/numba/files/numba-0.56.4-allow-py3.11.patch +++ /dev/null @@ -1,13 +0,0 @@ -diff --git a/setup.py b/setup.py -index 68feca4..1d254ec 100644 ---- a/setup.py -+++ b/setup.py -@@ -20,7 +20,7 @@ except ImportError: - - - min_python_version = "3.7" --max_python_version = "3.11" # exclusive -+max_python_version = "3.12" # exclusive - min_numpy_build_version = "1.11" - min_numpy_run_version = "1.18" - max_numpy_run_version = "1.24" diff --git a/dev-python/numba/numba-0.56.3.ebuild b/dev-python/numba/numba-0.56.3.ebuild deleted file mode 100644 index f8cd62036..000000000 --- a/dev-python/numba/numba-0.56.3.ebuild +++ /dev/null @@ -1,83 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_10 ) - -DISTUTILS_USE_PEP517=setuptools -inherit optfeature multiprocessing distutils-r1 - -DESCRIPTION="NumPy aware dynamic Python compiler using LLVM" -HOMEPAGE="https://numba.pydata.org/ - https://github.com/numba" -SRC_URI="https://github.com/numba/numba/archive/${PV}.tar.gz -> ${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~arm ~arm64 ~x86" -IUSE="openmp threads" - -RDEPEND=" - >=dev-python/llvmlite-0.39.0[${PYTHON_USEDEP}] - <=dev-python/llvmlite-0.40.0 - >=dev-python/numpy-1.18.0[${PYTHON_USEDEP}] - <dev-python/numpy-1.24[${PYTHON_USEDEP}] - threads? ( >=dev-cpp/tbb-2021.1 <dev-cpp/tbb-2021.6 ) -" -BDEPEND=" - dev-python/pip[${PYTHON_USEDEP}] - dev-python/versioneer[${PYTHON_USEDEP}] -" - -distutils_enable_tests unittest -distutils_enable_sphinx docs/source dev-python/numpydoc dev-python/sphinx_rtd_theme - -PATCHES=( - "${FILESDIR}/${PN}-0.52.0-skip_tests.patch" -) - -pkg_setup() { - if ! use openmp; then - export NUMBA_DISABLE_OPENMP=1 || die - else - unset NUMBA_DISABLE_OPENMP || die - fi - if ! use threads; then - export NUMBA_DISABLE_TBB=1 || die - else - unset NUMBA_DISABLE_TBB || die - export TBBROOT="${EPREFIX}/usr" || die - fi -} - -python_prepare_all() { - # This conf.py only works in a git repo - if use doc; then - git init -q || die - git config user.email "larry@gentoo.org" || die - git config user.name "Larry the Cow" || die - git add . || die - git commit -m "init" || die - fi - distutils-r1_python_prepare_all -} - -python_compile() { - # FIXME: parallel python building fails. See Portage bug #614464 and - # gentoo/sci issue #1080. - export MAKEOPTS=-j1 || die - distutils-r1_python_compile -} - -# https://numba.pydata.org/numba-doc/latest/developer/contributing.html?highlight=test#running-tests -python_test() { - ${EPYTHON} setup.py build_ext --inplace || die \ - "${EPYTHON} failed to build_ext" - ${EPYTHON} runtests.py -m $(makeopts_jobs) || die \ - "${EPYTHON} failed unittests" -} - -pkg_postinst() { - optfeature "compile cuda code" dev-util/nvidia-cuda-sdk -} diff --git a/dev-python/numba/numba-0.56.4.ebuild b/dev-python/numba/numba-0.56.4.ebuild deleted file mode 100644 index 63ecebdf4..000000000 --- a/dev-python/numba/numba-0.56.4.ebuild +++ /dev/null @@ -1,85 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -# py3.11 fails to compile: -# error: ‘CFrame’ does not name a type; did you mean ‘_frame’? -PYTHON_COMPAT=( python3_10 ) -DISTUTILS_USE_PEP517=setuptools -inherit optfeature multiprocessing distutils-r1 - -DESCRIPTION="NumPy aware dynamic Python compiler using LLVM" -HOMEPAGE="https://numba.pydata.org/ - https://github.com/numba" -SRC_URI="https://github.com/numba/numba/archive/${PV}.tar.gz -> ${P}.gh.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~arm ~arm64 ~x86" -IUSE="openmp threads" - -RDEPEND=" - >=dev-python/llvmlite-0.39.0[${PYTHON_USEDEP}] - <=dev-python/llvmlite-0.40.0 - >=dev-python/numpy-1.18.0[${PYTHON_USEDEP}] - <dev-python/numpy-1.24[${PYTHON_USEDEP}] - threads? ( >=dev-cpp/tbb-2021.1 <dev-cpp/tbb-2021.6 ) -" -BDEPEND=" - dev-python/pip[${PYTHON_USEDEP}] - dev-python/versioneer[${PYTHON_USEDEP}] -" - -distutils_enable_tests unittest -distutils_enable_sphinx docs/source dev-python/numpydoc dev-python/sphinx_rtd_theme - -PATCHES=( - "${FILESDIR}/${PN}-0.52.0-skip_tests.patch" - "${FILESDIR}/${PN}-0.56.4-allow-py3.11.patch" -) - -pkg_setup() { - if ! use openmp; then - export NUMBA_DISABLE_OPENMP=1 || die - else - unset NUMBA_DISABLE_OPENMP || die - fi - if ! use threads; then - export NUMBA_DISABLE_TBB=1 || die - else - unset NUMBA_DISABLE_TBB || die - export TBBROOT="${EPREFIX}/usr" || die - fi -} - -python_prepare_all() { - # This conf.py only works in a git repo - if use doc; then - git init -q || die - git config user.email "larry@gentoo.org" || die - git config user.name "Larry the Cow" || die - git add . || die - git commit -m "init" || die - fi - distutils-r1_python_prepare_all -} - -python_compile() { - # FIXME: parallel python building fails. See Portage bug #614464 and - # gentoo/sci issue #1080. - export MAKEOPTS=-j1 || die - distutils-r1_python_compile -} - -# https://numba.pydata.org/numba-doc/latest/developer/contributing.html?highlight=test#running-tests -python_test() { - ${EPYTHON} setup.py build_ext --inplace || die \ - "${EPYTHON} failed to build_ext" - ${EPYTHON} runtests.py -m $(makeopts_jobs) || die \ - "${EPYTHON} failed unittests" -} - -pkg_postinst() { - optfeature "compile cuda code" dev-util/nvidia-cuda-sdk -} diff --git a/dev-python/numcodecs/Manifest b/dev-python/numcodecs/Manifest index 8527c31e4..b14e3311b 100644 --- a/dev-python/numcodecs/Manifest +++ b/dev-python/numcodecs/Manifest @@ -1,3 +1,2 @@ -DIST numcodecs-0.10.0.tar.gz 4519035 BLAKE2B c94edb258d23b815048c758fb1f36f6291e6b0f5b8ae9f72ea9d7a6bfd5a35891882380f309f1c26ca47b62d1825a11b1bbff289d2970d739ccfad7a5f4d610d SHA512 098602d79ac4d7cbb6c261f513b0ab6206c4b74f5f5cbb6e500434bcdeb6b2c023b0afa272c2a300081abf8bd0ec363ca0985e954b284e96fb70e95c369abf77 -DIST numcodecs-0.9.0.tar.gz 4514267 BLAKE2B d7042ff0296a8246f063f55f31d790fcfbd59de07c08ff0d57e1bd4c7094c6f375ef55714866061f449dcca87d39abd36c56218d23aca0fd6bcfae491fb10097 SHA512 1525e5a7f7a7427752d3ccfbbb82b7afbfc90fcbc2c9e886e31d286c64478d85747de7e6bf16a8e980af96cf952d1202a15affa02cf6a22b4aac3725a0c8a65f -DIST numcodecs-0.9.1.tar.gz 4514374 BLAKE2B b418ee0fd27cb5f7bf8def3b124f31af7c0e2e2610dca55351c105933f7471e2465f24fa24e53ee607abcf26d690ba2b368e77618c703a4dbc8a926be48c9c1d SHA512 639cc5a5656e026f85e893009831f98420e3818f73bab95f0afd0a5bd64c901082826921e40c1b6e1f75cad82b3be2cf36787fa74ba7f0fd011dac070b24e0f8 +DIST numcodecs-0.11.0.tar.gz 4512454 BLAKE2B 8144120856437ca272e275430c6e169d3e2a88c12c54f71518a7f262a77f13161f61e36b8da75abc0ab4efc02cf0807e86272c1bcf5e21bfb76fba7c4cbc8863 SHA512 cd0bcd87320e3c5a4cc97f8b6b11062361ce007c55bf23d07afab7a85df256bf7bc3f16d49958e9238901e70b26deb90faaa7a006207b6325fdbe225b99139d2 +DIST numcodecs-0.12.1.tar.gz 4091415 BLAKE2B d7fa8cc549495c7c54130898f2047eb409559541b299640fb34a2332d874049afa64d5c14151426b24a1ab04c0e0444245477aa26f9336ce3ba7aefc8043abcf SHA512 716a1144c17b08cc1737bd429517b5434a7e5dbc9626ed613ca9ab4f9cda356ed97cb4ef0e2bba747a7681dc5b43818cb07c6db7f5537b4910790f6ea23c696c diff --git a/dev-python/numcodecs/files/numcodecs-0.11.0-nocov.patch b/dev-python/numcodecs/files/numcodecs-0.11.0-nocov.patch new file mode 100644 index 000000000..2d5e7f86e --- /dev/null +++ b/dev-python/numcodecs/files/numcodecs-0.11.0-nocov.patch @@ -0,0 +1,11 @@ +--- a/pyproject.toml ++++ b/pyproject.toml +@@ -87,7 +87,7 @@ exclude_lines = [ + ] + + [tool.pytest.ini_options] +-addopts = "--cov=numcodecs --cov-report xml --doctest-modules --doctest-glob=*.pyx" ++addopts = "--pyargs numcodecs --doctest-modules --doctest-glob=*.pyx" + doctest_optionflags = [ + "NORMALIZE_WHITESPACE", + "ELLIPSIS", diff --git a/dev-python/numcodecs/numcodecs-0.11.0.ebuild b/dev-python/numcodecs/numcodecs-0.11.0.ebuild new file mode 100644 index 000000000..500a52b89 --- /dev/null +++ b/dev-python/numcodecs/numcodecs-0.11.0.ebuild @@ -0,0 +1,49 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 pypi + +DESCRIPTION="Data storage buffer compression and transformation codecs" +HOMEPAGE="https://github.com/zarr-developers/numcodecs" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~x86" +IUSE="test" + +RDEPEND=" + dev-python/cython[${PYTHON_USEDEP}] + dev-python/entrypoints[${PYTHON_USEDEP}] + dev-python/msgpack[${PYTHON_USEDEP}] + dev-python/numpy[${PYTHON_USEDEP}] + dev-python/py-cpuinfo[${PYTHON_USEDEP}] +" + +DEPEND=" + test? ( + ${RDEPEND} + dev-python/entrypoints[${PYTHON_USEDEP}] + ) +" + +PATCHES=( + "${FILESDIR}/${P}-nocov.patch" +) + +# Reported upstream: +# https://github.com/zarr-developers/numcodecs/issues/436 +EPYTEST_DESELECT=( + tests/test_json.py::test_non_numpy_inputs + tests/test_msgpacks.py::test_non_numpy_inputs +) + +distutils_enable_tests pytest + +python_test() { + cd "${T}" || die + epytest --pyargs numcodecs +} diff --git a/dev-python/numcodecs/numcodecs-0.10.0.ebuild b/dev-python/numcodecs/numcodecs-0.12.1-r2.ebuild index b2030d332..3d20684ba 100644 --- a/dev-python/numcodecs/numcodecs-0.10.0.ebuild +++ b/dev-python/numcodecs/numcodecs-0.12.1-r2.ebuild @@ -1,30 +1,27 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 -PYTHON_COMPAT=( python3_10 ) -inherit distutils-r1 +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 pypi DESCRIPTION="Data storage buffer compression and transformation codecs" HOMEPAGE="https://github.com/zarr-developers/numcodecs" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" SLOT="0" KEYWORDS="~amd64 ~x86" IUSE="test" -# Fails to collect tests for yet unknown reasons: -# https://github.com/zarr-developers/numcodecs/issues/304 -RESTRICT="test" RDEPEND=" dev-python/cython[${PYTHON_USEDEP}] + dev-python/entrypoints[${PYTHON_USEDEP}] dev-python/msgpack[${PYTHON_USEDEP}] dev-python/numpy[${PYTHON_USEDEP}] - dev-python/cython[${PYTHON_USEDEP}] + dev-python/py-cpuinfo[${PYTHON_USEDEP}] " - DEPEND=" test? ( ${RDEPEND} @@ -33,3 +30,14 @@ DEPEND=" " distutils_enable_tests pytest + +python_compile() { + local -x DISABLE_NUMCODECS_AVX2=1 + local -x DISABLE_NUMCODECS_SSE2=1 + distutils-r1_python_compile +} + +python_test() { + cd "${T}" || die + epytest --pyargs numcodecs +} diff --git a/dev-python/numcodecs/numcodecs-0.9.0.ebuild b/dev-python/numcodecs/numcodecs-0.9.0.ebuild deleted file mode 100644 index b2030d332..000000000 --- a/dev-python/numcodecs/numcodecs-0.9.0.ebuild +++ /dev/null @@ -1,35 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_10 ) -inherit distutils-r1 - -DESCRIPTION="Data storage buffer compression and transformation codecs" -HOMEPAGE="https://github.com/zarr-developers/numcodecs" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" -IUSE="test" -# Fails to collect tests for yet unknown reasons: -# https://github.com/zarr-developers/numcodecs/issues/304 -RESTRICT="test" - -RDEPEND=" - dev-python/cython[${PYTHON_USEDEP}] - dev-python/msgpack[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/cython[${PYTHON_USEDEP}] -" - -DEPEND=" - test? ( - ${RDEPEND} - dev-python/entrypoints[${PYTHON_USEDEP}] - ) -" - -distutils_enable_tests pytest diff --git a/dev-python/numcodecs/numcodecs-0.9.1.ebuild b/dev-python/numcodecs/numcodecs-0.9.1.ebuild deleted file mode 100644 index b2030d332..000000000 --- a/dev-python/numcodecs/numcodecs-0.9.1.ebuild +++ /dev/null @@ -1,35 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_10 ) -inherit distutils-r1 - -DESCRIPTION="Data storage buffer compression and transformation codecs" -HOMEPAGE="https://github.com/zarr-developers/numcodecs" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" -IUSE="test" -# Fails to collect tests for yet unknown reasons: -# https://github.com/zarr-developers/numcodecs/issues/304 -RESTRICT="test" - -RDEPEND=" - dev-python/cython[${PYTHON_USEDEP}] - dev-python/msgpack[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/cython[${PYTHON_USEDEP}] -" - -DEPEND=" - test? ( - ${RDEPEND} - dev-python/entrypoints[${PYTHON_USEDEP}] - ) -" - -distutils_enable_tests pytest diff --git a/dev-python/numpy/Manifest b/dev-python/numpy/Manifest deleted file mode 100644 index fdd711d83..000000000 --- a/dev-python/numpy/Manifest +++ /dev/null @@ -1,4 +0,0 @@ -DIST numpy-1.23.5.tar.gz 10731755 BLAKE2B d2ed6d359a51343a1618f64604e4d5c030115caa63f2aadf2fc150775630e40fbebaad28f5657faae1365264fd45bc9efb00854bf9cd393b7628c96d6fc87db9 SHA512 8f3ece76dbe79bc887275332d25f851ade2087de3026de5fb7ed793590b3e7d274f590357296e152373b4e9a245d4d563393ba7198bca6d44631b941acb89c2c -DIST numpy-html-1.23.5.zip 27964271 BLAKE2B 0aa26d7c39f2d6b119e404dfb9642967770881ee0d640157a9ed11d16f21cd43109bed3c08f89fda457ec470292d945e2bf8b2dab56e4b36192d5e8eb3757b44 SHA512 218a2e893816af767c7cedd1f2256e05f68e59491c29277c95de653a206aaff35c5fe3bc6afd6d6d5ea7957748ec565593eb30d004e36e94c894ea4a6884902a -DIST numpy-ref-1.23.5.pdf 7715485 BLAKE2B 7fbb0ce29e86fc7cd4932a6a9f0221b579b6cae695231edfebf863e5b4c2920796d802ccf9ae3e05b331964ac7c4f51099578d91b6b7fb357c6de2110a5f7cba SHA512 6036c6a36f332b83f371c7530a6ba6f354b1334d667d2a52993a1e52aa9d94d524e216f768928a006c717ed4b4131879f6e491a294ecfd3a0d1b0f9f937a887a -DIST numpy-user-1.23.5.pdf 4123384 BLAKE2B d4587c9f979e1ef4734768598d6e106f2b4b0c8222f901a6c4caf0920e41622201252c5bd172b16346e0357138b5ff27c59e56c851be5ae3b7712624bd9cc5b4 SHA512 58e1ab96d2cfbd96df205c86f0a1a09e204349f70d21df7f8481c21ded8b46f4b9ede3216d5cce6c2b9bfc0aacbecdfa198bdb2d4c258a0dd4acb6e3ba421f9c diff --git a/dev-python/numpy/files/numpy-1.22.0-no-hardcode-blasv2.patch b/dev-python/numpy/files/numpy-1.22.0-no-hardcode-blasv2.patch deleted file mode 100644 index d87a16a4b..000000000 --- a/dev-python/numpy/files/numpy-1.22.0-no-hardcode-blasv2.patch +++ /dev/null @@ -1,50 +0,0 @@ -Originally added in: https://gitweb.gentoo.org/repo/gentoo.git/commit/dev-python/numpy/files?id=e5ce90a04e79f6413604e96e4803cb95ada7c859 -https://bugs.gentoo.org/567938 ---- a/numpy/distutils/system_info.py -+++ b/numpy/distutils/system_info.py -@@ -505,33 +505,7 @@ def get_info(name, notfound_action=0): - 'blas_armpl': blas_armpl_info, - 'lapack_armpl': lapack_armpl_info, - 'fftw3_armpl': fftw3_armpl_info, -- 'atlas': atlas_info, # use lapack_opt or blas_opt instead -- 'atlas_threads': atlas_threads_info, # ditto -- 'atlas_blas': atlas_blas_info, -- 'atlas_blas_threads': atlas_blas_threads_info, -- 'lapack_atlas': lapack_atlas_info, # use lapack_opt instead -- 'lapack_atlas_threads': lapack_atlas_threads_info, # ditto -- 'atlas_3_10': atlas_3_10_info, # use lapack_opt or blas_opt instead -- 'atlas_3_10_threads': atlas_3_10_threads_info, # ditto -- 'atlas_3_10_blas': atlas_3_10_blas_info, -- 'atlas_3_10_blas_threads': atlas_3_10_blas_threads_info, -- 'lapack_atlas_3_10': lapack_atlas_3_10_info, # use lapack_opt instead -- 'lapack_atlas_3_10_threads': lapack_atlas_3_10_threads_info, # ditto -- 'flame': flame_info, # use lapack_opt instead -- 'mkl': mkl_info, -- # openblas which may or may not have embedded lapack -- 'openblas': openblas_info, # use blas_opt instead -- # openblas with embedded lapack -- 'openblas_lapack': openblas_lapack_info, # use blas_opt instead -- 'openblas_clapack': openblas_clapack_info, # use blas_opt instead -- 'blis': blis_info, # use blas_opt instead -- 'lapack_mkl': lapack_mkl_info, # use lapack_opt instead -- 'blas_mkl': blas_mkl_info, # use blas_opt instead - 'accelerate': accelerate_info, # use blas_opt instead -- 'openblas64_': openblas64__info, -- 'openblas64__lapack': openblas64__lapack_info, -- 'openblas_ilp64': openblas_ilp64_info, -- 'openblas_ilp64_lapack': openblas_ilp64_lapack_info, - 'x11': x11_info, - 'fft_opt': fft_opt_info, - 'fftw': fftw_info, -@@ -951,10 +925,7 @@ class system_info: - return [b for b in [a.strip() for a in libs.split(',')] if b] - - def get_libraries(self, key='libraries'): -- if hasattr(self, '_lib_names'): -- return self.get_libs(key, default=self._lib_names) -- else: -- return self.get_libs(key, '') -+ return self.get_libs(key, '') - - def library_extensions(self): - c = customized_ccompiler() diff --git a/dev-python/numpy/metadata.xml b/dev-python/numpy/metadata.xml deleted file mode 100644 index 26b229a9c..000000000 --- a/dev-python/numpy/metadata.xml +++ /dev/null @@ -1,24 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <maintainer type="project"> - <email>python@gentoo.org</email> - <name>Python</name> - </maintainer> - <longdescription lang="en"> - NumPy is a general-purpose array-processing Python package designed to - efficiently manipulate large multi-dimensional arrays of arbitrary - records without sacrificing too much speed for small multi-dimensional - arrays. There are also basic facilities for discrete fourier transform, - basic linear algebra and random number generation. - It is the successor of Numeric and numarray. - </longdescription> - <upstream> - <remote-id type="github">numpy/numpy</remote-id> - <remote-id type="pypi">numpy</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/numpy/numpy-1.23.5.ebuild b/dev-python/numpy/numpy-1.23.5.ebuild deleted file mode 100644 index 51be775b9..000000000 --- a/dev-python/numpy/numpy-1.23.5.ebuild +++ /dev/null @@ -1,187 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{9..11} ) -PYTHON_REQ_USE="threads(+)" - -FORTRAN_NEEDED=lapack - -inherit distutils-r1 flag-o-matic fortran-2 toolchain-funcs - -DOC_PV=${PV} -# For when docs aren't ready yet, set to last version -#DOC_PV=1.23.0 -DESCRIPTION="Fast array and numerical python library" -HOMEPAGE=" - https://numpy.org/ - https://github.com/numpy/numpy/ - https://pypi.org/project/numpy/ -" -SRC_URI=" - mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz - doc? ( - https://numpy.org/doc/$(ver_cut 1-2 ${DOC_PV})/numpy-html.zip -> numpy-html-${DOC_PV}.zip - https://numpy.org/doc/$(ver_cut 1-2 ${DOC_PV})/numpy-ref.pdf -> numpy-ref-${DOC_PV}.pdf - https://numpy.org/doc/$(ver_cut 1-2 ${DOC_PV})/numpy-user.pdf -> numpy-user-${DOC_PV}.pdf - ) -" -LICENSE="BSD" -SLOT="0" -KEYWORDS="~alpha amd64 arm arm64 hppa ~ia64 ~loong ~m68k ~mips ppc ppc64 ~riscv ~s390 sparc x86 ~amd64-linux ~x86-linux ~ppc-macos ~x64-macos ~sparc-solaris ~x64-solaris ~x86-solaris" -IUSE="doc lapack" - -RDEPEND=" - lapack? ( - >=virtual/cblas-3.8 - >=virtual/lapack-3.8 - ) -" -BDEPEND=" - ${RDEPEND} - >=dev-python/cython-0.29.30[${PYTHON_USEDEP}] - lapack? ( - virtual/pkgconfig - ) - doc? ( - app-arch/unzip - ) - test? ( - >=dev-python/hypothesis-5.8.0[${PYTHON_USEDEP}] - >=dev-python/pytz-2019.3[${PYTHON_USEDEP}] - >=dev-python/cffi-1.14.0[${PYTHON_USEDEP}] - ) -" - -PATCHES=( - "${FILESDIR}"/numpy-1.22.0-no-hardcode-blasv2.patch -) - -distutils_enable_tests pytest - -src_unpack() { - default - if use doc; then - unzip -qo "${DISTDIR}"/numpy-html-${DOC_PV}.zip -d html || die - fi -} - -python_prepare_all() { - # Allow use with setuptools 60.x - # See numpy-1.22.1-revert-setuptools-upper-bound.patch for details - export SETUPTOOLS_USE_DISTUTILS=stdlib - - if use lapack; then - local incdir="${EPREFIX}"/usr/include - local libdir="${EPREFIX}"/usr/$(get_libdir) - cat >> site.cfg <<-EOF || die - [blas] - include_dirs = ${incdir} - library_dirs = ${libdir} - blas_libs = cblas,blas - [lapack] - library_dirs = ${libdir} - lapack_libs = lapack - EOF - else - export {ATLAS,PTATLAS,BLAS,LAPACK,MKL}=None - fi - - export CC="$(tc-getCC) ${CFLAGS}" - - append-flags -fno-strict-aliasing - - # See progress in http://projects.scipy.org/scipy/numpy/ticket/573 - # with the subtle difference that we don't want to break Darwin where - # -shared is not a valid linker argument - if [[ ${CHOST} != *-darwin* ]]; then - append-ldflags -shared - fi - - # only one fortran to link with: - # linking with cblas and lapack library will force - # autodetecting and linking to all available fortran compilers - append-fflags -fPIC - if use lapack; then - NUMPY_FCONFIG="config_fc --noopt --noarch" - # workaround bug 335908 - [[ $(tc-getFC) == *gfortran* ]] && NUMPY_FCONFIG+=" --fcompiler=gnu95" - fi - - # don't version f2py, we will handle it. - sed -i -e '/f2py_exe/s: + os\.path.*$::' numpy/f2py/setup.py || die - - distutils-r1_python_prepare_all -} - -python_compile() { - export MAKEOPTS=-j1 #660754 - - distutils-r1_python_compile ${NUMPY_FCONFIG} -} - -python_test() { - local EPYTEST_DESELECT=( - # very disk- and memory-hungry - numpy/lib/tests/test_io.py::test_large_zip - - # precision problems - numpy/core/tests/test_umath_accuracy.py::TestAccuracy::test_validate_transcendentals - - # runs the whole test suite recursively, that's just crazy - numpy/core/tests/test_mem_policy.py::test_new_policy - - # very slow, unlikely to be practically useful - numpy/typing/tests/test_typing.py - ) - - if use arm && [[ $(uname -m || echo "unknown") == "armv8l" ]] ; then - # Degenerate case. arm32 chroot on arm64. - # bug #774108 - EPYTEST_DESELECT+=( - numpy/core/tests/test_cpu_features.py::Test_ARM_Features::test_features - ) - fi - - if use x86 ; then - EPYTEST_DESELECT+=( - # https://github.com/numpy/numpy/issues/18388 - numpy/core/tests/test_umath.py::TestRemainder::test_float_remainder_overflow - # https://github.com/numpy/numpy/issues/18387 - numpy/random/tests/test_generator_mt19937.py::TestRandomDist::test_pareto - # more precision problems - numpy/core/tests/test_einsum.py::TestEinsum::test_einsum_sums_int16 - ) - fi - if use arm || use x86 ; then - EPYTEST_DESELECT+=( - # too large for 32-bit platforms - numpy/core/tests/test_ufunc.py::TestUfunc::test_identityless_reduction_huge_array - ) - fi - - distutils_install_for_testing --single-version-externally-managed \ - --record "${TMPDIR}/record.txt" ${NUMPY_FCONFIG} - - cd "${TEST_DIR}/lib" || die - epytest -k "not _fuzz" -} - -python_install() { - # https://github.com/numpy/numpy/issues/16005 - local mydistutilsargs=( build_src ) - distutils-r1_python_install ${NUMPY_FCONFIG} - python_optimize -} - -python_install_all() { - local DOCS=( LICENSE.txt README.md THANKS.txt ) - - if use doc; then - local HTML_DOCS=( "${WORKDIR}"/html/. ) - DOCS+=( "${DISTDIR}"/${PN}-{user,ref}-${DOC_PV}.pdf ) - fi - - distutils-r1_python_install_all -} diff --git a/dev-python/nwbinspector/Manifest b/dev-python/nwbinspector/Manifest index 1db41ecc8..d4db5e2f3 100644 --- a/dev-python/nwbinspector/Manifest +++ b/dev-python/nwbinspector/Manifest @@ -1,3 +1,2 @@ -DIST nwbinspector-0.4.12.gh.tar.gz 455926 BLAKE2B 4bb8b493367593fdd575535e574b8494980a60a6ed1983a08f895c106e03e25ad6cd76b6c72cfcc42a34778d5059c90940bc9907dc9d87569df79aeae1698135 SHA512 60bb799beaff61612e7993069a34f62e0b6053dc3e820474f33c020c02f8c7b11bed0bca7e2bb335edfd60b06159be90b1a50dfcd497f6a3fb0916dc49cf17b7 -DIST nwbinspector-0.4.14.gh.tar.gz 469679 BLAKE2B 96fc92be4b52626b6533ca3d6f9584991543b2de392733af70d7d71d2a98bc8c1455a78ea0a8a6682cd4c52d0e8ed7ebcb0ac439aea9e4a5503f1dbd8b8ef148 SHA512 a1199460420b092a1e9a8803d0f881c7998e4a75e3878cb80b1b44624b1984a63aca39d4b2631339f25a00fb46982289463a062324388edfdebff27e0b8c9faa DIST nwbinspector-0.4.19.gh.tar.gz 570101 BLAKE2B f3950a8e24225fe490a6454ab5cd429bcb741eeee9cf12591089508600d283b4242ef70427e116960d16367e16c6d5a5869cfcedd829500ce920387d8ebca916 SHA512 3ecd7d1db1d53c0ec5db986a211e56b4818c165a376d15e7a79ede9c8ca45560b6f302e3c9b1e960153d632bfa759660be4e44540399e272be3728d76fd52a7c +DIST nwbinspector-0.4.26.gh.tar.gz 575576 BLAKE2B 5ec888fc578dd0225b346426b93193f1a08cf92fa9c11e7653773c6bd74603c9e3456514209b3e2a12cf9d868f6004b64700c98212f3837b4b77096dff23ea72 SHA512 901df8422aa3b8666f01e9a6389c22f7caca30007494cb8680ee228bb58a9192f4f35a2426f38f068df5e938fe192db6db4d5626d00ca96e766114dd301efce3 diff --git a/dev-python/nwbinspector/nwbinspector-0.4.14.ebuild b/dev-python/nwbinspector/nwbinspector-0.4.14.ebuild deleted file mode 100644 index 5f5bc2045..000000000 --- a/dev-python/nwbinspector/nwbinspector-0.4.14.ebuild +++ /dev/null @@ -1,39 +0,0 @@ -# Copyright 2022-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) -inherit distutils-r1 - -DESCRIPTION="Inspect NWB files for compliance with NWB Best Practices" -HOMEPAGE="https://github.com/NeurodataWithoutBorders/nwbinspector" -SRC_URI="https://github.com/NeurodataWithoutBorders/nwbinspector/archive/refs/tags/v${PV}.tar.gz -> ${P}.gh.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~x86" -IUSE="test" -RESTRICT="!test? ( test )" - -DEPEND="" -RDEPEND=" - dev-python/click[${PYTHON_USEDEP}] - dev-python/jsonschema[${PYTHON_USEDEP}] - dev-python/natsort[${PYTHON_USEDEP}] - dev-python/pynwb[${PYTHON_USEDEP}] - dev-python/pyyaml[${PYTHON_USEDEP}] - dev-python/tqdm[${PYTHON_USEDEP}] -" -BDEPEND="" - -distutils_enable_tests pytest - -python_test() { - local EPYTEST_IGNORE=( - tests/test_inspector.py - tests/unit_tests/test_time_series.py - ) - epytest -} diff --git a/dev-python/nwbinspector/nwbinspector-0.4.19.ebuild b/dev-python/nwbinspector/nwbinspector-0.4.19.ebuild index a80527994..b4b5f7448 100644 --- a/dev-python/nwbinspector/nwbinspector-0.4.19.ebuild +++ b/dev-python/nwbinspector/nwbinspector-0.4.19.ebuild @@ -4,7 +4,7 @@ EAPI=8 DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) inherit distutils-r1 DESCRIPTION="Inspect NWB files for compliance with NWB Best Practices" diff --git a/dev-python/nwbinspector/nwbinspector-0.4.12.ebuild b/dev-python/nwbinspector/nwbinspector-0.4.26-r1.ebuild index 5f5bc2045..271dbfb1d 100644 --- a/dev-python/nwbinspector/nwbinspector-0.4.12.ebuild +++ b/dev-python/nwbinspector/nwbinspector-0.4.26-r1.ebuild @@ -4,7 +4,7 @@ EAPI=8 DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) inherit distutils-r1 DESCRIPTION="Inspect NWB files for compliance with NWB Best Practices" @@ -20,6 +20,7 @@ RESTRICT="!test? ( test )" DEPEND="" RDEPEND=" dev-python/click[${PYTHON_USEDEP}] + dev-python/isodate[${PYTHON_USEDEP}] dev-python/jsonschema[${PYTHON_USEDEP}] dev-python/natsort[${PYTHON_USEDEP}] dev-python/pynwb[${PYTHON_USEDEP}] @@ -29,11 +30,3 @@ RDEPEND=" BDEPEND="" distutils_enable_tests pytest - -python_test() { - local EPYTEST_IGNORE=( - tests/test_inspector.py - tests/unit_tests/test_time_series.py - ) - epytest -} diff --git a/dev-python/palettable/Manifest b/dev-python/palettable/Manifest deleted file mode 100644 index 2fd3a2291..000000000 --- a/dev-python/palettable/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST palettable-3.3.0.tar.gz 105475 BLAKE2B bd3745e428b8273c1ce8ebca89cb99ba988fbf6bcfc11a387a946938dd8e573a8b9aadf3288b3a4c9a794add1c3b64f77519188a7025a1cb85de129e476429a4 SHA512 6689b009d3a7face36c0d3eaf2bee6a5e8f364f25f30e06924ec61d730c95921ef37cfc857a93b07a772a7b347e805ae8139f056478378a6c8669f853d5df810 diff --git a/dev-python/palettable/palettable-3.3.0.ebuild b/dev-python/palettable/palettable-3.3.0.ebuild deleted file mode 100644 index 1288d9233..000000000 --- a/dev-python/palettable/palettable-3.3.0.ebuild +++ /dev/null @@ -1,34 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 -PYTHON_COMPAT=( python3_{7..9} ) - -inherit distutils-r1 - -DESCRIPTION="library of color palettes for python" -HOMEPAGE="https://github.com/jiffyclub/palettable" - -if [ ${PV} == "9999" ] ; then - inherit git-r3 - EGIT_REPO_URI="https://github.com/jiffyclub/palettable.git" -else - SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - KEYWORDS="~amd64" -fi - -LICENSE="MIT" -SLOT="0" - -RDEPEND=" - ${PYTHON_DEPS} - dev-python/matplotlib[${PYTHON_USEDEP}] -" -DEPEND="${RDEPEND}" - -distutils_enable_tests pytest - -python_test() { - distutils_install_for_testing - pytest -vv || die "tests failed for ${EPYTHON}" -} diff --git a/dev-python/palettable/palettable-9999.ebuild b/dev-python/palettable/palettable-9999.ebuild deleted file mode 100644 index 1288d9233..000000000 --- a/dev-python/palettable/palettable-9999.ebuild +++ /dev/null @@ -1,34 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 -PYTHON_COMPAT=( python3_{7..9} ) - -inherit distutils-r1 - -DESCRIPTION="library of color palettes for python" -HOMEPAGE="https://github.com/jiffyclub/palettable" - -if [ ${PV} == "9999" ] ; then - inherit git-r3 - EGIT_REPO_URI="https://github.com/jiffyclub/palettable.git" -else - SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - KEYWORDS="~amd64" -fi - -LICENSE="MIT" -SLOT="0" - -RDEPEND=" - ${PYTHON_DEPS} - dev-python/matplotlib[${PYTHON_USEDEP}] -" -DEPEND="${RDEPEND}" - -distutils_enable_tests pytest - -python_test() { - distutils_install_for_testing - pytest -vv || die "tests failed for ${EPYTHON}" -} diff --git a/dev-python/pandas-stubs/Manifest b/dev-python/pandas-stubs/Manifest new file mode 100644 index 000000000..856ff2fe2 --- /dev/null +++ b/dev-python/pandas-stubs/Manifest @@ -0,0 +1 @@ +DIST pandas-stubs-2.1.1.230928.gh.tar.gz 192865 BLAKE2B f3604def27a3ba7444969473c5800f7cc72fd4487f2363f326de6d637f1b6b60d2a8707f6cbb2647389691fbd856a2e7e5cf3710c0ad014ae106472c76dfb1c8 SHA512 5f9e71f187d1532388a98e0139852098c00d44d3ddf32fc3bad1c5199291c7dd4af82b2d73605b1e16b09a79f3b9df02752b37cf87fcb222faee9e704f52dd47 diff --git a/dev-python/pandas-stubs/metadata.xml b/dev-python/pandas-stubs/metadata.xml new file mode 100644 index 000000000..8cbc804ad --- /dev/null +++ b/dev-python/pandas-stubs/metadata.xml @@ -0,0 +1,16 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="project"> + <email>python@gentoo.org</email> + <name>Gentoo Python Project</name> + </maintainer> + <maintainer type="person"> + <email>gentoo@chymera.eu</email> + <name>Horea Christian</name> + </maintainer> + <upstream> + <remote-id type="github">pandas-dev/pandas-stubs</remote-id> + <remote-id type="pypi">pandas-stubs</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/pandas-stubs/pandas-stubs-2.1.1.230928.ebuild b/dev-python/pandas-stubs/pandas-stubs-2.1.1.230928.ebuild new file mode 100644 index 000000000..e10fd1aca --- /dev/null +++ b/dev-python/pandas-stubs/pandas-stubs-2.1.1.230928.ebuild @@ -0,0 +1,52 @@ +# Copyright 2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=poetry +PYTHON_COMPAT=( python3_{10..11} ) +inherit distutils-r1 + +DESCRIPTION="Public type stubs for pandas" +HOMEPAGE="https://github.com/pandas-dev/pandas-stubs" +SRC_URI="https://github.com/pandas-dev/pandas-stubs/archive/refs/tags/v${PV}.tar.gz -> ${P}.gh.tar.gz" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64" +# Allegedly also needs dev-python/types-pytz (available in ::guru), but somehow works without it... +# https://github.com/pandas-dev/pandas-stubs/blob/3c2affdaeb1cb03777cc59832dcdd4b030add27d/pyproject.toml#L34 +RDEPEND=" + dev-python/numpy[${PYTHON_USEDEP}] +" +BDEPEND=" + test? ( + dev-python/xarray[${PYTHON_USEDEP}] + dev-python/pyarrow[${PYTHON_USEDEP}] + ) +" + +EPYTEST_DESELECT=( + # Package has a bunch of test deps missing from ::gentoo and ::science + tests/test_frame.py::test_to_markdown + tests/test_frame.py::test_types_to_feather + tests/test_io.py::test_orc + tests/test_io.py::test_orc_path + tests/test_io.py::test_orc_buffer + tests/test_io.py::test_orc_columns + tests/test_io.py::test_orc_bytes + tests/test_io.py::test_hdf + tests/test_io.py::test_hdfstore + tests/test_io.py::test_read_hdf_iterator + tests/test_io.py::test_hdf_context_manager + tests/test_io.py::test_hdf_series + tests/test_io.py::test_spss + tests/test_io.py::test_parquet + tests/test_io.py::test_parquet_options + tests/test_io.py::test_excel_writer_engine + tests/test_io.py::test_all_read_without_lxml_dtype_backend + tests/test_series.py::test_types_agg + tests/test_series.py::test_types_aggregate +) + +distutils_enable_tests pytest diff --git a/dev-python/panel/Manifest b/dev-python/panel/Manifest index 5bd9272be..459ed3f61 100644 --- a/dev-python/panel/Manifest +++ b/dev-python/panel/Manifest @@ -1,3 +1 @@ -DIST panel-0.11.0.tar.gz 9682808 BLAKE2B 2f953aaa9e791433d254219ad3cf9efdd486164e713f41a3539628a6c87f5b7b800ebd166537d021799ce74dddd3bc259343e6ec4161d0d87393864502215a00 SHA512 6fa2e04dd758583db851fa7d36592b7fb10ad2838b1f51fb53cb9ead4b5504a975ca040525f3f210ff0a67e8ce579195d980570b2d7616308cc126c61a9e9f59 -DIST panel-0.14.1.tar.gz 20052944 BLAKE2B 225c42562f7b5922380eca6f58da38ef228dbcb46ada930f7e0423fe2ce0d81d23d026b3f375a5bd46b521f6e49293f861cf92bc4d5044414818e0e1f787b0de SHA512 4d730a4555fffcb543b22900a17ad377eadb36a890ecc6cf873726da12c067d1cfeaf9626a0e4559b5c08e5646abb5c5cc0f28201341d9989f2c8fb345f8ecbd DIST panel-0.14.2.tar.gz 20352366 BLAKE2B 429a2da7e92cc1b0f3a42fc120eddc4a8a54e3805c1ca249aad7c243cef0092959e62a13b0f9c64c4765a6d2533b6519a90640e85d4d512a257df40fff1a4522 SHA512 c611e4bc592edeca5920441102cf7baea336016b9f90778c05fc61c57a4b8b48c80e16c182daa1763440be10c6a0ffabb80699bf6aaa96e03566b4ac55b56f4b diff --git a/dev-python/panel/panel-0.11.0.ebuild b/dev-python/panel/panel-0.11.0.ebuild deleted file mode 100644 index 072c763ad..000000000 --- a/dev-python/panel/panel-0.11.0.ebuild +++ /dev/null @@ -1,61 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..10} ) - -# Panel imports from "distutils" at runtime. -DISTUTILS_USE_SETUPTOOLS=rdepend - -inherit distutils-r1 - -DESCRIPTION="High-level app and dashboarding solution for Python" -HOMEPAGE="https://panel.holoviz.org" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -# "setup.py" imports from Bokeh to rebuild Node.js packages, but we patch that -# away below. Our patched Panel thus requires Bokeh only at runtime. -DEPEND=" - >=dev-python/param-1.10.0[${PYTHON_USEDEP}] - >=dev-python/pyct-0.4.4[${PYTHON_USEDEP}] -" -RDEPEND="${DEPEND} - dev-python/markdown[${PYTHON_USEDEP}] - dev-python/requests[${PYTHON_USEDEP}] - dev-python/tqdm[${PYTHON_USEDEP}] - >=dev-python/bokeh-2.3.0[${PYTHON_USEDEP}] - >=dev-python/pyviz_comms-0.7.4[${PYTHON_USEDEP}] - >=net-libs/nodejs-15.11.0 -" - -src_prepare() { - # Install Jupyter configuration files to "/etc" rather than "/usr/etc". - sed -i -e 's~"etc/jupyter~"/etc/jupyter~' setup.py || die - - # Prevent Panel from violating network sandboxing. By default, "setup.py" - # invokes "npm" to rebuild Node.js packages bundled with Panel when these - # packages were built by Panel developers with a different version of Bokeh - # than that installed on the local system. Since disabling this - # functionality invites backend and frontend complications, we encourage - # server administrators to manually perform this functionality below. - sed -i -e '/^\s*_build_paneljs()$/d' setup.py || die - - default_src_prepare -} - -pkg_postinst() { - panel_pkg_postinst() { - PANEL_DIR="$(${EPYTHON} -c 'import os, panel; print(os.path.dirname(panel.__file__))')" - elog "Node.js packages bundled with Panel under ${EPYTHON} may be" - elog "desynchronized from Bokeh and require manual rebuilding with:" - elog " sudo ${EPYTHON} -m panel build \"${PANEL_DIR}\"" - elog - } - - python_foreach_impl panel_pkg_postinst -} diff --git a/dev-python/panel/panel-0.14.1.ebuild b/dev-python/panel/panel-0.14.1.ebuild deleted file mode 100644 index aa535f46f..000000000 --- a/dev-python/panel/panel-0.14.1.ebuild +++ /dev/null @@ -1,55 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..10} ) - -# Panel imports from "distutils" at runtime. -DISTUTILS_USE_SETUPTOOLS=rdepend - -inherit distutils-r1 - -DESCRIPTION="High-level app and dashboarding solution for Python" -HOMEPAGE="https://panel.holoviz.org" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -# "setup.py" imports from Bokeh to rebuild Node.js packages, but we patch that -# away below. Our patched Panel thus requires Bokeh only at runtime. -DEPEND=" - >=dev-python/param-1.10.0[${PYTHON_USEDEP}] - >=dev-python/pyct-0.4.4[${PYTHON_USEDEP}] -" -RDEPEND="${DEPEND} - dev-python/markdown[${PYTHON_USEDEP}] - dev-python/requests[${PYTHON_USEDEP}] - dev-python/tqdm[${PYTHON_USEDEP}] - >=dev-python/bokeh-2.3.0[${PYTHON_USEDEP}] - >=dev-python/pyviz_comms-0.7.4[${PYTHON_USEDEP}] - >=net-libs/nodejs-15.11.0 -" - -PATCHES=( "${FILESDIR}/${P}-disable_lite_build.patch" ) - -src_prepare() { - # Install Jupyter configuration files to "/etc" rather than "/usr/etc". - sed -i -e 's~"etc/jupyter~"/etc/jupyter~' setup.py || die - - default_src_prepare -} - -pkg_postinst() { - panel_pkg_postinst() { - PANEL_DIR="$(${EPYTHON} -c 'import os, panel; print(os.path.dirname(panel.__file__))')" - elog "Node.js packages bundled with Panel under ${EPYTHON} may be" - elog "desynchronized from Bokeh and require manual rebuilding with:" - elog " sudo ${EPYTHON} -m panel build \"${PANEL_DIR}\"" - elog - } - - python_foreach_impl panel_pkg_postinst -} diff --git a/dev-python/panel/panel-0.14.2.ebuild b/dev-python/panel/panel-0.14.2-r1.ebuild index 866110947..4674f8161 100644 --- a/dev-python/panel/panel-0.14.2.ebuild +++ b/dev-python/panel/panel-0.14.2-r1.ebuild @@ -3,16 +3,14 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..10} ) - +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools # Panel imports from "distutils" at runtime. -DISTUTILS_USE_SETUPTOOLS=rdepend - -inherit distutils-r1 +#DISTUTILS_USE_SETUPTOOLS=rdepend +inherit distutils-r1 pypi DESCRIPTION="High-level app and dashboarding solution for Python" HOMEPAGE="https://panel.holoviz.org" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" @@ -23,6 +21,7 @@ KEYWORDS="~amd64 ~x86" DEPEND=" >=dev-python/param-1.10.0[${PYTHON_USEDEP}] >=dev-python/pyct-0.4.4[${PYTHON_USEDEP}] + dev-python/bleach[${PYTHON_USEDEP}] " RDEPEND="${DEPEND} dev-python/markdown[${PYTHON_USEDEP}] diff --git a/dev-python/persim/Manifest b/dev-python/persim/Manifest index 44487ab15..b45fc4da3 100644 --- a/dev-python/persim/Manifest +++ b/dev-python/persim/Manifest @@ -1,4 +1 @@ -DIST persim-0.1.3.tar.gz 24345 BLAKE2B df407f22226797274e64766fac98733a7c006b7577bd21432bd109f17674192b1e520744e897b5baa207aef2f9bedaa6beab6412d550090c21072860c9a9f2d1 SHA512 4d177367213353eac3bd57b1450bace3ded25480b256f700d1d5daf7f8fc63204af3bdff45f71c85d8ac4a2d3f923fac00a568d43753b321c25ab98e77010349 -DIST persim-0.2.0.tar.gz 35005 BLAKE2B c3399ec13274e7fd105dccf5abdf85b973ec387196fd8659636173fa4e19bb6d8b9d8dba10d1382239d32d938a6f472b9201c7a54df7924802af3adc40d8aa8a SHA512 0bcfcc2fbf8d0449d680a8805281d01481513c060fa9ecc5f3d44ed70cda791d625bfe77fee954a186f77032f6447907f987c679a2c3bd7adc17a46eb753d083 -DIST persim-0.3.0.tar.gz 49716 BLAKE2B 8cea73e9486ecebfc5f73975341e6094d1c374d3c13b3b849988357ebec7d77ce4f59512388e7748b83c67fe32d3481dc1c9d7a74984d5faa7f8928bfcd282dd SHA512 575f21e8ae2cac7a609d8eb3691f1e7550139be2c0cbb63ff3dceefd923e42888b1ca40eef39c631e1351cdbe3c1c5a4371f4a61f0075588b13ced98ae2663a2 DIST persim-0.3.1.tar.gz 50438 BLAKE2B 774f0adc67ec6af7e297e73a75a3c4eb6004b0ec43d685eca29e20b0b6ef214fafed638e4c1c6eb10b5dad0b836883f3396c6ed323d4530d832c2e655f5353c2 SHA512 b35884d202a98449b719527987fdf07b88b42252d403f7f0b18a2507f63db496d49e389eca5019c540ebcdc99b63b07df73f43bc7780488a6e7e6958e0017b70 diff --git a/dev-python/persim/metadata.xml b/dev-python/persim/metadata.xml index 2f2c0b51c..ea34f9f89 100644 --- a/dev-python/persim/metadata.xml +++ b/dev-python/persim/metadata.xml @@ -9,4 +9,7 @@ <email>sci@gentoo.org</email> <name>Gentoo Science Project</name> </maintainer> + <upstream> + <remote-id type="pypi">persim</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/persim/persim-0.1.3.ebuild b/dev-python/persim/persim-0.1.3.ebuild deleted file mode 100644 index e8aad47df..000000000 --- a/dev-python/persim/persim-0.1.3.ebuild +++ /dev/null @@ -1,37 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..10} ) -DISTUTILS_USE_PEP517=setuptools - -inherit distutils-r1 - -DESCRIPTION="Distances and representations of persistence diagrams" -HOMEPAGE="https://persim.scikit-tda.org/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND="${PYTHON_DEPS} - dev-python/hopcroftkarp[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/plotly[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - sci-libs/scikit-learn[${PYTHON_USEDEP}] -" - -distutils_enable_tests pytest - -EPYTEST_DESELECT=( - # Reported upsream: - # https://github.com/scikit-tda/persim/issues/64 - test/test_persim.py::test_integer_diagrams - test/test_persim.py::TestEmpty::test_empyt_diagram_list - test/test_persim.py::TestTransforms::test_lists_of_lists - test/test_persim.py::TestTransforms::test_n_pixels - test/test_persim.py::TestTransforms::test_multiple_diagrams -) diff --git a/dev-python/persim/persim-0.2.0.ebuild b/dev-python/persim/persim-0.2.0.ebuild deleted file mode 100644 index 792839a0b..000000000 --- a/dev-python/persim/persim-0.2.0.ebuild +++ /dev/null @@ -1,44 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..10} ) -DISTUTILS_USE_PEP517=setuptools - -inherit distutils-r1 - -DESCRIPTION="Distances and representations of persistence diagrams" -HOMEPAGE="https://persim.scikit-tda.org/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND="${PYTHON_DEPS} - dev-python/hopcroftkarp[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/plotly[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - sci-libs/scikit-learn[${PYTHON_USEDEP}] -" - -distutils_enable_tests pytest - -EPYTEST_DESELECT=( - # Reported upsream: - # https://github.com/scikit-tda/persim/issues/65 - test/test_persim.py::test_integer_diagrams - test/test_persim.py::TestEmpty::test_empyt_diagram_list - test/test_persim.py::TestTransforms::test_lists_of_lists - test/test_persim.py::TestTransforms::test_n_pixels - test/test_persim.py::TestTransforms::test_multiple_diagrams - test/test_persistence_imager.py::test_empty_diagram_list - test/test_persistence_imager.py::test_fit_diagram - test/test_persistence_imager.py::test_fit_diagram_list - test/test_persistence_imager.py::test_mixed_pairs - test/test_persistence_imager.py::TestTransformOutput::test_lists_of_lists - test/test_persistence_imager.py::TestTransformOutput::test_n_pixels - test/test_persistence_imager.py::TestTransformOutput::test_multiple_diagrams -) diff --git a/dev-python/persim/persim-0.3.0.ebuild b/dev-python/persim/persim-0.3.0.ebuild deleted file mode 100644 index 91b9514ad..000000000 --- a/dev-python/persim/persim-0.3.0.ebuild +++ /dev/null @@ -1,47 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..10} ) -DISTUTILS_USE_PEP517=setuptools - -inherit distutils-r1 - -DESCRIPTION="Distances and representations of persistence diagrams" -HOMEPAGE="https://persim.scikit-tda.org/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND="${PYTHON_DEPS} - dev-python/hopcroftkarp[${PYTHON_USEDEP}] - dev-python/matplotlib[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/plotly[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - sci-libs/scikit-learn[${PYTHON_USEDEP}] -" -BDEPEND="test? ( dev-python/deprecated[${PYTHON_USEDEP}] )" - -distutils_enable_tests pytest - -EPYTEST_DESELECT=( - # Reported upsream: - # https://github.com/scikit-tda/persim/issues/66 - test/test_landscapes.py::TestPersLandscapeExact::test_exact_critical_pairs - test/test_persim.py::test_integer_diagrams - test/test_persim.py::TestEmpty::test_empyt_diagram_list - test/test_persim.py::TestTransforms::test_lists_of_lists - test/test_persim.py::TestTransforms::test_n_pixels - test/test_persim.py::TestTransforms::test_multiple_diagrams - test/test_persistence_imager.py::test_empty_diagram_list - test/test_persistence_imager.py::test_fit_diagram - test/test_persistence_imager.py::test_fit_diagram_list - test/test_persistence_imager.py::test_mixed_pairs - test/test_persistence_imager.py::TestTransformOutput::test_lists_of_lists - test/test_persistence_imager.py::TestTransformOutput::test_n_pixels - test/test_persistence_imager.py::TestTransformOutput::test_multiple_diagrams -) diff --git a/dev-python/persim/persim-0.3.1.ebuild b/dev-python/persim/persim-0.3.1.ebuild index 91b9514ad..994dca206 100644 --- a/dev-python/persim/persim-0.3.1.ebuild +++ b/dev-python/persim/persim-0.3.1.ebuild @@ -3,20 +3,19 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..10} ) +PYTHON_COMPAT=( python3_{10..11} ) DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Distances and representations of persistence diagrams" HOMEPAGE="https://persim.scikit-tda.org/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" SLOT="0" -KEYWORDS="~amd64 ~x86" +KEYWORDS="~amd64" -RDEPEND="${PYTHON_DEPS} +RDEPEND=" dev-python/hopcroftkarp[${PYTHON_USEDEP}] dev-python/matplotlib[${PYTHON_USEDEP}] dev-python/numpy[${PYTHON_USEDEP}] diff --git a/dev-python/photutils/Manifest b/dev-python/photutils/Manifest index bbd7ab4a7..00cdad6e8 100644 --- a/dev-python/photutils/Manifest +++ b/dev-python/photutils/Manifest @@ -1 +1 @@ -DIST photutils-1.0.1.tar.gz 995604 BLAKE2B 552e66cfb20db193da97da570dfd6116eb6674b38c1510393c35e6929a7b9717ee75ecf06cfe874a628b6e096a57bd68ebc79a3f52c5ef94ef384e03e2543784 SHA512 3abcace35fde3b8c4de99c56afe813db50bde87bf1aeda65b1b37edf7c9409420f3aa62bd6b98ae4f381542c1fd3aff100b19220f6a7210f2a0c06f8a039f1b5 +DIST photutils-1.6.0.tar.gz 1062334 BLAKE2B dd694299ab52e561f3ba419bd3f2329d73017cefd2ab84dcd278dd93b290fb45457ccc6b9bd0cac769f0bce9a4e3ddd15c097a8345fc5a63af52b5c9aa577f4c SHA512 6d7e20f032f7417cedaaf29692b790a597b1a0e8a2d4e25605c2e598e6908de7e1a76e075f02cb1f281df586d9e6d45d0d61bc16eb3996c41568c9d1478725ed diff --git a/dev-python/photutils/metadata.xml b/dev-python/photutils/metadata.xml index 5c3d380b2..8069e65c7 100644 --- a/dev-python/photutils/metadata.xml +++ b/dev-python/photutils/metadata.xml @@ -12,5 +12,6 @@ centroid and shape parameters, and performing photometry. </longdescription> <upstream> <remote-id type="github">astropy/photutils</remote-id> + <remote-id type="pypi">photutils</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/photutils/photutils-1.0.1.ebuild b/dev-python/photutils/photutils-1.6.0.ebuild index ac34ff93a..a1fa5f2d2 100644 --- a/dev-python/photutils/photutils-1.0.1.ebuild +++ b/dev-python/photutils/photutils-1.6.0.ebuild @@ -1,15 +1,15 @@ # Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=7 +EAPI=8 -PYTHON_COMPAT=( python3_{7,8,9} ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Affiliated package for image photometry utilities" HOMEPAGE="https://github.com/astropy/photutils" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" @@ -37,4 +37,4 @@ distutils_enable_tests pytest # dev-python/scipy \ # dev-python/matplotlib \ # sci-libs/scikit-learn \ -# sci-libs/scikit-image \ +# dev-python/scikit-image \ diff --git a/dev-python/plac/Manifest b/dev-python/plac/Manifest new file mode 100644 index 000000000..f50e462dc --- /dev/null +++ b/dev-python/plac/Manifest @@ -0,0 +1 @@ +DIST plac-1.4.2.tar.gz 37595 BLAKE2B 5205e9d8a5a775eb2e23ea7ad30e576417a8ba944cb196ccb7a16b514b6c4902856a7191b1bbf71ab0176910b5d8dc163ab36fe3fb0c5bb5765c02d16ae347b1 SHA512 c8c320cabda42f33071d7675b64befab8344bde746d0befe661a9bb26f658559435d2895dad0a27dc1d7c2dc59f07a359b529880e115d900b4fca8f245186742 diff --git a/dev-python/plac/metadata.xml b/dev-python/plac/metadata.xml new file mode 100644 index 000000000..98f0f918b --- /dev/null +++ b/dev-python/plac/metadata.xml @@ -0,0 +1,16 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>mschu.dev@gmail.com</email> + <name>Michael Schubert</name> + </maintainer> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <upstream> + <remote-id type="github">ialbert/plac</remote-id> + <remote-id type="pypi">plac</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/plac/plac-1.4.2.ebuild b/dev-python/plac/plac-1.4.2.ebuild new file mode 100644 index 000000000..50b269f42 --- /dev/null +++ b/dev-python/plac/plac-1.4.2.ebuild @@ -0,0 +1,23 @@ +# Copyright 1999-2018 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( pypy3 python3_{10..12} ) + +inherit pypi distutils-r1 + +DESCRIPTION="Parsing the Command Line the Easy Way" +HOMEPAGE="https://pypi.org/project/plac/" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux" + +EPYTEST_DESELECT=( + # Missing index.rst + doc/test_plac.py::test_doctest +) + +distutils_enable_tests pytest diff --git a/dev-python/probeinterface/Manifest b/dev-python/probeinterface/Manifest index b2c8e3956..189bbfcaf 100644 --- a/dev-python/probeinterface/Manifest +++ b/dev-python/probeinterface/Manifest @@ -1,3 +1,3 @@ -DIST probeinterface-0.2.11.gh.tar.gz 194474 BLAKE2B 806d1d83a47fdd3a3196386d08ac5cee7f8561547be819fe814f67265e5b1e31e35107a047ed5c5ae533123b318ab6dca4b37ec8ddb6d30431644402b499b5d2 SHA512 a7e12fba55b952dea3b062dde37178b02259424ec82f788bb210a94cf7fb48d325045f2451c3e764b68563948fe81b60d1d378827a15ae5470931b120b2bc10d DIST probeinterface-0.2.14.gh.tar.gz 210232 BLAKE2B 5a2c4fb5bc0f1315777a70b4292a30b135022e3a70608584070088c5ff42b0e1474714472a306196b390e103b45eea70cb89e01cc5dca90b0c31ac4f44810c24 SHA512 e0f5cf5b6560f8c4e578cab708308c36ecf81446c0db684b520e1436e864f2f4e0dce0015461c7cfcba19a0c1c54345b2d55b972de5f4338b02b90731cff52c2 -DIST probeinterface-0.2.5.gh.tar.gz 154572 BLAKE2B fdd339fdeec0c71f404fb96665b7d92db29d15f84163924d4508cbe17bf88b4a95e0296c48cf8f878034ed0ce3b249e750363ad32385b2e9d3e83900a760bebe SHA512 fdf170e1e4057445b0c8701105c7e6283258b460b1250e992f9896d6d3a0feacf3eb7dc6f8b35b77f591e1654930bd20d548758ea01b5d4cdb15a57dac24c4f9 +DIST probeinterface-0.2.16.gh.tar.gz 302386 BLAKE2B e2124774f2f50779f1dc67b682085d87691c935909ab81591f005abd756c0925837b97e97bf651e2a84e2276f57bf6fd1df6de6289431b16227dc9caa6cea51c SHA512 7c38534dbcab837df1289074db054e31c0768bceefafeb6d70051f88a6ac289d664d77cd6c456f40e7c52a7b60a09e80a4a4fe5e8f491121157b0bbb4d5c1f84 +DIST probeinterface-0.2.20.gh.tar.gz 1930434 BLAKE2B 0087f82f8cea3e1eb225ba188487eb3862de8444cadb0cf76ebba1046f194eb1f369bab7b3ff35eb6b99c054409b902c1907037d42aa84d0d4253a47fa6009ce SHA512 16cee1845d4cd40f1bfdea654fff99ea5949fbd8606ffc038ea0ca27d6a4f3faa65e2dd448bcda1066c0d2984ce7e3995a0ead028ef57ae59743c34c6c5a4c39 diff --git a/dev-python/probeinterface/probeinterface-0.2.14.ebuild b/dev-python/probeinterface/probeinterface-0.2.14.ebuild index d3827a5e9..75dd43bd4 100644 --- a/dev-python/probeinterface/probeinterface-0.2.14.ebuild +++ b/dev-python/probeinterface/probeinterface-0.2.14.ebuild @@ -1,10 +1,10 @@ -# Copyright 2021-2022 Gentoo Authors +# Copyright 2021-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) inherit distutils-r1 DESCRIPTION="Python package to handle probe layout, geometry and wiring to device" diff --git a/dev-python/probeinterface/probeinterface-0.2.5.ebuild b/dev-python/probeinterface/probeinterface-0.2.16.ebuild index 15579b701..75dd43bd4 100644 --- a/dev-python/probeinterface/probeinterface-0.2.5.ebuild +++ b/dev-python/probeinterface/probeinterface-0.2.16.ebuild @@ -1,15 +1,17 @@ -# Copyright 2021-2022 Gentoo Authors +# Copyright 2021-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) inherit distutils-r1 DESCRIPTION="Python package to handle probe layout, geometry and wiring to device" HOMEPAGE="https://github.com/SpikeInterface/probeinterface" SRC_URI="https://github.com/SpikeInterface/probeinterface/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" +# upstream doesn't pus test dir to pypi, https://github.com/SpikeInterface/probeinterface/issues/145 +#SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" SLOT="0" diff --git a/dev-python/probeinterface/probeinterface-0.2.11.ebuild b/dev-python/probeinterface/probeinterface-0.2.20.ebuild index 15579b701..75dd43bd4 100644 --- a/dev-python/probeinterface/probeinterface-0.2.11.ebuild +++ b/dev-python/probeinterface/probeinterface-0.2.20.ebuild @@ -1,15 +1,17 @@ -# Copyright 2021-2022 Gentoo Authors +# Copyright 2021-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) inherit distutils-r1 DESCRIPTION="Python package to handle probe layout, geometry and wiring to device" HOMEPAGE="https://github.com/SpikeInterface/probeinterface" SRC_URI="https://github.com/SpikeInterface/probeinterface/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" +# upstream doesn't pus test dir to pypi, https://github.com/SpikeInterface/probeinterface/issues/145 +#SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" SLOT="0" diff --git a/dev-python/prov/Manifest b/dev-python/prov/Manifest new file mode 100644 index 000000000..afbcb1608 --- /dev/null +++ b/dev-python/prov/Manifest @@ -0,0 +1 @@ +DIST prov-2.0.0.tar.gz 131878 BLAKE2B 65f14ad3a7dc6e10d03b0d778be02d3a3a7e4cae7b8aedf54117446eefe51546fb30e9ca602b2d5780fab8abde4ed1d56ed7385815db64a7879623a481b050be SHA512 6d05c88855f23d5dc22b0eccce0af935c0ad3d227b7a257ff205ad8566ed9607f614c13427ac8dd922e79bd477ca125b9d3f9492f5f65ae55ab8e8f3b9b97307 diff --git a/dev-python/prov/metadata.xml b/dev-python/prov/metadata.xml new file mode 100644 index 000000000..d1559163d --- /dev/null +++ b/dev-python/prov/metadata.xml @@ -0,0 +1,14 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <!-- maintainer-needed --> + <longdescription lang="en"> + A library for W3C Provenance Data Model supporting PROV-O + (RDF), PROV-XML, PROV-JSON import/export Interface to + Graphviz’s Dot language. + </longdescription> + <upstream> + <remote-id type="pypi">prov</remote-id> + <remote-id type="github">trungdong/prov</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/prov/prov-2.0.0.ebuild b/dev-python/prov/prov-2.0.0.ebuild new file mode 100644 index 000000000..a87b15c6f --- /dev/null +++ b/dev-python/prov/prov-2.0.0.ebuild @@ -0,0 +1,43 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{9..12} ) +inherit distutils-r1 pypi + +DESCRIPTION="W3C provenance data dodel library" +HOMEPAGE="https://pypi.org/project/prov/" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~x86" + +RDEPEND=" + dev-python/pydot[${PYTHON_USEDEP}] + dev-python/python-dateutil[${PYTHON_USEDEP}] + dev-python/lxml[${PYTHON_USEDEP}] + >=dev-python/networkx-1.10[${PYTHON_USEDEP}] + dev-python/rdflib[${PYTHON_USEDEP}] +" + +distutils_enable_tests pytest + +# Reported upstream: +# https://github.com/trungdong/prov/issues/156 +EPYTEST_DESELECT=( + src/prov/tests/test_model.py::TestAttributesBase + src/prov/tests/test_rdf.py::TestStatementsBase + src/prov/tests/test_rdf.py::TestAttributesBase2 + src/prov/tests/test_rdf.py::TestQualifiedNamesBase + src/prov/tests/test_rdf.py::TestAttributesBase + src/prov/tests/test_model.py::TestStatementsBase + src/prov/tests/test_model.py::TestExamplesBase::test_all_examples + src/prov/tests/test_model.py::TestQualifiedNamesBase + src/prov/tests/test_rdf.py::RoundTripRDFTests::test_namespace_inheritance + src/prov/tests/test_rdf.py::RoundTripRDFTests::test_default_namespace_inheritance + src/prov/tests/test_rdf.py::TestRDFSerializer::test_json_to_ttl_match + src/prov/tests/test_rdf.py::TestJSONExamplesBase::test_all_examples + src/prov/tests/test_rdf.py::TestExamplesBase::test_all_examples +) diff --git a/dev-python/pyaml-env/Manifest b/dev-python/pyaml-env/Manifest new file mode 100644 index 000000000..06b54d70e --- /dev/null +++ b/dev-python/pyaml-env/Manifest @@ -0,0 +1 @@ +DIST pyaml_env-1.2.1.tar.gz 12759 BLAKE2B 5a037ccefaaa3c60ce393dae5847777eb43745549a31b763ef2f50feb3a6e216ef793f9501df9e80cb381f78782e54b888ee4b043736dc05bcd01619d839ff86 SHA512 1ef873fa66660e4949dc1064260405244c8b3a2ee4391831a0a52be30e503e99d0b80b087c78db78683e9fe2fc1fd73f2e30c1eacc4c94a1394000d8526c9d68 diff --git a/dev-python/pyaml-env/metadata.xml b/dev-python/pyaml-env/metadata.xml new file mode 100644 index 000000000..44769bf23 --- /dev/null +++ b/dev-python/pyaml-env/metadata.xml @@ -0,0 +1,12 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>mschu.dev@gmail.com</email> + <name>Michael Schubert</name> + </maintainer> + <upstream> + <remote-id type="github">mkaranasou/pyaml_env</remote-id> + <remote-id type="pypi">pyaml-env</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/pyaml-env/pyaml-env-1.2.1.ebuild b/dev-python/pyaml-env/pyaml-env-1.2.1.ebuild new file mode 100644 index 000000000..a5169040a --- /dev/null +++ b/dev-python/pyaml-env/pyaml-env-1.2.1.ebuild @@ -0,0 +1,22 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..12} ) + +inherit pypi distutils-r1 + +DESCRIPTION="Parse YAML configuration with environment variables in Python" +HOMEPAGE="https://pypi.org/project/pyaml-env/" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~amd64-linux" + +RDEPEND="dev-python/pyyaml[${PYTHON_USEDEP}]" + +# tests not included in pypi tarball +RESTRICT="test" +#distutils_enable_tests pytest diff --git a/dev-python/pybind11-stubgen/Manifest b/dev-python/pybind11-stubgen/Manifest index 783143fe7..7b5f755b5 100644 --- a/dev-python/pybind11-stubgen/Manifest +++ b/dev-python/pybind11-stubgen/Manifest @@ -1,3 +1 @@ DIST pybind11-stubgen-0.10.4.tar.gz 12605 BLAKE2B 5cb3e4301a896066ac26a7e6b9af83c77fb16fd5a3e48713a597e981a68e41cd90ddf0e351c177b7385966e8720100ef03b0524dfd381f17c87a2016a6eba808 SHA512 b43795c5fef6eee5198ec7590338f8a2dabbc4a2530de49f50a3b1a410da60188da86f7148a74ff014068c8d9ce5b058695902e236407ab221d640ac9b15903d -DIST pybind11-stubgen-0.8.6.tar.gz 10993 BLAKE2B f3073dac1bff941cbf2470d50d11a090a99ff335a08cca3efc217d06c3a0cab266cf9769a1a7bdc5349da7cc3120e8a6b54f60df775ee27fcfbf0b5003867726 SHA512 6a8338f78d636b865bb76a3e769997f1c781acb57a0bb4f68f59ae2d6f3c60efe2b2ec7a9034f4e172b3d4bc4c74c990a4a24c6b2df242573fa7f03b97a84851 -DIST pybind11-stubgen-0.8.7.tar.gz 10993 BLAKE2B e672e955535bb7d797a3ee692f3fb13658d589bedc60c207dc094efff2e6281aec81636b0719a61567be46eb2fb27b7235e38cc06c436dea2689ae32b4b53b18 SHA512 56f3d84027d7cb06cce608ac7403a3fea902277d6e44fa3e284227656bca036ba956ef6b51a4f963a0b19e8fe30c0ddfac6670ea338905bf3ac39668748da668 diff --git a/dev-python/pybind11-stubgen/metadata.xml b/dev-python/pybind11-stubgen/metadata.xml index 2f2c0b51c..ad7b36abc 100644 --- a/dev-python/pybind11-stubgen/metadata.xml +++ b/dev-python/pybind11-stubgen/metadata.xml @@ -9,4 +9,8 @@ <email>sci@gentoo.org</email> <name>Gentoo Science Project</name> </maintainer> + <upstream> + <remote-id type="github">sizmailov/pybind11-stubgen</remote-id> + <remote-id type="pypi">pybind11-stubgen</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/pybind11-stubgen/pybind11-stubgen-0.10.4.ebuild b/dev-python/pybind11-stubgen/pybind11-stubgen-0.10.4.ebuild index f983beb99..e1aaab3b6 100644 --- a/dev-python/pybind11-stubgen/pybind11-stubgen-0.10.4.ebuild +++ b/dev-python/pybind11-stubgen/pybind11-stubgen-0.10.4.ebuild @@ -3,12 +3,12 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) -inherit distutils-r1 +PYTHON_COMPAT=( python3_{10..11} ) +PYPI_NO_NORMALIZE=1 +inherit distutils-r1 pypi DESCRIPTION="PEP 561 type stubs generator for pybind11 modules" HOMEPAGE="https://github.com/sizmailov/pybind11-stubgen" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" diff --git a/dev-python/pybind11-stubgen/pybind11-stubgen-0.8.6.ebuild b/dev-python/pybind11-stubgen/pybind11-stubgen-0.8.6.ebuild deleted file mode 100644 index 9451a6082..000000000 --- a/dev-python/pybind11-stubgen/pybind11-stubgen-0.8.6.ebuild +++ /dev/null @@ -1,24 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) -DISTUTILS_USE_SETUPTOOLS=rdepend -inherit distutils-r1 - -DESCRIPTION="PEP 561 type stubs generator for pybind11 modules" -HOMEPAGE="https://github.com/sizmailov/pybind11-stubgen" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -DEPEND=" - ${PYTHON_DEPS} - dev-python/pybind11[${PYTHON_USEDEP}] -" -RDEPEND="${DEPEND}" - -# no tests in package diff --git a/dev-python/pybind11-stubgen/pybind11-stubgen-0.8.7.ebuild b/dev-python/pybind11-stubgen/pybind11-stubgen-0.8.7.ebuild deleted file mode 100644 index 3f2b0f779..000000000 --- a/dev-python/pybind11-stubgen/pybind11-stubgen-0.8.7.ebuild +++ /dev/null @@ -1,24 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) -DISTUTILS_USE_SETUPTOOLS=rdepend -inherit distutils-r1 - -DESCRIPTION="PEP 561 type stubs generator for pybind11 modules" -HOMEPAGE="https://github.com/sizmailov/pybind11-stubgen" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -DEPEND=" - ${PYTHON_DEPS} - dev-python/pybind11[${PYTHON_USEDEP}] -" -RDEPEND="${DEPEND}" - -# no tests in package diff --git a/dev-python/pyct/pyct-0.4.8.ebuild b/dev-python/pyct/pyct-0.4.8.ebuild index 6201e2cf2..d8ef9bfa2 100644 --- a/dev-python/pyct/pyct-0.4.8.ebuild +++ b/dev-python/pyct/pyct-0.4.8.ebuild @@ -4,15 +4,12 @@ EAPI=8 PYTHON_COMPAT=( python3_{10..11} pypy3 ) - # HoloViews imports from "distutils" at runtime. DISTUTILS_USE_SETUPTOOLS=rdepend - -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Python packaging Common Tasks" HOMEPAGE="https://holoviz.org" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" diff --git a/dev-python/pyerfa/metadata.xml b/dev-python/pyerfa/metadata.xml index 4f4367037..5615e25d7 100644 --- a/dev-python/pyerfa/metadata.xml +++ b/dev-python/pyerfa/metadata.xml @@ -5,4 +5,8 @@ <email>sci-astronomy@gentoo.org</email> <name>Gentoo Astronomy Project</name> </maintainer> + <upstream> + <remote-id type="github">liberfa/pyerfa</remote-id> + <remote-id type="pypi">pyerfa</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/pyerfa/pyerfa-2.0.0.1.ebuild b/dev-python/pyerfa/pyerfa-2.0.0.1-r2.ebuild index 70b444b30..11a68c169 100644 --- a/dev-python/pyerfa/pyerfa-2.0.0.1.ebuild +++ b/dev-python/pyerfa/pyerfa-2.0.0.1-r2.ebuild @@ -3,30 +3,31 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Python bindings for ERFA" HOMEPAGE="https://github.com/liberfa/pyerfa/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" KEYWORDS="~amd64 ~x86" # ImportError: cannot import name 'ufunc' from 'erfa' -#RESTRICT="test" +RESTRICT="test" RDEPEND=" sci-astronomy/erfa:0= >=dev-python/numpy-1.17[${PYTHON_USEDEP}] " -BDEPEND="${RDEPEND} - dev-python/setuptools_scm[${PYTHON_USEDEP}] +DEPEND="${RDEPEND}" +BDEPEND=" + dev-python/setuptools-scm[${PYTHON_USEDEP}] test? ( dev-python/pytest-doctestplus[${PYTHON_USEDEP}] )" distutils_enable_tests pytest -distutils_enable_sphinx docs dev-python/sphinx-astropy +#distutils_enable_sphinx docs dev-python/sphinx-astropy diff --git a/dev-python/pynndescent/Manifest b/dev-python/pynndescent/Manifest deleted file mode 100644 index a92be64b7..000000000 --- a/dev-python/pynndescent/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST pynndescent-0.5.6.tar.gz 1135907 BLAKE2B 53f09045b14b3026ff1a2fa1ed27a4ce75f23e9c25ca0469c5ce207a51a25c778a7c2d3af51c3a724e1c0cd4eb148b3a8e73b6d39e819fc9c4cb0549240623be SHA512 9556754d4edbdfe442abf6b95b1970b8c606616a0012fc7a6875e1dfbe9a98b21b317eee84836c2b521dffb0db4e19ba6c8f1f9009498d43153ffda0f0a3b820 diff --git a/dev-python/pynndescent/metadata.xml b/dev-python/pynndescent/metadata.xml deleted file mode 100644 index 2f2c0b51c..000000000 --- a/dev-python/pynndescent/metadata.xml +++ /dev/null @@ -1,12 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="person"> - <email>gentoo@aisha.cc</email> - <name>Aisha Tammy</name> - </maintainer> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> -</pkgmetadata> diff --git a/dev-python/pynndescent/pynndescent-0.5.6.ebuild b/dev-python/pynndescent/pynndescent-0.5.6.ebuild deleted file mode 100644 index 241b0b746..000000000 --- a/dev-python/pynndescent/pynndescent-0.5.6.ebuild +++ /dev/null @@ -1,28 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 - -DESCRIPTION="nearest neighbor descent for approximate nearest neighbors" -HOMEPAGE="https://github.com/lmcinnes/pynndescent" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - dev-python/joblib[${PYTHON_USEDEP}] - >=dev-python/numba-0.51.2[${PYTHON_USEDEP}] - >=dev-python/numpy-1.17[${PYTHON_USEDEP}] - >=dev-python/llvmlite-0.34[${PYTHON_USEDEP}] - >=dev-python/scipy-1.0[${PYTHON_USEDEP}] - >=sci-libs/scikit-learn-0.18.0[${PYTHON_USEDEP}] -" -DEPEND="${RDEPEND}" - -distutils_enable_tests pytest diff --git a/dev-python/pynrrd/Manifest b/dev-python/pynrrd/Manifest index 72f9e8c2a..e174359e3 100644 --- a/dev-python/pynrrd/Manifest +++ b/dev-python/pynrrd/Manifest @@ -1,2 +1,3 @@ DIST pynrrd-0.4.2.tar.gz 43129 BLAKE2B 2001d151e38bbd02a648759475af13dd1be4bb7c12b7f8a3c7294e7fe1c281aeb9b35e39cce8254088b1c2f766aabe7343be0da4d48208375bb21be6dce9ba61 SHA512 8c5e4c1cb89dc84be3cf06e40d3f5bd45ea355c4e103027a62b088c4a73b03d1032cea1de0b153ef13fefd9b06d5a9b1954456a4542ae27cb74a278835b759ca DIST pynrrd-0.4.3.tar.gz 43162 BLAKE2B 266c57029e48e923dd5371184f59471e069890668ac15a75cfafc178cfe1a718f33bc6bcc704172e0fca0bdc9c52091da79e404b6bfb85838eef0c3e0807409c SHA512 d6264fce3b270e5ae9d889e7d58a18ae7bf3fecf5a1fe168dc584dece2052efd32170b21a02fa630c35e0e45e7109c745069710169ec38819639a4585344e0f6 +DIST pynrrd-1.0.0.tar.gz 45061 BLAKE2B c08bcd70c3565cd690b228793651e57e08d2095a72b7f7102e6274f1518873acb1ee5645302fbb68b7cf1afafe3c5c734a33e561eea1caaacb5434c049dcc325 SHA512 c622812a4e000e6a4b5d82db2eac02822968c38bb9b8ab5d35cfa498a636bf221078d8722f8ac2cdd91b0430f0b5b6768fb33a63112c3045038f6d44d121e7b5 diff --git a/dev-python/pynrrd/pynrrd-0.4.2.ebuild b/dev-python/pynrrd/pynrrd-0.4.2.ebuild index f25908cb3..2993f8f3a 100644 --- a/dev-python/pynrrd/pynrrd-0.4.2.ebuild +++ b/dev-python/pynrrd/pynrrd-0.4.2.ebuild @@ -1,9 +1,10 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 -PYTHON_COMPAT=( python3_10 ) +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..11} ) inherit distutils-r1 diff --git a/dev-python/pynrrd/pynrrd-0.4.3.ebuild b/dev-python/pynrrd/pynrrd-0.4.3.ebuild index f25908cb3..2993f8f3a 100644 --- a/dev-python/pynrrd/pynrrd-0.4.3.ebuild +++ b/dev-python/pynrrd/pynrrd-0.4.3.ebuild @@ -1,9 +1,10 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 -PYTHON_COMPAT=( python3_10 ) +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..11} ) inherit distutils-r1 diff --git a/dev-python/pynrrd/pynrrd-1.0.0.ebuild b/dev-python/pynrrd/pynrrd-1.0.0.ebuild new file mode 100644 index 000000000..d46aba486 --- /dev/null +++ b/dev-python/pynrrd/pynrrd-1.0.0.ebuild @@ -0,0 +1,30 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..11} ) + +inherit distutils-r1 + +DESCRIPTION="Simple pure-python module for reading and writing nrrd files" +HOMEPAGE="https://github.com/mhe/pynrrd" +SRC_URI="https://github.com/mhe/pynrrd/archive/v${PV}.tar.gz -> ${P}.tar.gz" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64" + +RDEPEND=" + dev-python/nptyping[${PYTHON_USEDEP}] + dev-python/numpy[${PYTHON_USEDEP}] +" +DEPEND="test? ( ${RDEPEND} )" + +distutils_enable_tests unittest + +python_test() { + ${EPYTHON} -m unittest discover -v nrrd/tests || \ + die "unittests failed for ${EPYTHON}" +} diff --git a/dev-python/pynwb/Manifest b/dev-python/pynwb/Manifest index 7843a9882..0dffbb9ab 100644 --- a/dev-python/pynwb/Manifest +++ b/dev-python/pynwb/Manifest @@ -1,2 +1,2 @@ -DIST pynwb-2.1.0.tar.gz 459375 BLAKE2B 3645c4cac9a9c8e8726d6a6bf38d1fa8946237c7496fde76162ee5dec66de4d0c86241a7f076d44ce857c8b411a33e9e52af47c1c5e74cf4eb84da484950c61c SHA512 11d5b23809de1e5b13baf4d02420200baf215aa99237b8e747a9d401830bef5356306eb7f9a464be36e88e64e8c50018606102b126daa450a7ee624c5babb025 -DIST pynwb-2.2.0.tar.gz 582890 BLAKE2B 7bc5774ddeb2144266af5457640d8721c9976d17dbfa9ce2b1027fdc736ca185935eb0f908aa7f4ad6c42df0c1e64f18221db6203f194f65493e9c61694a6ee0 SHA512 49e50be6be1856330abc87cc6621f94f7bddfd742bc024cddf31f4d693d8bce68e23839ae9a0dd76602a70b44b9e46019e05840c7840c4fccf5c9ffb6b4bfd57 +DIST pynwb-2.5.0.tar.gz 620770 BLAKE2B 470f5127560bf79f112061e9e8af208051d76833e449a66b03e31bb0828ffbfd6aa0b9efc136ecc0b7efba758334c3f15525a41ec4540c6f55d02f8afbd55ab2 SHA512 cad84e3ac6c3c67c3c28e3c3ec44402bfc94c4cf988fbe64ddfa461a67115398b24bb9bcac1bd00933e1b63d73048d9b20ec6cd736a51d9f2c7bf4d294edb261 +DIST pynwb-2.6.0.tar.gz 625188 BLAKE2B ac179af7e3c9de6ec4fb841dfd6279a1c3ba191b9d786553af02397a49c511f4a257a0e62f3b57a217ebb08588ad8ca64219fd435b3ec25776775d05e6a9ab9b SHA512 5c830cb37e8c6fe0643bd5bfee947565ddb1d0eff16dadadd3ebec7ec14a6e1ebcf34c3909ad05c3eedd8dd5f9e3669348216d695123f2013de0e969a403ec1c diff --git a/dev-python/pynwb/files/pynwb-2.0.0-versions.patch b/dev-python/pynwb/files/pynwb-2.0.0-versions.patch deleted file mode 100644 index d09c50594..000000000 --- a/dev-python/pynwb/files/pynwb-2.0.0-versions.patch +++ /dev/null @@ -1,21 +0,0 @@ -diff --git a/setup.py b/tmp/setup.py -index 39e75824..f7948f64 100755 ---- a/setup.py -+++ b/setup.py -@@ -19,11 +19,11 @@ print('found these packages:', pkgs) - schema_dir = 'nwb-schema/core' - - reqs = [ -- 'h5py>=2.9,<4', -- 'hdmf>=3.1.1,<4', -- 'numpy>=1.16,<1.22', -- 'pandas>=1.0.5,<2', -- 'python-dateutil>=2.7,<3', -+ 'h5py', -+ 'hdmf', -+ 'numpy', -+ 'pandas', -+ 'python-dateutil', - 'setuptools' - ] - diff --git a/dev-python/pynwb/files/pynwb-2.1.0-versions.patch b/dev-python/pynwb/files/pynwb-2.1.0-versions.patch deleted file mode 100644 index 8c816d226..000000000 --- a/dev-python/pynwb/files/pynwb-2.1.0-versions.patch +++ /dev/null @@ -1,21 +0,0 @@ -diff --git a/setup.py b/tmp/setup.py -index 39e75824..f7948f64 100755 ---- a/setup.py -+++ b/setup.py -@@ -19,11 +19,11 @@ print('found these packages:', pkgs) - schema_dir = 'nwb-schema/core' - - reqs = [ -- 'h5py>=2.10,<4', -- 'hdmf>=3.3.2,<4', -- 'numpy>=1.16,<1.23', -- 'pandas>=1.0.5,<2', -- 'python-dateutil>=2.7,<3', -+ 'h5py', -+ 'hdmf', -+ 'numpy', -+ 'pandas', -+ 'python-dateutil', - 'setuptools' - ] - diff --git a/dev-python/pynwb/files/pynwb-2.2.0-versions.patch b/dev-python/pynwb/files/pynwb-2.2.0-versions.patch deleted file mode 100644 index 6141f629a..000000000 --- a/dev-python/pynwb/files/pynwb-2.2.0-versions.patch +++ /dev/null @@ -1,21 +0,0 @@ -diff --git a/setup.py b/tmp/setup.py -index 39e75824..f7948f64 100755 ---- a/setup.py -+++ b/setup.py -@@ -19,11 +19,11 @@ print('found these packages:', pkgs) - schema_dir = 'nwb-schema/core' - - reqs = [ -- 'h5py>=2.10,<4', -- 'hdmf>=3.4.2,<4', -- 'numpy>=1.16,<1.24', -- 'pandas>=1.1.5,<2', -- 'python-dateutil>=2.7.3,<3', -+ 'h5py', -+ 'hdmf', -+ 'numpy', -+ 'pandas', -+ 'python-dateutil', - 'setuptools' - ] - diff --git a/dev-python/pynwb/pynwb-2.1.0-r2.ebuild b/dev-python/pynwb/pynwb-2.1.0-r2.ebuild deleted file mode 100644 index 14eed0e2f..000000000 --- a/dev-python/pynwb/pynwb-2.1.0-r2.ebuild +++ /dev/null @@ -1,43 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) -inherit distutils-r1 - -DESCRIPTION="A Python API for working with Neurodata stored in the NWB Format " -HOMEPAGE="https://github.com/NeurodataWithoutBorders/pynwb" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -SLOT="0" -LICENSE="BSD" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - >=sci-libs/hdf5-1.12.2 - >=dev-python/hdmf-3.3.2[${PYTHON_USEDEP}] - dev-python/h5py[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/pandas[${PYTHON_USEDEP}] - dev-python/python-dateutil[${PYTHON_USEDEP}] - " -BDEPEND="" - -PATCHES=( - "${FILESDIR}/${P}-versions.patch" - ) - -EPYTEST_DESELECT=( - # Reported upsream: - # https://github.com/NeurodataWithoutBorders/pynwb/issues/1425 - tests/validation/test_validate.py::TestValidateScript::test_validate_file_cached - tests/validation/test_validate.py::TestValidateScript::test_validate_file_cached_bad_ns - tests/validation/test_validate.py::TestValidateScript::test_validate_file_cached_hdmf_common - tests/validation/test_validate.py::TestValidateScript::test_validate_file_cached_ignore - tests/validation/test_validate.py::TestValidateScript::test_validate_file_no_cache - tests/validation/test_validate.py::TestValidateScript::test_validate_file_no_cache_bad_ns -) - -distutils_enable_tests pytest diff --git a/dev-python/pynwb/pynwb-2.2.0-r1.ebuild b/dev-python/pynwb/pynwb-2.5.0.ebuild index 041418fbb..ca11c3dbe 100644 --- a/dev-python/pynwb/pynwb-2.2.0-r1.ebuild +++ b/dev-python/pynwb/pynwb-2.5.0.ebuild @@ -4,42 +4,29 @@ EAPI=8 DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) -inherit distutils-r1 +PYTHON_COMPAT=( python3_{10..11} ) +inherit distutils-r1 pypi DESCRIPTION="A Python API for working with Neurodata stored in the NWB Format " HOMEPAGE="https://github.com/NeurodataWithoutBorders/pynwb" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" SLOT="0" LICENSE="BSD" KEYWORDS="~amd64 ~x86" RDEPEND=" - >=sci-libs/hdf5-1.12.2 >=dev-python/hdmf-3.3.2[${PYTHON_USEDEP}] + >=sci-libs/hdf5-1.12.2 dev-python/h5py[${PYTHON_USEDEP}] dev-python/numpy[${PYTHON_USEDEP}] dev-python/pandas[${PYTHON_USEDEP}] dev-python/python-dateutil[${PYTHON_USEDEP}] + dev-python/requests[${PYTHON_USEDEP}] " -BDEPEND="" - -PATCHES=( - "${FILESDIR}/${P}-versions.patch" - ) EPYTEST_DESELECT=( # Reported upsream: # https://github.com/NeurodataWithoutBorders/pynwb/issues/1580 - tests/back_compat/test_read.py::TestReadOldVersions::test_read - tests/back_compat/test_read.py::TestReadOldVersions::test_read_imageseries_non_external_format - tests/back_compat/test_read.py::TestReadOldVersions::test_read_imageseries_nonmatch_starting_frame - tests/unit/test_image.py::ImageSeriesConstructor::test_external_file_with_data - tests/unit/test_image.py::ImageSeriesConstructor::test_external_file_with_data_construct_mode - tests/unit/test_image.py::ImageSeriesConstructor::test_external_file_with_incorrect_format - tests/unit/test_image.py::ImageSeriesConstructor::test_external_file_with_incorrect_format_construct_mode - tests/unit/test_image.py::ImageSeriesConstructor::test_external_file_with_incorrect_starting_frame tests/validation/test_validate.py::TestValidateCLI::test_validate_file_cached tests/validation/test_validate.py::TestValidateCLI::test_validate_file_cached_bad_ns tests/validation/test_validate.py::TestValidateCLI::test_validate_file_cached_core @@ -52,6 +39,12 @@ EPYTEST_DESELECT=( tests/validation/test_validate.py::TestValidateCLI::test_validate_file_list_namespaces_extension tests/validation/test_validate.py::TestValidateCLI::test_validate_file_no_cache tests/validation/test_validate.py::TestValidateCLI::test_validate_file_no_cache_bad_ns + # Reported upstream: + # https://github.com/NeurodataWithoutBorders/pynwb/issues/1800 + tests/unit/test_file.py::TestNoCacheSpec::test_simple + # Not sandboxed, reported upstream: + # https://github.com/NeurodataWithoutBorders/pynwb/issues/1800 + tests/read_dandi/test_read_dandi.py::TestReadNWBDandisets::test_read_first_nwb_asset ) distutils_enable_tests pytest diff --git a/dev-python/pynwb/pynwb-2.6.0.ebuild b/dev-python/pynwb/pynwb-2.6.0.ebuild new file mode 100644 index 000000000..2f403981c --- /dev/null +++ b/dev-python/pynwb/pynwb-2.6.0.ebuild @@ -0,0 +1,51 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..11} ) +inherit distutils-r1 pypi + +DESCRIPTION="A Python API for working with Neurodata stored in the NWB Format " +HOMEPAGE="https://github.com/NeurodataWithoutBorders/pynwb" + +SLOT="0" +LICENSE="BSD" +KEYWORDS="~amd64 ~x86" + +RDEPEND=" + >=dev-python/hdmf-3.3.2[${PYTHON_USEDEP}] + >=sci-libs/hdf5-1.12.2 + dev-python/h5py[${PYTHON_USEDEP}] + dev-python/numpy[${PYTHON_USEDEP}] + dev-python/pandas[${PYTHON_USEDEP}] + dev-python/python-dateutil[${PYTHON_USEDEP}] + dev-python/requests[${PYTHON_USEDEP}] + " + +EPYTEST_DESELECT=( + # Reported upsream: + # https://github.com/NeurodataWithoutBorders/pynwb/issues/1580 + tests/validation/test_validate.py::TestValidateCLI::test_validate_file_cached + tests/validation/test_validate.py::TestValidateCLI::test_validate_file_cached_bad_ns + tests/validation/test_validate.py::TestValidateCLI::test_validate_file_cached_core + tests/validation/test_validate.py::TestValidateCLI::test_validate_file_cached_extension + tests/validation/test_validate.py::TestValidateCLI::test_validate_file_cached_extension_pass_ns + tests/validation/test_validate.py::TestValidateCLI::test_validate_file_cached_hdmf_common + tests/validation/test_validate.py::TestValidateCLI::test_validate_file_cached_ignore + tests/validation/test_validate.py::TestValidateCLI::test_validate_file_invalid + tests/validation/test_validate.py::TestValidateCLI::test_validate_file_list_namespaces_core + tests/validation/test_validate.py::TestValidateCLI::test_validate_file_list_namespaces_extension + tests/validation/test_validate.py::TestValidateCLI::test_validate_file_no_cache + tests/validation/test_validate.py::TestValidateCLI::test_validate_file_no_cache_bad_ns + # Reported upstream: + # https://github.com/NeurodataWithoutBorders/pynwb/issues/1800 + tests/unit/test_file.py::TestNoCacheSpec::test_simple + # Not sandboxed, reported upstream: + # https://github.com/NeurodataWithoutBorders/pynwb/issues/1800 + tests/read_dandi/test_read_dandi.py::TestReadNWBDandisets::test_read_first_nwb_asset + tests/unit/test_base.py::TestTimeSeries::test_repr_html +) + +distutils_enable_tests pytest diff --git a/dev-python/pyout/Manifest b/dev-python/pyout/Manifest index 551424495..5878b2e20 100644 --- a/dev-python/pyout/Manifest +++ b/dev-python/pyout/Manifest @@ -1,2 +1,2 @@ -DIST pyout-0.7.1.tar.gz 180439 BLAKE2B b64808edfa013c8460961afacbe70caad4f3c0520d8b87656e909e278534bf111154fd31a186f95246d3084671c841ea421ed52118ddeee3f08f21106f2f80b1 SHA512 66338ce6dbf1e4ee6a187993609f762fcd2f8dddd981bc976b3240b6ecd461ba1fd47b9f08b91fc29853ce88e26158c7047de0adfcf28a0dd66869adfad5ab71 DIST pyout-0.7.2.tar.gz 181753 BLAKE2B 780e536921151f81097e5dee7c74cfa086153f916fc9b9fd684f01008ada34102ba33ee7bdd3dd8cc4ccf89a8d9821ec0aecdbd87bc356abf25c6e4fe32d4c5a SHA512 e7be6f7829f6b09ead64c596cfdecfa45073af0a1da15401702327e141bbfae10e7968ee5e332358aa04bfc7ddf71b7b6caf2d5877aca8514e4ba544d3b1670a +DIST pyout-0.7.3.tar.gz 45726 BLAKE2B 4c5bc42b835fefd3db5d97db46c086ec2a7ca488a339813937f6e795a5fef699451dd67cd5078737f4f2bc47a36c96e2cb9f0010645fa45ebd288d24b5e0c3ba SHA512 784a7dd5b1eb811073466828f81783f89e3a251e05bc49edf124cdfc916c2447982299c83b087942845b61791481850f8c89379eea920e91d35c8abc2cbeb8ef diff --git a/dev-python/pyout/pyout-0.7.1-r1.ebuild b/dev-python/pyout/pyout-0.7.3.ebuild index 9cd796883..7246139ee 100644 --- a/dev-python/pyout/pyout-0.7.1-r1.ebuild +++ b/dev-python/pyout/pyout-0.7.3.ebuild @@ -3,17 +3,17 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..11} ) -inherit distutils-r1 +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..12} ) +inherit distutils-r1 pypi DESCRIPTION="Terminal styling for structured data" HOMEPAGE="https://github.com/pyout/pyout" -SRC_URI="https://github.com/pyout/pyout/archive/refs/tags/v${PV}.tar.gz -> ${P}.tar.gz" +#SRC_URI="https://github.com/pyout/pyout/archive/refs/tags/v${PV}.tar.gz -> ${P}.tar.gz" SLOT="0" LICENSE="MIT" KEYWORDS="~amd64 ~x86" -RESTRICT="test" RDEPEND=" dev-python/jsonschema[${PYTHON_USEDEP}] @@ -27,9 +27,7 @@ DEPEND=" distutils_enable_tests pytest - -PATCHES=( "${FILESDIR}/${PN}-0.7.2-blessed.patch" ) - +#PATCHES=( "${FILESDIR}/${PN}-0.7.2-blessed.patch" ) python_prepare_all() { sed -i -e '/pytest-runner/d' setup.py || die diff --git a/dev-python/pysolar/Manifest b/dev-python/pysolar/Manifest index e8d002718..d353c6cbd 100644 --- a/dev-python/pysolar/Manifest +++ b/dev-python/pysolar/Manifest @@ -1 +1 @@ -DIST pysolar-0.8.tar.gz 1574747 BLAKE2B 7343cbed9c7e80deb1ee54406ceb96daebef76495d1595c44467aa5a025d161e730f3356a3c1b11ce27a1c96d1d47bd97a2f3e95b8864f6009b2fb3a14a1a722 SHA512 ca9d168c1fd5142998d07a18d3dde812ed38c667f1226fc62deb1fb148669039f6c5707bfed9aeea4bef8fbe962235495705e41043d7e381413caf55f9abba99 +DIST pysolar-0.10.tar.gz 1569021 BLAKE2B f1f30b32030e6dda00635257b6d2cbc5d75bf8122f27db2db6c0471339b73f4123627b116008c262a7547b5ca7a0664318ad90a92d6d4fc0b53d65de708cde29 SHA512 bccb41874bb6f344a64db694b8ed81137ddaa7c0df9b6011192c3ce3acb4b8f4d934e70000d91ced005936c5e1751043a80ad96b5d262ebf1d96ee061326e114 diff --git a/dev-python/pysolar/pysolar-0.8.ebuild b/dev-python/pysolar/pysolar-0.10.ebuild index 6865958e5..0e11e7967 100644 --- a/dev-python/pysolar/pysolar-0.8.ebuild +++ b/dev-python/pysolar/pysolar-0.10.ebuild @@ -3,7 +3,8 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools AUTHOR=pingswept @@ -17,13 +18,16 @@ LICENSE="GPL-3" SLOT="0" KEYWORDS="~amd64 ~x86" +# Still depends on nose +RESTRICT="test" + RDEPEND=" dev-python/numpy[${PYTHON_USEDEP}] dev-python/pytz[${PYTHON_USEDEP}] dev-python/scipy[${PYTHON_USEDEP}] " -distutils_enable_tests nose +distutils_enable_tests pytest python_prepare_all() { sed \ diff --git a/dev-python/pytest-doctestplus/Manifest b/dev-python/pytest-doctestplus/Manifest index 4a1e50d88..fa08cd21b 100644 --- a/dev-python/pytest-doctestplus/Manifest +++ b/dev-python/pytest-doctestplus/Manifest @@ -1 +1 @@ -DIST pytest-doctestplus-0.11.2.tar.gz 34943 BLAKE2B a45779ff3d65e1b920282f400d67b618f620a9a905da69edff96db799f30e1b93562e69bd567a49629194b962a080b1f675619b0c6995227a1391c3d0e74be20 SHA512 fed49a551be78f51db60161ccfa592e461719cca76e2a48e3267e8a22dbec60d02d8fbb757a88cb5cf4dc22143e27d3d20f25b51855be835254c72fd8260abbd +DIST pytest-doctestplus-0.12.1.tar.gz 36434 BLAKE2B 95baa9f6185423fdd3e61ec0c269de54a4cf3298f2db90087b1413608663e4200e48158240cf565c8cc267244fbf8d60a0a5241b3b8f1fa8c1187e34824b17ae SHA512 46b999abd5632fa5c5743900b8b78ee7b6be742959daeb85296ebdf820d7533cff0a78d1c8aed7f5d5a15436998b2f7fe3e571133be14fce056276900493fef9 diff --git a/dev-python/pytest-doctestplus/metadata.xml b/dev-python/pytest-doctestplus/metadata.xml index 4f4367037..33e3f0e33 100644 --- a/dev-python/pytest-doctestplus/metadata.xml +++ b/dev-python/pytest-doctestplus/metadata.xml @@ -5,4 +5,7 @@ <email>sci-astronomy@gentoo.org</email> <name>Gentoo Astronomy Project</name> </maintainer> + <upstream> + <remote-id type="pypi">pytest-doctestplus</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/pytest-doctestplus/pytest-doctestplus-0.11.2.ebuild b/dev-python/pytest-doctestplus/pytest-doctestplus-0.11.2.ebuild deleted file mode 100644 index c9149842e..000000000 --- a/dev-python/pytest-doctestplus/pytest-doctestplus-0.11.2.ebuild +++ /dev/null @@ -1,24 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 - -DESCRIPTION="Pytest plugin with advanced doctest features" -HOMEPAGE="https://astropy.org/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -# TODO: fix this -# AttributeError: type object 'reprec' has no attribute 'assertoutcome' -RESTRICT="test" - -RDEPEND="dev-python/pytest[${PYTHON_USEDEP}]" - -distutils_enable_tests pytest diff --git a/dev-python/pytest-doctestplus/pytest-doctestplus-0.12.1.ebuild b/dev-python/pytest-doctestplus/pytest-doctestplus-0.12.1.ebuild new file mode 100644 index 000000000..89f6c46eb --- /dev/null +++ b/dev-python/pytest-doctestplus/pytest-doctestplus-0.12.1.ebuild @@ -0,0 +1,41 @@ +# Copyright 1999-2022 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +PYPI_NO_NORMALIZE=1 + +inherit distutils-r1 pypi + +DESCRIPTION="Pytest plugin with advanced doctest features" +HOMEPAGE="https://astropy.org/" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64 ~x86" + +RDEPEND=" + dev-python/pytest[${PYTHON_USEDEP}] + dev-python/packaging[${PYTHON_USEDEP}] +" + +BDEPEND=" + dev-python/setuptools-scm[${PYTHON_USEDEP}] + test? ( + dev-python/numpy[${PYTHON_USEDEP}] + ) +" + +# Skip the remote tests +EPYTEST_DESELECT=( + tests/test_doctestplus.py::test_remote_data_url + tests/test_doctestplus.py::test_remote_data_float_cmp + tests/test_doctestplus.py::test_remote_data_ignore_whitespace + tests/test_doctestplus.py::test_remote_data_ellipsis + tests/test_doctestplus.py::test_remote_data_requires + tests/test_doctestplus.py::test_remote_data_ignore_warnings +) + +distutils_enable_tests pytest diff --git a/dev-python/python-igraph/Manifest b/dev-python/python-igraph/Manifest index 45cb90874..335664088 100644 --- a/dev-python/python-igraph/Manifest +++ b/dev-python/python-igraph/Manifest @@ -1,2 +1 @@ -DIST igraph-0.9.11.tar.gz 3728842 BLAKE2B 7ddac705757a98c3c9dbbfdc841f078c8766aa9baedf0df693163920c47419da481c4bc54a0b7adc103885e2e75c77832faaa38f954d9596114fa700492a89e2 SHA512 a85e02144d33eb02ce0fe594cf91d5fc852af36d11c6da26d714f1e66bb116a9732945db43939e18f704ac725a9011358b3b89073ba81b0f4bf6440dc727f90e -DIST python-igraph-0.9.0.tar.gz 3366754 BLAKE2B baab83753bea4ee880564fe189b246c2ce0647a74ea1a41299062c3a2e203ec155abe1a3680c228d62a28e7bbf263e60e4529f151094b916ce4a1cae9f360705 SHA512 bd6071fc20c6c8f65034c71be6083e66367eb3047f376eb603e590da3606338fbd9890a2a74b8e0547fba2900c353f952683ea69b4d996f5643e84ee1c450b03 +DIST igraph-0.10.4.tar.gz 4209850 BLAKE2B 2f3b75569ea93d08b50c4af7331a1e072d1ded66a6437d52ca054ee2603f60cbbec9371107d8c6eeda5a8215b0fa5ee6eac420dbda9247ab2246d70b01d25aa5 SHA512 675388c3a9a346534c66ec96f4a427b34e88e15a1d401af4f283ee7f1f17fad85bd1636a85af58b6d1969238b40e0314d7b6db4b84723e0eb1f3afbc660f0300 diff --git a/dev-python/python-igraph/metadata.xml b/dev-python/python-igraph/metadata.xml index e97c4322a..4a86617fb 100644 --- a/dev-python/python-igraph/metadata.xml +++ b/dev-python/python-igraph/metadata.xml @@ -9,4 +9,7 @@ <email>sci@gentoo.org</email> <name>Gentoo Science Project</name> </maintainer> + <upstream> + <remote-id type="pypi">python-igraph</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/python-igraph/python-igraph-0.9.11.ebuild b/dev-python/python-igraph/python-igraph-0.10.4.ebuild index 0cf01c443..3ee6e1eb4 100644 --- a/dev-python/python-igraph/python-igraph-0.9.11.ebuild +++ b/dev-python/python-igraph/python-igraph-0.10.4.ebuild @@ -3,24 +3,21 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 - -MY_PN="${PN#python-}" -MY_P="${MY_PN}-${PV}" +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 pypi DESCRIPTION="Python interface for igraph" HOMEPAGE="https://igraph.org" -SRC_URI="mirror://pypi/${MY_PN:0:1}/${MY_PN}/${MY_P}.tar.gz" -S="${WORKDIR}/${MY_P}" +SRC_URI="$(pypi_sdist_url igraph)" +S="${WORKDIR}/igraph-${PV}" LICENSE="MIT" SLOT="0" -KEYWORDS="~amd64 ~x86" +KEYWORDS="~amd64" RDEPEND=" - >=dev-libs/igraph-0.9.0 + >=dev-libs/igraph-$(ver_cut 1-2) >=dev-python/texttable-1.6.2[${PYTHON_USEDEP}] " DEPEND="${RDEPEND}" diff --git a/dev-python/python-igraph/python-igraph-0.9.0.ebuild b/dev-python/python-igraph/python-igraph-0.9.0.ebuild deleted file mode 100644 index cec61215e..000000000 --- a/dev-python/python-igraph/python-igraph-0.9.0.ebuild +++ /dev/null @@ -1,46 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) - -inherit distutils-r1 - -DESCRIPTION="Python interface for igraph" -HOMEPAGE="https://igraph.org" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND="${PYTHON_DEPS} - dev-libs/igraph - dev-python/texttable[${PYTHON_USEDEP}] - dev-python/pycairo[${PYTHON_USEDEP}] -" -DEPEND="${RDEPEND}" -BDEPEND=" - test? ( - dev-python/networkx[${PYTHON_USEDEP}] - dev-python/matplotlib[${PYTHON_USEDEP}] - dev-python/ipywidgets[${PYTHON_USEDEP}] - ) -" - -distutils_enable_tests pytest - -python_prepare_all() { - # fix the igraph include path - cd src || die - find -type f -name "*.h" -exec sed -i -e 's@#include <igraph@#include <igraph/igraph@g' {} + || die - find -type f -name "*.c" -exec sed -i -e 's@#include <igraph@#include <igraph/igraph@g' {} + || die - cd .. || die - - distutils-r1_python_prepare_all -} - -python_compile() { - distutils-r1_python_compile --use-pkg-config -} diff --git a/dev-python/python-vxi11/Manifest b/dev-python/python-vxi11/Manifest deleted file mode 100644 index 1f4c7aece..000000000 --- a/dev-python/python-vxi11/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST python-vxi11-0.9.tar.gz 21446 BLAKE2B 33d5af56aabf6583f630f4b8d7e31fc8fb962ef8c6952cf1894a69a304cd2f2f0c3d1bc2c17000a5b029c977c8a7c782657c9d9fab7ced484e41514ab77432f5 SHA512 d3136ca8d6cdd7bc695d52ab2adbad956936de6ab99b4be58f3b11111b1f0afc8720239ef6754da79f1c719bbd2ccec1c8a58249a4408b8536b7fd387c0164d0 diff --git a/dev-python/python-vxi11/metadata.xml b/dev-python/python-vxi11/metadata.xml deleted file mode 100644 index 80031f312..000000000 --- a/dev-python/python-vxi11/metadata.xml +++ /dev/null @@ -1,20 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="person"> - <email>marbre@linux.sungazer.de</email> - <name>Marius Brehler</name> - </maintainer> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <longdescription> -Python VXI-11 is a Python implementation of the VXI-11 Ethernet -instrument control protocol. It is compatible with VXI-11, -LXI instruments and VXI-11 to GPIB bridges (HP E2050A, etc.). -</longdescription> - <upstream> - <remote-id type="github">python-ivi/python-vxi11</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/python-vxi11/python-vxi11-0.9.ebuild b/dev-python/python-vxi11/python-vxi11-0.9.ebuild deleted file mode 100644 index fe2292148..000000000 --- a/dev-python/python-vxi11/python-vxi11-0.9.ebuild +++ /dev/null @@ -1,21 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 -PYTHON_COMPAT=( python3_{7..9} ) -DISTUTILS_USE_SETUPTOOLS=rdepend -inherit distutils-r1 - -DESCRIPTION="Provides a pure Python VXI-11 driver for controlling instruments over Ethernet" -HOMEPAGE="https://github.com/python-ivi/python-vxi11" - -if [[ ${PV} == 9999 ]] ; then - inherit git-r3 - EGIT_REPO_URI="https://github.com/python-ivi/python-vxi11" -else - SRC_URI="https://github.com/python-ivi/python-vxi11/archive/v${PV}.tar.gz -> ${P}.tar.gz" - KEYWORDS="~amd64" -fi - -LICENSE="MIT" -SLOT="0" diff --git a/dev-python/python-vxi11/python-vxi11-9999.ebuild b/dev-python/python-vxi11/python-vxi11-9999.ebuild deleted file mode 100644 index fe2292148..000000000 --- a/dev-python/python-vxi11/python-vxi11-9999.ebuild +++ /dev/null @@ -1,21 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 -PYTHON_COMPAT=( python3_{7..9} ) -DISTUTILS_USE_SETUPTOOLS=rdepend -inherit distutils-r1 - -DESCRIPTION="Provides a pure Python VXI-11 driver for controlling instruments over Ethernet" -HOMEPAGE="https://github.com/python-ivi/python-vxi11" - -if [[ ${PV} == 9999 ]] ; then - inherit git-r3 - EGIT_REPO_URI="https://github.com/python-ivi/python-vxi11" -else - SRC_URI="https://github.com/python-ivi/python-vxi11/archive/v${PV}.tar.gz -> ${P}.tar.gz" - KEYWORDS="~amd64" -fi - -LICENSE="MIT" -SLOT="0" diff --git a/dev-python/pytorch-lightning/Manifest b/dev-python/pytorch-lightning/Manifest deleted file mode 100644 index 2876dd7d6..000000000 --- a/dev-python/pytorch-lightning/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST pytorch-lightning-1.8.6.tar.gz 576205 BLAKE2B a8a2d0a14d331303f45319f3aa840f4bc0a21e6c6ac3bac8e7d72f92947126f64e06da36a62eed6ff0c33caae935905348ccb1379b53ee73cd35e569973d6551 SHA512 85e6474637f5d237c22cf0775ee8d6f56c000c3c0376af2087b68d0c4311608d35d02e856ef1dddca1c481e531ee0fb246357b91f5c185637a740c80a0152510 diff --git a/dev-python/pytorch-lightning/metadata.xml b/dev-python/pytorch-lightning/metadata.xml deleted file mode 100644 index df24db4ac..000000000 --- a/dev-python/pytorch-lightning/metadata.xml +++ /dev/null @@ -1,12 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Science Project</name> - </maintainer> - <upstream> - <remote-id type="github">Lightning-AI/lightning</remote-id> - <remote-id type="pypi">pytorch-lightning</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/pytorch-lightning/pytorch-lightning-1.8.6.ebuild b/dev-python/pytorch-lightning/pytorch-lightning-1.8.6.ebuild deleted file mode 100644 index c50848555..000000000 --- a/dev-python/pytorch-lightning/pytorch-lightning-1.8.6.ebuild +++ /dev/null @@ -1,31 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_10 ) -DISTUTILS_USE_PEP517=setuptools -DISTUTILS_SINGLE_IMPL=1 -inherit distutils-r1 - -DESCRIPTION="Lightweight PyTorch wrapper for ML researchers" -HOMEPAGE="https://github.com/Lightning-AI/lightning" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="Apache-2.0" -SLOT="0" -KEYWORDS="~amd64" - -RDEPEND=" - sci-libs/pytorch[${PYTHON_SINGLE_USEDEP}] - $(python_gen_cond_dep ' - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/tqdm[${PYTHON_USEDEP}] - dev-python/pyyaml[${PYTHON_USEDEP}] - dev-python/fsspec[${PYTHON_USEDEP}] - sci-visualization/tensorboard[${PYTHON_USEDEP}] - dev-python/packaging[${PYTHON_USEDEP}] - dev-python/typing-extensions[${PYTHON_USEDEP}] - dev-python/ratelimit[${PYTHON_USEDEP}] - ') -" diff --git a/dev-python/pyvista/pyvista-0.33.2.ebuild b/dev-python/pyvista/pyvista-0.33.2.ebuild index ed4a21a4e..d59653fae 100644 --- a/dev-python/pyvista/pyvista-0.33.2.ebuild +++ b/dev-python/pyvista/pyvista-0.33.2.ebuild @@ -5,12 +5,10 @@ EAPI=8 PYTHON_COMPAT=( python3_{10..10} ) DISTUTILS_SINGLE_IMPL=1 # because "sci-libs/vtk" inherits "python-single-r1" - -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Easier Pythonic interface to VTK" HOMEPAGE="https://docs.pyvista.org" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" KEYWORDS="~amd64 ~x86" diff --git a/dev-python/pyviz_comms/Manifest b/dev-python/pyviz_comms/Manifest index 9f4d81ce1..0d6a5ac51 100644 --- a/dev-python/pyviz_comms/Manifest +++ b/dev-python/pyviz_comms/Manifest @@ -1,2 +1 @@ -DIST pyviz_comms-2.0.1.tar.gz 125046 BLAKE2B d0913fb873396ddb11db2781cb65cd4b2a9dd22ce496af58a656a2c17c4d0ca1af1351a618b293c5eca964dc7f32840c577a831139a0e5e9cd7667886c97aa2c SHA512 da913ee537588cd7e643c034f14b141e28699ddddb1dcd89053b3b9482bc330582f381e4257cd07546049da67f20b1f25cf9ffb4d11c9ef457bd4915781a751c DIST pyviz_comms-2.2.0.tar.gz 31910 BLAKE2B 42175d8750e9cb8dea4888970028898a9ee1e34b2ca5c895d2a1db40d9eec2f7eb86aec41090431b723ffcfdd0411016c04015e286d467a4c9d89eb710e7e08c SHA512 de6dba5b5d93a9a496b6895f4bf884dd80afd4124e1519bbd243b7672827f04f51d353f3941678be3780a250640e03b0c4ea0a3f87b8b9892980845bdca07439 diff --git a/dev-python/pyviz_comms/metadata.xml b/dev-python/pyviz_comms/metadata.xml index 8127bb8b0..3a0ec5dc8 100644 --- a/dev-python/pyviz_comms/metadata.xml +++ b/dev-python/pyviz_comms/metadata.xml @@ -7,7 +7,7 @@ </maintainer> <stabilize-allarches/> <upstream> - <remote-id type="pypi">pyviz_comms</remote-id> + <remote-id type="pypi">pyviz-comms</remote-id> <remote-id type="github">holoviz/pyviz_comms</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/pyviz_comms/pyviz_comms-2.0.1.ebuild b/dev-python/pyviz_comms/pyviz_comms-2.0.1.ebuild deleted file mode 100644 index 8526bd511..000000000 --- a/dev-python/pyviz_comms/pyviz_comms-2.0.1.ebuild +++ /dev/null @@ -1,22 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..11} ) - -inherit distutils-r1 - -DESCRIPTION="Bidirectional communication for the HoloViz ecosystem" -HOMEPAGE="https://holoviz.org" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND="dev-python/param[${PYTHON_USEDEP}]" - -# Tarballs do not include tests, reported upstream: -# https://github.com/holoviz/pyviz_comms/issues/104 -#distutils_enable_tests pytest diff --git a/dev-python/pyviz_comms/pyviz_comms-2.2.0.ebuild b/dev-python/pyviz_comms/pyviz_comms-2.2.0.ebuild index 8526bd511..7f50fc279 100644 --- a/dev-python/pyviz_comms/pyviz_comms-2.2.0.ebuild +++ b/dev-python/pyviz_comms/pyviz_comms-2.2.0.ebuild @@ -4,12 +4,10 @@ EAPI=8 PYTHON_COMPAT=( python3_{10..11} ) - -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Bidirectional communication for the HoloViz ecosystem" HOMEPAGE="https://holoviz.org" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" diff --git a/dev-python/pyzo/Manifest b/dev-python/pyzo/Manifest index 53069b179..781107b6f 100644 --- a/dev-python/pyzo/Manifest +++ b/dev-python/pyzo/Manifest @@ -1 +1 @@ -DIST pyzo-4.11.2.tar.gz 5340033 BLAKE2B 0c5c89deac947878ab84e7744dd21ca1092e6a9448573ad85067a20861f7823727623eb45a4c3f598e0bb2056bdf153d6818daed29ec8485313bebe8fccac32f SHA512 f96e4db48b414c5d6c2d9cb723e1bef2c4e0bc461c35710b1d7bf533c935734c5a17824ade59894f273624c80823b6283f131b972cbbe7cef3d0d20ff206f7db +DIST pyzo-4.12.7.gh.tar.gz 2280468 BLAKE2B c71e29730c677cc0e75a16a10f752b26dd5675ab978493e98049a3cb6ff51449e554c22d9b171ade7e96d8908fcf4b09842c9107d09cbfee2b4e488a3ef3ed28 SHA512 974e4166227afb42ffb950f0abd8733264e57fbf5cb1c23fc72f76a41940be5cf7cc9bc39bc93353ce392aaf204a420853e62313c139814771fff92729dbe032 diff --git a/dev-python/pyzo/pyzo-4.11.2.ebuild b/dev-python/pyzo/pyzo-4.12.7.ebuild index 772793be5..f65ebcc7d 100644 --- a/dev-python/pyzo/pyzo-4.11.2.ebuild +++ b/dev-python/pyzo/pyzo-4.12.7.ebuild @@ -3,13 +3,14 @@ EAPI=8 -PYTHON_COMPAT=( python3_{8..9} ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 virtualx desktop xdg DESCRIPTION="The Python IDE for scientific computing" HOMEPAGE="https://pyzo.org/" -SRC_URI="https://github.com/${PN}/${PN}/archive/refs/tags/v${PV}.tar.gz -> ${P}.tar.gz" +SRC_URI="https://github.com/${PN}/${PN}/archive/refs/tags/v${PV}.tar.gz -> ${P}.gh.tar.gz" LICENSE="BSD-2" SLOT="0" @@ -17,12 +18,14 @@ KEYWORDS="~amd64" # For some reason this requires network access # Qt: Session management error: Could not open network socket +PROPERTIES="test_network" RESTRICT="test" RDEPEND=" dev-python/QtPy[${PYTHON_USEDEP}] " BDEPEND=" + dev-python/packaging[${PYTHON_USEDEP}] test? ( dev-python/visvis[${PYTHON_USEDEP}] ) @@ -42,8 +45,8 @@ python_prepare_all() { distutils-r1_python_prepare_all } -src_test() { - virtx python_foreach_impl python_test +python_test() { + virtx epytest } python_install() { diff --git a/dev-python/regions/Manifest b/dev-python/regions/Manifest index e3051705f..7e2e2f89a 100644 --- a/dev-python/regions/Manifest +++ b/dev-python/regions/Manifest @@ -1 +1 @@ -DIST regions-0.4.tar.gz 1108822 BLAKE2B 7b2de2815c0a7a4e4d75aa08443520c8baf50772a0d2d892e6922d6223c32f4a05089acd464cdfba8a8737984de982b472329c800c9254f5d9ed3d8e649287d2 SHA512 571ab06c40a9abf0ebe5665b0efe7d09b0f2a9c6295fcd56f30ab25bfa506bfd80b89f7e88e83a5dbe68e084bb94e374abb01ecc043cd564a2b9cb78f6057acf +DIST regions-0.7.tar.gz 666091 BLAKE2B 7fd8cc1c9c34b236301c0493e11b99a3d2177e31c15c3ef43f38053eec653f8a68b84c4e0568395e38c940e987fcdf3a52a06e012a387a741de0cb46ec1995e8 SHA512 0e86b1cda4e479e29c00d151079788630a5b434f3d721d21ee81b4abcb03ea959e04351d61f48bfc19713dc938396fc9383c00998ba947f50fbbf9477db7d760 diff --git a/dev-python/regions/metadata.xml b/dev-python/regions/metadata.xml index a9f88e7d8..b0d9fd489 100644 --- a/dev-python/regions/metadata.xml +++ b/dev-python/regions/metadata.xml @@ -12,5 +12,6 @@ H.E.S.S, and CTA in primarily Galactic plane survey studies. </longdescription> <upstream> <remote-id type="github">gammapy/gammapy</remote-id> + <remote-id type="pypi">regions</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/regions/regions-0.4.ebuild b/dev-python/regions/regions-0.7.ebuild index eccec0eda..ef412a153 100644 --- a/dev-python/regions/regions-0.4.ebuild +++ b/dev-python/regions/regions-0.7.ebuild @@ -1,16 +1,15 @@ # Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=7 +EAPI=8 -PYTHON_COMPAT=( python3_{7,8,9} ) -DISTUTILS_USE_SETUPTOOLS=rdepend +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Astropy affilated package for region handling" HOMEPAGE="https://github.com/astropy/regions" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" diff --git a/dev-python/reproject/metadata.xml b/dev-python/reproject/metadata.xml index 4f4367037..56a54a20b 100644 --- a/dev-python/reproject/metadata.xml +++ b/dev-python/reproject/metadata.xml @@ -5,4 +5,7 @@ <email>sci-astronomy@gentoo.org</email> <name>Gentoo Astronomy Project</name> </maintainer> + <upstream> + <remote-id type="pypi">reproject</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/reproject/reproject-0.8.ebuild b/dev-python/reproject/reproject-0.8.ebuild index 91e7586c0..cf57e7d73 100644 --- a/dev-python/reproject/reproject-0.8.ebuild +++ b/dev-python/reproject/reproject-0.8.ebuild @@ -4,12 +4,10 @@ EAPI=8 PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Reproject astronomical images" HOMEPAGE="https://reproject.readthedocs.io/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" @@ -24,7 +22,7 @@ KEYWORDS="~amd64 ~x86" # pytest-filter-subpackage>=0.1 RESTRICT="test" -BDEPEND="dev-python/setuptools_scm[${PYTHON_USEDEP}]" +BDEPEND="dev-python/setuptools-scm[${PYTHON_USEDEP}]" RDEPEND=" >=dev-python/astropy-3.2[${PYTHON_USEDEP}] diff --git a/dev-python/repsep_utils/Manifest b/dev-python/repsep_utils/Manifest index 489a3a719..1c65b16d9 100644 --- a/dev-python/repsep_utils/Manifest +++ b/dev-python/repsep_utils/Manifest @@ -1 +1,3 @@ DIST repsep_utils-0.2.tar.gz 11147 BLAKE2B 89726b7e163c954ae9826a32c6997f4c678e6586240db52b37355ca59c16743b8c19e89d12d175cb55435aced5498a22e9e825d0c2d95f9046a52ac6daadefb3 SHA512 ba499cecb3dac38c1ca8e91eee3e1f9edafbc906e8acc046cd1eaead8253a9ac61f489ffca23cdb4ac6a595ecef40cc6a3374b3618c8162a4f38f499c1a4cc4e +DIST repsep_utils-0.3.1.tar.gz 12021 BLAKE2B cfe6e0dbeaddf751a1f222a19e7c430b4c3acd4ea28061164ecc213cadccb7bcb42e9b1fe16bf73f93d735edba3887553ac49b04f763ec888177ab653d05b07b SHA512 a5897a6b2a778d8079f9d5947b22def7c42922d0c607e711f2c2957b569991098f1ed3ce53ff2f74183cb4466b87f87596aafec9f2e4c1efb38c317ef29df8da +DIST repsep_utils-0.3.tar.gz 11893 BLAKE2B b02ec74d55bbfbe15052573049660a39c87681862ff3d38a7560666191b9b2cec6ea230898349c8feef4d5654e1524b16fa90c13b1238ea1d5d51ae6eaffa283 SHA512 9df1fb77d09d18387625e7cceed9aa31faf35fd72d076425cbabc30c7020e6f8257161628940f131f6209ac2aab6336c07ffb3aa333c2ec48e2a3c47708cc2b4 diff --git a/dev-python/repsep_utils/metadata.xml b/dev-python/repsep_utils/metadata.xml index 9656580bb..228d0e4bf 100644 --- a/dev-python/repsep_utils/metadata.xml +++ b/dev-python/repsep_utils/metadata.xml @@ -6,12 +6,12 @@ <name>Horea Christian</name> </maintainer> <longdescription lang="en"> - Utilities for compiling and developing RepSeP-style articles, such as the - reference implementation. The package contains generic boilerplate code for - PythonTeX-interaction, as used by all RepSeP-style articles, as well as an - executable file allowing single-script execution for development and - debugging purposes. - </longdescription> + Utilities for compiling and developing RepSeP-style articles, such as the + reference implementation. The package contains generic boilerplate code for + PythonTeX-interaction, as used by all RepSeP-style articles, as well as an + executable file allowing single-script execution for development and + debugging purposes. + </longdescription> <upstream> <remote-id type="github">TheChymera/repsep_utils</remote-id> </upstream> diff --git a/dev-python/repsep_utils/repsep_utils-0.3.1.ebuild b/dev-python/repsep_utils/repsep_utils-0.3.1.ebuild new file mode 100644 index 000000000..975d97f9d --- /dev/null +++ b/dev-python/repsep_utils/repsep_utils-0.3.1.ebuild @@ -0,0 +1,22 @@ +# Copyright 2019-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DESCRIPTION="Utilities Supporting RepSeP-style documents" +HOMEPAGE="https://github.com/TheChymera/repsep_utils" +SRC_URI="https://github.com/TheChymera/repsep_utils/archive/${PV}.tar.gz -> ${P}.tar.gz" + +LICENSE="GPL-2" +SLOT="0" +KEYWORDS="~amd64 ~x86" + +DEPEND="" +RDEPEND="dev-tex/pythontex" + +src_install() { + dobin "bin/repsep" + + insinto "/usr/share/repsep" + doins repsep/* +} diff --git a/dev-python/repsep_utils/repsep_utils-0.3.ebuild b/dev-python/repsep_utils/repsep_utils-0.3.ebuild new file mode 100644 index 000000000..975d97f9d --- /dev/null +++ b/dev-python/repsep_utils/repsep_utils-0.3.ebuild @@ -0,0 +1,22 @@ +# Copyright 2019-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DESCRIPTION="Utilities Supporting RepSeP-style documents" +HOMEPAGE="https://github.com/TheChymera/repsep_utils" +SRC_URI="https://github.com/TheChymera/repsep_utils/archive/${PV}.tar.gz -> ${P}.tar.gz" + +LICENSE="GPL-2" +SLOT="0" +KEYWORDS="~amd64 ~x86" + +DEPEND="" +RDEPEND="dev-tex/pythontex" + +src_install() { + dobin "bin/repsep" + + insinto "/usr/share/repsep" + doins repsep/* +} diff --git a/dev-python/reretry/Manifest b/dev-python/reretry/Manifest new file mode 100644 index 000000000..af408dac3 --- /dev/null +++ b/dev-python/reretry/Manifest @@ -0,0 +1 @@ +DIST reretry-0.11.8.gh.tar.gz 6629 BLAKE2B eb13ecce1ca29ce29932566e08b57a05d3f2426f41633b33b1c51eed1c4d880c5520adda4e5386ac13d064f7ff6bdc3831ce612c64c8dd24e63164a55907ae3b SHA512 e499e64cc06af8e1bb7e9fdd857c02305dcb76fd3205de128d389332a94493696c85a705efaf1e9ac0110b94a1cd443a44d49856f26b31a7eba8ad317f7deba4 diff --git a/dev-python/bz2file/metadata.xml b/dev-python/reretry/metadata.xml index bb126c586..64af0841d 100644 --- a/dev-python/bz2file/metadata.xml +++ b/dev-python/reretry/metadata.xml @@ -6,6 +6,7 @@ <name>Gentoo Science Project</name> </maintainer> <upstream> - <remote-id type="pypi">bz2file</remote-id> + <remote-id type="github">leshchenko1979/reretry</remote-id> + <remote-id type="pypi">reretry</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/reretry/reretry-0.11.8.ebuild b/dev-python/reretry/reretry-0.11.8.ebuild new file mode 100644 index 000000000..64da7215b --- /dev/null +++ b/dev-python/reretry/reretry-0.11.8.ebuild @@ -0,0 +1,25 @@ +# Copyright 1999-2021 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools + +inherit distutils-r1 + +DESCRIPTION="An easy-to-use but functional retry decorator in python" +HOMEPAGE="https://github.com/leshchenko1979/reretry" +SRC_URI="https://github.com/leshchenko1979/reretry/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" + +LICENSE="Apache-2.0" +SLOT="0" +KEYWORDS="~amd64" + +BDEPEND=" + test? ( + dev-python/pytest-asyncio[${PYTHON_USEDEP}] + ) +" + +distutils_enable_tests pytest diff --git a/dev-python/rich-click/Manifest b/dev-python/rich-click/Manifest new file mode 100644 index 000000000..ae8d92c2f --- /dev/null +++ b/dev-python/rich-click/Manifest @@ -0,0 +1 @@ +DIST rich-click-1.7.2.tar.gz 39362 BLAKE2B c4ad70d449ce9ceb3d9bbbccf7c7d3cd43386c35061d60c6395ff7845f606558af36a7c465a3393484008ece244f8e684ca9d71cea14463f04cac21803108543 SHA512 f4046e54874c4f3cc4f77651fdeb1f888d9435ff282f54d320c16c7c42f57c48018c0159230e780684336d29edff6e654454b8940b5b8df5a19139d2219c671b diff --git a/dev-python/rich-click/metadata.xml b/dev-python/rich-click/metadata.xml new file mode 100644 index 000000000..79a5238bd --- /dev/null +++ b/dev-python/rich-click/metadata.xml @@ -0,0 +1,12 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>mschu.dev@gmail.com</email> + <name>Michael Schubert</name> + </maintainer> + <upstream> + <remote-id type="github">ewels/rich-click</remote-id> + <remote-id type="pypi">rich-click</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/rich-click/rich-click-1.7.2.ebuild b/dev-python/rich-click/rich-click-1.7.2.ebuild new file mode 100644 index 000000000..e642303e2 --- /dev/null +++ b/dev-python/rich-click/rich-click-1.7.2.ebuild @@ -0,0 +1,25 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..12} ) + +PYPI_NO_NORMALIZE=1 +inherit pypi distutils-r1 + +DESCRIPTION="Format click help output nicely with rich" +HOMEPAGE="https://pypi.org/project/rich-click/" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~amd64-linux" + +RDEPEND="dev-python/click[${PYTHON_USEDEP}] + dev-python/rich[${PYTHON_USEDEP}] + dev-python/typing-extensions[${PYTHON_USEDEP}]" + +RESTRICT="test" +# ModuleNotFoundError: No module named 'tests.conftest' +#distutils_enable_tests pytest diff --git a/dev-python/ripser/Manifest b/dev-python/ripser/Manifest index 2a8f78db2..4f2515c0a 100644 --- a/dev-python/ripser/Manifest +++ b/dev-python/ripser/Manifest @@ -1 +1 @@ -DIST ripser-0.6.0.tar.gz 71420 BLAKE2B 28c34ccda4bcf5762d4ccf782aa0a1c6fe5e24fc6b84721da7ffb1475c9132b19115e7eb981ef966714f6fab2d745e2ca17f637489d1913d2fb14f82c9ed041b SHA512 1e091130c9a88eda6e29365c6616a2e12d93c9b65bda7eb5d21673f73940c24ab671ce88e716743a36bcc77ade673a49513f5e6840aa6a1810b7e17d8de741ee +DIST ripser-0.6.4.tar.gz 74642 BLAKE2B a6d7a39671415a86978ae4514f1f915f13ec791f246e632d3974553b53c398b971989e25b3cca2027a910831404c478994e646ed6e03010350b1e95438d7fc10 SHA512 b3fc216e75c807666e24d9f797a96296f2e1ffbddf3bba499220dab385690cdb6f47138cb55977eb68678dfbff9d750d7f1c4bcd8ea9267a940c9949a8dae360 diff --git a/dev-python/ripser/metadata.xml b/dev-python/ripser/metadata.xml index 2f2c0b51c..f983c3d4c 100644 --- a/dev-python/ripser/metadata.xml +++ b/dev-python/ripser/metadata.xml @@ -9,4 +9,7 @@ <email>sci@gentoo.org</email> <name>Gentoo Science Project</name> </maintainer> + <upstream> + <remote-id type="pypi">ripser</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/ripser/ripser-0.6.0.ebuild b/dev-python/ripser/ripser-0.6.4.ebuild index 5317a7208..21d6b6ccd 100644 --- a/dev-python/ripser/ripser-0.6.0.ebuild +++ b/dev-python/ripser/ripser-0.6.4.ebuild @@ -1,22 +1,21 @@ # Copyright 1999-2020 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=7 +EAPI=8 -PYTHON_COMPAT=( python3_{7..9} ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="python frontend for the fast ripser tda tool" HOMEPAGE="https://ripser.scikit-tda.org/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" SLOT="0" -KEYWORDS="~amd64 ~x86" -REQUIRED_USE="${PYTHON_REQUIRED_USE}" +KEYWORDS="~amd64" -RDEPEND="${PYTHON_DEPS} +RDEPEND=" dev-python/cython[${PYTHON_USEDEP}] dev-python/numpy[${PYTHON_USEDEP}] dev-python/persim[${PYTHON_USEDEP}] diff --git a/dev-python/schema/Manifest b/dev-python/schema/Manifest deleted file mode 100644 index e69b4b33b..000000000 --- a/dev-python/schema/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST schema-0.7.4.tar.gz 41340 BLAKE2B 3f897e7443da2a227e58e4f8655d75d2dfc9da95faca9f1737488ea7d95eefabf55c0606864164a7146d89fdb22cfb522e7e89bd648b001ac1cfe2e8e8ba4020 SHA512 6dd0ee8348fde4c6a9a39baf2b0fafff851f10ea581b16f438717d5435481f34829176bb4b82ecdd092da26332fd114fab856691b755ecf8e5648fb2233a0daf diff --git a/dev-python/schema/metadata.xml b/dev-python/schema/metadata.xml deleted file mode 100644 index 440ea4da1..000000000 --- a/dev-python/schema/metadata.xml +++ /dev/null @@ -1,13 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <stabilize-allarches/> - <upstream> - <remote-id type="pypi">schema</remote-id> - <remote-id type="github">keleshev/schema</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/schema/schema-0.7.4.ebuild b/dev-python/schema/schema-0.7.4.ebuild deleted file mode 100644 index d8c8b0c2a..000000000 --- a/dev-python/schema/schema-0.7.4.ebuild +++ /dev/null @@ -1,28 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_10 pypy3 ) - -inherit distutils-r1 - -DESCRIPTION="Schema validation just got Pythonic" -HOMEPAGE="https://pypi.org/project/schema" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -BDEPEND="test? ( dev-python/mock[${PYTHON_USEDEP}] )" - -distutils_enable_tests pytest - -src_prepare() { - distutils-r1_src_prepare - - # Prevent schema from unconditionally requiring the last-rited contextlib2, - # which schema actually conditionally requires only under EOL Python 2.x. - sed -i -e '/\binstall_requires=/d' setup.py || die -} diff --git a/dev-python/scooby/scooby-0.5.7.ebuild b/dev-python/scooby/scooby-0.5.7.ebuild index b876c3425..4cd053b50 100644 --- a/dev-python/scooby/scooby-0.5.7.ebuild +++ b/dev-python/scooby/scooby-0.5.7.ebuild @@ -4,12 +4,10 @@ EAPI=7 PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Easily report Python package versions and hardware resources" -HOMEPAGE="https://pypi.org/project/scooby" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" +HOMEPAGE="https://pypi.org/project/scooby/" LICENSE="MIT" KEYWORDS="~amd64 ~x86" diff --git a/dev-python/smart-open/Manifest b/dev-python/smart-open/Manifest new file mode 100644 index 000000000..37703129f --- /dev/null +++ b/dev-python/smart-open/Manifest @@ -0,0 +1 @@ +DIST smart-open-6.3.0.gh.tar.gz 131300 BLAKE2B 816b2e42fca7783891eefbe767ac28423c533fe726707bf40be2b53107d7c928e74dec904db79542f7b0d41100f5aada78598478c9bc6ca23d3dbe2341575ad4 SHA512 78a63b22fc00b1ab9b60161ab0ea79d7c760539f1c69386cba1c9844099b597dc8a8a77940e019f126cb989ae63c3f2418493f4e8e86f6605662d7f2904108e4 diff --git a/dev-python/smart-open/metadata.xml b/dev-python/smart-open/metadata.xml new file mode 100644 index 000000000..6c86761f0 --- /dev/null +++ b/dev-python/smart-open/metadata.xml @@ -0,0 +1,12 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <upstream> + <remote-id type="github">RaRe-Technologies/smart_open</remote-id> + <remote-id type="pypi">smart-open</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/smart-open/smart-open-6.3.0.ebuild b/dev-python/smart-open/smart-open-6.3.0.ebuild new file mode 100644 index 000000000..b585f1d4b --- /dev/null +++ b/dev-python/smart-open/smart-open-6.3.0.ebuild @@ -0,0 +1,35 @@ +# Copyright 1999-2021 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools + +inherit distutils-r1 + +DESCRIPTION="Utils for streaming large files (S3, HDFS, gzip, bz2...) " +HOMEPAGE="https://github.com/RaRe-Technologies/smart_open" +SRC_URI="https://github.com/RaRe-Technologies/smart_open/archive/refs/tags/v${PV}.tar.gz -> ${P}.gh.tar.gz" +S="${WORKDIR}/${PN//-/_}-${PV}" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64" + +RDEPEND=" + dev-python/boto3[${PYTHON_USEDEP}] + dev-python/google-cloud-storage[${PYTHON_USEDEP}] + dev-python/requests[${PYTHON_USEDEP}] + dev-python/paramiko[${PYTHON_USEDEP}] +" + +BDEPEND=" + test? ( + dev-python/moto[${PYTHON_USEDEP}] + dev-python/responses[${PYTHON_USEDEP}] + dev-python/pytest-rerunfailures[${PYTHON_USEDEP}] + ) +" + +distutils_enable_tests pytest diff --git a/dev-python/snakemake/Manifest b/dev-python/snakemake/Manifest index d82883f77..eca03bc0e 100644 --- a/dev-python/snakemake/Manifest +++ b/dev-python/snakemake/Manifest @@ -1 +1 @@ -DIST snakemake-5.32.2.tar.gz 7010842 BLAKE2B 70526d55ae058d4658c9486cad993fd626308c2ae21cc8e4a484c4f0916d5835ab27b6205e500b13303cae13f659bd542442b1e9a255b7f7f4b7cb4878694a17 SHA512 aa9c53f451bcf454209df25c5bbc795c4d67f27d1b3fe641ce9b788ee1350826e0a4d92514a50fbce58e5a3a462cca9c4015a58646a36a6a3f043381cc5b929d +DIST snakemake-7.32.4.gh.tar.gz 8885863 BLAKE2B 6bb7ff4722dd06f0edf5e8079b42f5e54d6f55f41e2987b7dae7f9b75df0d4d836138e28340e5977107a5cc0b5afe793b0d7897c501246cc1b4340eb4eca2f17 SHA512 34fef61528b18facab798652c88ed5c698ef02161e023255fdd024b7c7781c4e582cdb04b2740fdff9b6f3600acaec719742984acee57920bb48ef3b5af99d9a diff --git a/dev-python/snakemake/metadata.xml b/dev-python/snakemake/metadata.xml index d9550c50f..74c76cce1 100644 --- a/dev-python/snakemake/metadata.xml +++ b/dev-python/snakemake/metadata.xml @@ -5,8 +5,11 @@ <email>mschu.dev@gmail.com</email> <name>Michael Schubert</name> </maintainer> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> <upstream> - <remote-id type="bitbucket">johanneskoester/snakemake</remote-id> <remote-id type="pypi">snakemake</remote-id> <remote-id type="github">snakemake/snakemake</remote-id> </upstream> diff --git a/dev-python/snakemake/snakemake-5.32.2.ebuild b/dev-python/snakemake/snakemake-7.32.4.ebuild index 59d2f061a..711aac286 100644 --- a/dev-python/snakemake/snakemake-5.32.2.ebuild +++ b/dev-python/snakemake/snakemake-7.32.4.ebuild @@ -1,56 +1,67 @@ # Copyright 1999-2022 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=7 +EAPI=8 -PYTHON_COMPAT=( python3_{8..9} ) -DISTUTILS_USE_SETUPTOOLS=rdepend +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 DESCRIPTION="Make-like task language" HOMEPAGE="https://snakemake.readthedocs.io" -SRC_URI="https://github.com/${PN}/${PN}/archive/v${PV}.tar.gz -> ${P}.tar.gz" +SRC_URI="https://github.com/${PN}/${PN}/archive/v${PV}.tar.gz -> ${P}.gh.tar.gz" LICENSE="MIT" SLOT="0" -KEYWORDS="~amd64 ~x86" +KEYWORDS="~amd64" -# missing test dep google.cloud +# cannot import name '_helpers' from 'google.cloud' RESTRICT="test" -BDEPEND="test? ( - dev-python/requests-mock[${PYTHON_USEDEP}] - dev-python/google-api-python-client[${PYTHON_USEDEP}] - dev-python/jinja[${PYTHON_USEDEP}] - dev-python/networkx[${PYTHON_USEDEP}] - dev-python/pygments[${PYTHON_USEDEP}] - dev-python/pygraphviz[${PYTHON_USEDEP}] - dev-python/oauth2client[${PYTHON_USEDEP}] - net-libs/google-cloud-cpp -)" +BDEPEND=" + dev-python/tomli[${PYTHON_USEDEP}] + test? ( + dev-python/requests-mock[${PYTHON_USEDEP}] + dev-python/google-api-python-client[${PYTHON_USEDEP}] + dev-python/networkx[${PYTHON_USEDEP}] + dev-python/pygments[${PYTHON_USEDEP}] + dev-python/pygraphviz[${PYTHON_USEDEP}] + net-libs/google-cloud-cpp + ) +" RDEPEND=" dev-python/appdirs[${PYTHON_USEDEP}] dev-python/ConfigArgParse[${PYTHON_USEDEP}] + dev-python/connection_pool[${PYTHON_USEDEP}] dev-python/datrie[${PYTHON_USEDEP}] dev-python/docutils[${PYTHON_USEDEP}] dev-python/GitPython[${PYTHON_USEDEP}] + dev-python/humanfriendly[${PYTHON_USEDEP}] + dev-python/jinja[${PYTHON_USEDEP}] dev-python/jsonschema[${PYTHON_USEDEP}] dev-python/nbformat[${PYTHON_USEDEP}] + dev-python/packaging[${PYTHON_USEDEP}] dev-python/psutil[${PYTHON_USEDEP}] dev-python/pyyaml[${PYTHON_USEDEP}] - dev-python/ratelimit[${PYTHON_USEDEP}] dev-python/requests[${PYTHON_USEDEP}] + dev-python/reretry[${PYTHON_USEDEP}] + dev-python/smart-open[${PYTHON_USEDEP}] + dev-python/stopit[${PYTHON_USEDEP}] + dev-python/tabulate[${PYTHON_USEDEP}] + dev-python/throttler[${PYTHON_USEDEP}] dev-python/toposort[${PYTHON_USEDEP}] dev-python/wrapt[${PYTHON_USEDEP}] + dev-python/yte[${PYTHON_USEDEP}] sci-mathematics/pulp[${PYTHON_USEDEP}] " distutils_enable_sphinx docs \ dev-python/sphinxcontrib-napoleon \ dev-python/sphinx-argparse \ - dev-python/sphinx_rtd_theme \ + dev-python/sphinx-rtd-theme \ dev-python/docutils \ - dev-python/recommonmark + dev-python/recommonmark \ + dev-python/myst-parser distutils_enable_tests pytest diff --git a/dev-python/spectra/Manifest b/dev-python/spectra/Manifest new file mode 100644 index 000000000..97bcfc93a --- /dev/null +++ b/dev-python/spectra/Manifest @@ -0,0 +1 @@ +DIST spectra-0.0.11.tar.gz 18819 BLAKE2B 45ceefa8d2bab051a8fa8ee687f9fa25f6436e66987bb84c6982f64a522fb0b04120e068ef890f4b04f6626a130c5df1e81090913c143df1e82bda5ca3a01d4d SHA512 7b4e244ba200df8c6d7cff19ddf36a5af6cfe8cf6f89283f8dbb64345a3eb85b4f62456e3c75b7c8ce2d24e01c8a123a5763605b1e702903fe16839966e47b32 diff --git a/dev-python/spectra/metadata.xml b/dev-python/spectra/metadata.xml new file mode 100644 index 000000000..9332eceee --- /dev/null +++ b/dev-python/spectra/metadata.xml @@ -0,0 +1,12 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>mschu.dev@gmail.com</email> + <name>Michael Schubert</name> + </maintainer> + <upstream> + <remote-id type="github">jsvine/spectra</remote-id> + <remote-id type="pypi">spectra</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/spectra/spectra-0.0.11.ebuild b/dev-python/spectra/spectra-0.0.11.ebuild new file mode 100644 index 000000000..d0df23724 --- /dev/null +++ b/dev-python/spectra/spectra-0.0.11.ebuild @@ -0,0 +1,22 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..12} ) + +inherit pypi distutils-r1 + +DESCRIPTION="Easy color scales and color conversion for Python" +HOMEPAGE="https://pypi.org/project/spectra/" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~amd64-linux" + +RDEPEND="dev-python/colormath[${PYTHON_USEDEP}]" + +# requires nose +RESTRICT="test" +#distutils_enable_tests pytest diff --git a/dev-python/specutils/Manifest b/dev-python/specutils/Manifest index a612bb26f..9ee9c42c5 100644 --- a/dev-python/specutils/Manifest +++ b/dev-python/specutils/Manifest @@ -1 +1 @@ -DIST specutils-1.1.1.tar.gz 508922 BLAKE2B fb7eafae5ccdd1b7e73d2bf45c5e9b490ddfbae35cb583a1db5ba9bae7fa9e568f6064929395ddcba9a31ead5552d6e59c5b2da1c4684af09f5080fc5c43a284 SHA512 f20c7a3f3c8bd59d0fd3532ca3c52bea651c726d3d5ee7570d840babee73f83bbaeb6a18cd370393d739835358a768771b232ce81df211efee32b795fd61cddc +DIST specutils-1.9.1.tar.gz 665564 BLAKE2B 733bfecfdc61a03f85bc7f7588724eac869db66e135c4ef22993c3b1d537b67ef6ca784d03a0182741684282c4a7385642352f20d3fce948f0b26a4e950ba82f SHA512 f06e878539173b3c8a9220fd87f8deff15db744c3d267405afb1a43f98c181440c160c5396c636d2f6e2ed4373055537e6274e4a65e5f4e82f9163a446a6d450 diff --git a/dev-python/specutils/metadata.xml b/dev-python/specutils/metadata.xml index d8e354751..1055c50cb 100644 --- a/dev-python/specutils/metadata.xml +++ b/dev-python/specutils/metadata.xml @@ -12,5 +12,6 @@ into a class with special handling of 1D spectra. </longdescription> <upstream> <remote-id type="github">astropy/specutils</remote-id> + <remote-id type="pypi">specutils</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/specutils/specutils-1.1.1.ebuild b/dev-python/specutils/specutils-1.9.1.ebuild index 24f1d3118..c77a1078d 100644 --- a/dev-python/specutils/specutils-1.1.1.ebuild +++ b/dev-python/specutils/specutils-1.9.1.ebuild @@ -1,16 +1,15 @@ # Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=7 +EAPI=8 -PYTHON_COMPAT=( python3_{7,8,9} ) -DISTUTILS_USE_SETUPTOOLS=rdepend +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Package for spectroscopic astronomical data" HOMEPAGE="https://github.com/astropy/specutils" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" diff --git a/dev-python/sphinx-argparse/Manifest b/dev-python/sphinx-argparse/Manifest deleted file mode 100644 index db92db585..000000000 --- a/dev-python/sphinx-argparse/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST sphinx-argparse-0.3.2.tar.gz 45841 BLAKE2B 7f8a7159974bca803705736c848973d605594732983462d7636d82125e195d8ab87b76c247c9081e626cfe17d0f8d12a66d79076c643b0fe780c4f3eb5bbdc23 SHA512 fcc179d85ac9d30e327f75b02086c8f831856b099d9a26bc10adc4f20b57781a117a5dac2d6882e1f7c07604157dda2c2344c29ae3c475022ce252cde96646bb diff --git a/dev-python/sphinx-argparse/metadata.xml b/dev-python/sphinx-argparse/metadata.xml deleted file mode 100644 index 3b119bca0..000000000 --- a/dev-python/sphinx-argparse/metadata.xml +++ /dev/null @@ -1,11 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <upstream> - <remote-id type="github">ashb/sphinx-argparse</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/sphinx-argparse/sphinx-argparse-0.3.2.ebuild b/dev-python/sphinx-argparse/sphinx-argparse-0.3.2.ebuild deleted file mode 100644 index 2660d4912..000000000 --- a/dev-python/sphinx-argparse/sphinx-argparse-0.3.2.ebuild +++ /dev/null @@ -1,26 +0,0 @@ -# Copyright 2020-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..11} ) -DISTUTILS_USE_PEP517=poetry -inherit distutils-r1 - -DESCRIPTION="Sphinx extension that automatically documents argparse commands and options" -HOMEPAGE=" - https://pypi.org/project/sphinx-argparse/ - https://github.com/ashb/sphinx-argparse -" -SRC_URI="https://github.com/ashb/${PN}/archive/${PV}.tar.gz -> ${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - dev-python/sphinx[${PYTHON_USEDEP}] - dev-python/commonmark[${PYTHON_USEDEP}] -" - -distutils_enable_tests pytest diff --git a/dev-python/sphinx-astropy/Manifest b/dev-python/sphinx-astropy/Manifest index 26a909677..7cbf6d7c8 100644 --- a/dev-python/sphinx-astropy/Manifest +++ b/dev-python/sphinx-astropy/Manifest @@ -1 +1 @@ -DIST sphinx-astropy-1.7.0.tar.gz 18266 BLAKE2B 363733c5a3e5974cdf0f62f879babc9a28617ff61d15292649acd189798e24611c2d84e69af5dc05b89241f395cc997233f966bdf8e8a84ccfe235f873d533c2 SHA512 4b9af1528805c5017695be6ad9d0b789437da4ea01080190d5c0e44a76d927098864002cfd2a59529924a8d2844e26d2e7635fb3f0417ed90502e7e47d0239d3 +DIST sphinx-astropy-1.8.0.tar.gz 18310 BLAKE2B 0d13ba59b2ffcb792e66e58d2a87057b79da811d38e6fd101b074b0edbf5ad6d76e79300f5863521b0bbb1b40921ba6773f8d37c32d68dd36078cb2d0497e2ff SHA512 f02fe8d3ed58ffeff190492c07e2df91a2bd5bcc8e82c6685002e543585a5fc1294ebd46821b7dc0a364540f3a45adacf1b90261b7da95657bc99dcd6130f4d5 diff --git a/dev-python/sphinx-astropy/metadata.xml b/dev-python/sphinx-astropy/metadata.xml index 4f4367037..8d01c3b18 100644 --- a/dev-python/sphinx-astropy/metadata.xml +++ b/dev-python/sphinx-astropy/metadata.xml @@ -5,4 +5,7 @@ <email>sci-astronomy@gentoo.org</email> <name>Gentoo Astronomy Project</name> </maintainer> + <upstream> + <remote-id type="pypi">sphinx-astropy</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/sphinx-astropy/sphinx-astropy-1.7.0.ebuild b/dev-python/sphinx-astropy/sphinx-astropy-1.8.0.ebuild index cf6e3a5c5..89d58fc6b 100644 --- a/dev-python/sphinx-astropy/sphinx-astropy-1.7.0.ebuild +++ b/dev-python/sphinx-astropy/sphinx-astropy-1.8.0.ebuild @@ -3,13 +3,14 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +PYPI_NO_NORMALIZE=1 -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Sphinx extensions and configuration specific to the Astropy project" -HOMEPAGE="https://astropy.org/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" +HOMEPAGE="https://www.astropy.org/" LICENSE="BSD" SLOT="0" diff --git a/dev-python/sphinx-automodapi/metadata.xml b/dev-python/sphinx-automodapi/metadata.xml index 4f4367037..092a8c5e9 100644 --- a/dev-python/sphinx-automodapi/metadata.xml +++ b/dev-python/sphinx-automodapi/metadata.xml @@ -5,4 +5,7 @@ <email>sci-astronomy@gentoo.org</email> <name>Gentoo Astronomy Project</name> </maintainer> + <upstream> + <remote-id type="pypi">sphinx-automodapi</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/sphinx-automodapi/sphinx-automodapi-0.14.1.ebuild b/dev-python/sphinx-automodapi/sphinx-automodapi-0.14.1-r1.ebuild index afac4215c..e64b9a0e0 100644 --- a/dev-python/sphinx-automodapi/sphinx-automodapi-0.14.1.ebuild +++ b/dev-python/sphinx-automodapi/sphinx-automodapi-0.14.1-r1.ebuild @@ -3,13 +3,14 @@ EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +PYPI_NO_NORMALIZE=1 -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Sphinx extension for auto-generating API documentation for entire modules" -HOMEPAGE="https://astropy.org/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" +HOMEPAGE="https://www.astropy.org/" LICENSE="BSD" SLOT="0" diff --git a/dev-python/sphinxcontrib-napoleon/sphinxcontrib-napoleon-0.7.ebuild b/dev-python/sphinxcontrib-napoleon/sphinxcontrib-napoleon-0.7-r1.ebuild index 8279d642c..0a962fd5e 100644 --- a/dev-python/sphinxcontrib-napoleon/sphinxcontrib-napoleon-0.7.ebuild +++ b/dev-python/sphinxcontrib-napoleon/sphinxcontrib-napoleon-0.7-r1.ebuild @@ -1,15 +1,16 @@ # Copyright 1999-2022 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=7 +EAPI=8 -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +PYPI_NO_NORMALIZE=1 -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Allow a different format in dosctrings for better clarity" HOMEPAGE="https://sphinxcontrib-napoleon.readthedocs.io/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" diff --git a/dev-python/spikeinterface/Manifest b/dev-python/spikeinterface/Manifest new file mode 100644 index 000000000..bdf3e4b60 --- /dev/null +++ b/dev-python/spikeinterface/Manifest @@ -0,0 +1,3 @@ +DIST spikeinterface-0.96.1.tar.gz 1596455 BLAKE2B 52b5d4f0b435433396e7d06b9a2ed83646280ebefb1f62f179f068a060f43898a822e41bf1500ec53087ad5410ee060806f415988606b0197d13d7a671a5603a SHA512 12de90a8d27e900489d36d0ca14edaac3d1abab1a29f0c41ff1d1648fbf11be09c6c01cb0bd1cc4e1d00a81303fab5ffcb4de596ae69be9508e0503edab768ef +DIST spikeinterface-0.97.0.tar.gz 6735715 BLAKE2B c11bee4306f8d96ae5cd09cf1b852e267c1db6caa13565f6364cd65ee36fe62c04589e8e0657517003ed1dd6d76d25f60bef226820403111db4ed7717e8a20cd SHA512 befdf3382de6aad2ef2c72e3bbdf64fbee1c1f72f83610ca8bba2f8693992c84b515f8c000dc6b3609825347b0bcd85b026747633e90777d7fdd30dc0ae0ef13 +DIST spikeinterface-0.99.1.tar.gz 11475537 BLAKE2B 9427079f70020b882c7bdbaadb9b60508827f1131f3aeb4fa8fdaaada73f2aa2cb3ec018f87467cd2a7505bea435d6bcf04d9784d921829533ebf41d686d72bb SHA512 4dd513aa6eb8af58fa9d1a80671973b01cb81643588c4522f3f87cfd0ccebcfb7a1f2926e554bc7dadbb2201fc0b2f2873b0003483dd5ca578b5a76d4cce05a2 diff --git a/dev-python/spikeinterface/metadata.xml b/dev-python/spikeinterface/metadata.xml new file mode 100644 index 000000000..f91c7a26c --- /dev/null +++ b/dev-python/spikeinterface/metadata.xml @@ -0,0 +1,19 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>gentoo@chymera.eu</email> + <name>Horea Christian</name> + </maintainer> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <use> + <flag name="extractors">support for all extractors</flag> + <flag name="full">support for all optional processing features</flag> + </use> + <upstream> + <remote-id type="github">SpikeInterface/spikeinterface</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/spikeinterface/spikeinterface-0.96.1.ebuild b/dev-python/spikeinterface/spikeinterface-0.96.1.ebuild new file mode 100644 index 000000000..ef6a472f4 --- /dev/null +++ b/dev-python/spikeinterface/spikeinterface-0.96.1.ebuild @@ -0,0 +1,93 @@ +# Copyright 2021-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 + +DESCRIPTION="A Python-based module for creating flexible and robust spike sorting pipelines." +HOMEPAGE="https://github.com/SpikeInterface/spikeinterface" +SRC_URI="https://github.com/SpikeInterface/spikeinterface/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64" +IUSE="extractors full test" + +RDEPEND=" + dev-python/joblib[${PYTHON_USEDEP}] + dev-python/neo[${PYTHON_USEDEP}] + dev-python/numpy[${PYTHON_USEDEP}] + dev-python/probeinterface[${PYTHON_USEDEP}] + dev-python/threadpoolctl[${PYTHON_USEDEP}] + dev-python/tqdm[${PYTHON_USEDEP}] + extractors? ( + dev-python/pynwb[${PYTHON_USEDEP}] + dev-python/lxml[${PYTHON_USEDEP}] + dev-python/scipy[${PYTHON_USEDEP}] + ) + full? ( + dev-python/distinctipy[${PYTHON_USEDEP}] + dev-python/h5py[${PYTHON_USEDEP}] + dev-python/matplotlib[${PYTHON_USEDEP}] + dev-python/networkx[${PYTHON_USEDEP}] + dev-python/pandas[${PYTHON_USEDEP}] + dev-python/scipy[${PYTHON_USEDEP}] + dev-python/xarray[${PYTHON_USEDEP}] + dev-python/zarr[${PYTHON_USEDEP}] + sci-libs/scikit-learn[${PYTHON_USEDEP}] + ) +" +# Also wants: +# # Extractors: +# MEArec +# pyedflib +# sonpy +# dev-python/hdf5storage (in ::science, masked) + +distutils_enable_tests pytest + +# Test failures reported upstream: +# https://github.com/SpikeInterface/spikeinterface/issues/307 +python_test() { + # Network sandboxing, mostly (?) + local EPYTEST_DESELECT=( + spikeinterface/core/tests/test_datasets.py::test_download_dataset + spikeinterface/sortingcomponents/tests/test_motion_estimation.py::test_motion_functions + spikeinterface/sortingcomponents/tests/test_motion_estimation.py::test_estimate_motion_rigid + spikeinterface/sortingcomponents/tests/test_motion_estimation.py::test_estimate_motion_non_rigid + spikeinterface/comparison/tests/test_multisortingcomparison.py::test_compare_multiple_sorters + spikeinterface/curation/tests/test_sortingview_curation.py::test_sortingview_curation + spikeinterface/exporters/tests/test_export_to_phy.py::test_export_to_phy + spikeinterface/exporters/tests/test_export_to_phy.py::test_export_to_phy_by_sparsity + spikeinterface/exporters/tests/test_report.py::test_export_report + spikeinterface/extractors/tests/test_neoextractors.py + spikeinterface/sorters/tests/test_launcher.py::test_run_sorters_with_dict + spikeinterface/sorters/tests/test_launcher.py::test_sorter_installation + spikeinterface/sorters/tests/test_runsorter.py::test_run_sorter_local + spikeinterface/sorters/tests/test_runsorter.py::test_run_sorter_docker + spikeinterface/sorters/tests/test_runsorter.py::test_run_sorter_singularity + spikeinterface/sorters/tests/test_si_based_sorters.py::SpykingCircus2SorterCommonTestSuite + spikeinterface/sorters/tests/test_si_based_sorters.py::Tridesclous2SorterCommonTestSuite::test_with_class + spikeinterface/sorters/tests/test_si_based_sorters.py::Tridesclous2SorterCommonTestSuite::test_with_run + spikeinterface/sortingcomponents/tests/test_clustering.py::test_find_cluster_from_peaks + spikeinterface/sortingcomponents/tests/test_features_from_peaks.py::test_features_from_peaks + spikeinterface/sortingcomponents/tests/test_peak_detection.py::test_detect_peaks + spikeinterface/sortingcomponents/tests/test_peak_localization.py::test_localize_peaks + spikeinterface/sortingcomponents/tests/test_peak_pipeline.py::test_run_peak_pipeline + spikeinterface/sortingcomponents/tests/test_peak_selection.py::test_detect_peaks + spikeinterface/sortingcomponents/tests/test_template_matching.py::test_find_spikes_from_templates + spikeinterface/widgets/tests/test_widgets.py::TestWidgets + ) + # Reported upstream: + # https://github.com/SpikeInterface/spikeinterface/issues/307#issuecomment-1410840998 + EPYTEST_DESELECT+=( + spikeinterface/sorters/tests/test_launcher.py::test_collect_sorting_outputs + ) + local EPYTEST_IGNORE=( + spikeinterface/widgets/_legacy_mpl_widgets/tests/* + ) + epytest +} diff --git a/dev-python/spikeinterface/spikeinterface-0.97.0.ebuild b/dev-python/spikeinterface/spikeinterface-0.97.0.ebuild new file mode 100644 index 000000000..2a25d4eee --- /dev/null +++ b/dev-python/spikeinterface/spikeinterface-0.97.0.ebuild @@ -0,0 +1,93 @@ +# Copyright 2021-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 + +DESCRIPTION="A Python-based module for creating flexible and robust spike sorting pipelines." +HOMEPAGE="https://github.com/SpikeInterface/spikeinterface" +SRC_URI="https://github.com/SpikeInterface/spikeinterface/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64" +IUSE="extractors full test" + +RDEPEND=" + dev-python/joblib[${PYTHON_USEDEP}] + dev-python/neo[${PYTHON_USEDEP}] + dev-python/numpy[${PYTHON_USEDEP}] + >=dev-python/probeinterface-0.2.16[${PYTHON_USEDEP}] + dev-python/threadpoolctl[${PYTHON_USEDEP}] + dev-python/tqdm[${PYTHON_USEDEP}] + extractors? ( + dev-python/pynwb[${PYTHON_USEDEP}] + dev-python/lxml[${PYTHON_USEDEP}] + dev-python/scipy[${PYTHON_USEDEP}] + ) + full? ( + dev-python/distinctipy[${PYTHON_USEDEP}] + dev-python/h5py[${PYTHON_USEDEP}] + dev-python/matplotlib[${PYTHON_USEDEP}] + dev-python/networkx[${PYTHON_USEDEP}] + dev-python/pandas[${PYTHON_USEDEP}] + dev-python/scipy[${PYTHON_USEDEP}] + dev-python/xarray[${PYTHON_USEDEP}] + dev-python/zarr[${PYTHON_USEDEP}] + sci-libs/scikit-learn[${PYTHON_USEDEP}] + ) +" +# Also wants: +# # Extractors: +# MEArec +# pyedflib +# sonpy +# dev-python/hdf5storage (in ::science, masked) + +distutils_enable_tests pytest + +# Test failures reported upstream: +# https://github.com/SpikeInterface/spikeinterface/issues/307 +python_test() { + # Network sandboxing, mostly (?) + local EPYTEST_DESELECT=( + spikeinterface/core/tests/test_datasets.py::test_download_dataset + spikeinterface/sortingcomponents/tests/test_motion_estimation.py::test_motion_functions + spikeinterface/sortingcomponents/tests/test_motion_estimation.py::test_estimate_motion_rigid + spikeinterface/sortingcomponents/tests/test_motion_estimation.py::test_estimate_motion_non_rigid + spikeinterface/comparison/tests/test_multisortingcomparison.py::test_compare_multiple_sorters + spikeinterface/curation/tests/test_sortingview_curation.py::test_sortingview_curation + spikeinterface/exporters/tests/test_export_to_phy.py::test_export_to_phy + spikeinterface/exporters/tests/test_export_to_phy.py::test_export_to_phy_by_sparsity + spikeinterface/exporters/tests/test_report.py::test_export_report + spikeinterface/extractors/tests/test_neoextractors.py + spikeinterface/sorters/tests/test_launcher.py::test_run_sorters_with_dict + spikeinterface/sorters/tests/test_launcher.py::test_sorter_installation + spikeinterface/sorters/tests/test_runsorter.py::test_run_sorter_local + spikeinterface/sorters/tests/test_runsorter.py::test_run_sorter_docker + spikeinterface/sorters/tests/test_runsorter.py::test_run_sorter_singularity + spikeinterface/sorters/tests/test_si_based_sorters.py::SpykingCircus2SorterCommonTestSuite + spikeinterface/sorters/tests/test_si_based_sorters.py::Tridesclous2SorterCommonTestSuite::test_with_class + spikeinterface/sorters/tests/test_si_based_sorters.py::Tridesclous2SorterCommonTestSuite::test_with_run + spikeinterface/sortingcomponents/tests/test_clustering.py::test_find_cluster_from_peaks + spikeinterface/sortingcomponents/tests/test_features_from_peaks.py::test_features_from_peaks + spikeinterface/sortingcomponents/tests/test_peak_detection.py::test_detect_peaks + spikeinterface/sortingcomponents/tests/test_peak_localization.py::test_localize_peaks + spikeinterface/sortingcomponents/tests/test_peak_pipeline.py::test_run_peak_pipeline + spikeinterface/sortingcomponents/tests/test_peak_selection.py::test_detect_peaks + spikeinterface/sortingcomponents/tests/test_template_matching.py::test_find_spikes_from_templates + spikeinterface/widgets/tests/test_widgets.py::TestWidgets + ) + # Reported upstream: + # https://github.com/SpikeInterface/spikeinterface/issues/307#issuecomment-1410840998 + EPYTEST_DESELECT+=( + spikeinterface/sorters/tests/test_launcher.py::test_collect_sorting_outputs + ) + local EPYTEST_IGNORE=( + spikeinterface/widgets/_legacy_mpl_widgets/tests/* + ) + epytest +} diff --git a/dev-python/spikeinterface/spikeinterface-0.99.1.ebuild b/dev-python/spikeinterface/spikeinterface-0.99.1.ebuild new file mode 100644 index 000000000..a428775eb --- /dev/null +++ b/dev-python/spikeinterface/spikeinterface-0.99.1.ebuild @@ -0,0 +1,53 @@ +# Copyright 2021-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools +inherit distutils-r1 + +DESCRIPTION="A Python-based module for creating flexible and robust spike sorting pipelines." +HOMEPAGE="https://github.com/SpikeInterface/spikeinterface" +SRC_URI="https://github.com/SpikeInterface/spikeinterface/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64" +IUSE="extractors full test" +# Reported upstream: +# https://github.com/SpikeInterface/spikeinterface/issues/2339 +RESTRICT="test" + +RDEPEND=" + dev-python/joblib[${PYTHON_USEDEP}] + dev-python/neo[${PYTHON_USEDEP}] + dev-python/numpy[${PYTHON_USEDEP}] + >=dev-python/probeinterface-0.2.16[${PYTHON_USEDEP}] + dev-python/threadpoolctl[${PYTHON_USEDEP}] + dev-python/tqdm[${PYTHON_USEDEP}] + extractors? ( + dev-python/pynwb[${PYTHON_USEDEP}] + dev-python/lxml[${PYTHON_USEDEP}] + dev-python/scipy[${PYTHON_USEDEP}] + ) + full? ( + dev-python/distinctipy[${PYTHON_USEDEP}] + dev-python/h5py[${PYTHON_USEDEP}] + dev-python/matplotlib[${PYTHON_USEDEP}] + dev-python/networkx[${PYTHON_USEDEP}] + dev-python/pandas[${PYTHON_USEDEP}] + dev-python/scipy[${PYTHON_USEDEP}] + dev-python/xarray[${PYTHON_USEDEP}] + dev-python/zarr[${PYTHON_USEDEP}] + sci-libs/scikit-learn[${PYTHON_USEDEP}] + ) +" +# Also wants: +# # Extractors: +# MEArec +# pyedflib +# sonpy +# dev-python/hdf5storage (in ::science, masked) + +distutils_enable_tests pytest diff --git a/dev-python/stopit/Manifest b/dev-python/stopit/Manifest new file mode 100644 index 000000000..8509ce69f --- /dev/null +++ b/dev-python/stopit/Manifest @@ -0,0 +1 @@ +DIST stopit-1.1.2.tar.gz 18281 BLAKE2B 500c4c60f7a1ae65231f546c28c6406bb1b01c48b43ac97757b87db1c6cfe460b9fb96543a46ec4ff36640e6aa758dbea543f75628bf7bf237e1f76acd54e62e SHA512 5ddf93c12ac19e2a2bf52a22838de13da1cf50f1a4d2ef8958dc3ddccd1884b7edaa629edc29121071ba231bfc1e3188bfa089da6e8fc994364c134f0c7aa0c8 diff --git a/dev-python/amply/metadata.xml b/dev-python/stopit/metadata.xml index 3d5e87252..21d0546f4 100644 --- a/dev-python/amply/metadata.xml +++ b/dev-python/stopit/metadata.xml @@ -6,6 +6,6 @@ <name>Gentoo Science Project</name> </maintainer> <upstream> - <remote-id type="pypi">amply</remote-id> + <remote-id type="pypi">stopit</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/stopit/stopit-1.1.2.ebuild b/dev-python/stopit/stopit-1.1.2.ebuild new file mode 100644 index 000000000..64d63502a --- /dev/null +++ b/dev-python/stopit/stopit-1.1.2.ebuild @@ -0,0 +1,16 @@ +# Copyright 1999-2021 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools + +inherit distutils-r1 pypi + +DESCRIPTION="Timeout control decorator and context managers" +HOMEPAGE="https://pypi.org/project/stopit" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64" diff --git a/dev-python/throttler/Manifest b/dev-python/throttler/Manifest new file mode 100644 index 000000000..fcd07b799 --- /dev/null +++ b/dev-python/throttler/Manifest @@ -0,0 +1 @@ +DIST throttler-1.2.2.gh.tar.gz 8874 BLAKE2B f4f62059483551d2516e0d744ce4de4de1d83c5d169583944f2fba390acc2f6aadd5f212158de2c59b85356d71396a02404051e9206dfffec25be95ae983686a SHA512 a45cba0400e2e6225bcc396d1a216e781be9264345c215aa0c9e009d463bb80fca449ef0cc6a67657c443f9624e0864644cd5187351e815292894176dd6f13bb diff --git a/dev-python/cadquery-pywrap/metadata.xml b/dev-python/throttler/metadata.xml index aef989a0c..dff8139fd 100644 --- a/dev-python/cadquery-pywrap/metadata.xml +++ b/dev-python/throttler/metadata.xml @@ -5,8 +5,8 @@ <email>sci@gentoo.org</email> <name>Gentoo Science Project</name> </maintainer> - <stabilize-allarches/> <upstream> - <remote-id type="github">CadQuery/pywrap</remote-id> + <remote-id type="github">uburuntu/throttler</remote-id> + <remote-id type="pypi">throttler</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/throttler/throttler-1.2.2.ebuild b/dev-python/throttler/throttler-1.2.2.ebuild new file mode 100644 index 000000000..0d0d62a16 --- /dev/null +++ b/dev-python/throttler/throttler-1.2.2.ebuild @@ -0,0 +1,25 @@ +# Copyright 1999-2021 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools + +inherit distutils-r1 + +DESCRIPTION="Easy throttling with asyncio support" +HOMEPAGE="https://github.com/uburuntu/throttler" +SRC_URI="https://github.com/uburuntu/throttler/archive/refs/tags/v${PV}.tar.gz -> ${P}.gh.tar.gz" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64" + +BDEPEND=" + test? ( + dev-python/pytest-asyncio[${PYTHON_USEDEP}] + ) +" + +distutils_enable_tests pytest diff --git a/dev-python/traits/Manifest b/dev-python/traits/Manifest index 8e8de91b3..c33b93d1f 100644 --- a/dev-python/traits/Manifest +++ b/dev-python/traits/Manifest @@ -1,3 +1,2 @@ -DIST traits-6.1.1.tar.gz 567019 BLAKE2B 4b6ed46c87b1fda2a2001299106b5aacafbe8b148ba0564c4f39b67a8de76f6713366c8b00841db254a26c87a7b2b73b6935ecade770d92ad972aa8a0425cecf SHA512 7f7e9f11d4861c02164ae1ce595888859c8ce23213290cfc3ac11df100d33beeeea4c7def6799b70ef2d090b3f7bd98407f3605affff0867914d0fe0164dd50f DIST traits-6.3.2.tar.gz 9517139 BLAKE2B 9c6209a24fd07def86699174a66e2e0b3332670d974a75ead9486187c37e1c2c25b2a0c47e5444a03577931411ce6938b3b9ba195261a46c86d660c5abe9b502 SHA512 792004d88d2a00a1e9ba03974d58ec692b620f3c45aaf3bd82f93396818df8663a86903d43806c877230a66c5c8fee4d68268ed9355c166af00b5d060ba14c7d DIST traits-6.4.1.tar.gz 9527016 BLAKE2B 12036eeb845cc3014b0cba9984e1c1686a6720630678d440a2059c47916c08284b1f823ca566dcb6c1c86594ebec5400bb2a8c44d43d765a25d00e157fbbda74 SHA512 04b936195d57320c02fee9f0d5e7dbcfee28add422c151bd4aaa6d1c58c59f8de7fe54b4df039bb2023ffc9dae9570bba52210cd015ce462e0f736e9439327e5 diff --git a/dev-python/traits/metadata.xml b/dev-python/traits/metadata.xml index ec9460dd1..2e84467ab 100644 --- a/dev-python/traits/metadata.xml +++ b/dev-python/traits/metadata.xml @@ -21,6 +21,7 @@ * Visualization: With the TraitsUI package, GUIs can be generated automatically from traited objects. </longdescription> <upstream> + <remote-id type="github">enthought/traits</remote-id> <remote-id type="pypi">traits</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/traits/traits-6.1.1.ebuild b/dev-python/traits/traits-6.1.1.ebuild deleted file mode 100644 index 7282ebfa8..000000000 --- a/dev-python/traits/traits-6.1.1.ebuild +++ /dev/null @@ -1,37 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..11} ) - -inherit distutils-r1 - -DESCRIPTION="Enthought Tool Suite: Explicitly typed attributes for Python" -HOMEPAGE="https://docs.enthought.com/traits/ - https://github.com/enthought/traits - https://pypi.org/project/traits/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="BSD" -SLOT="0" -KEYWORDS="~amd64 ~ppc ~ppc64 ~x86" -# Reported upstream: https://github.com/enthought/traits/issues/1731 -RESTRICT="test" - -RDEPEND="dev-python/numpy[${PYTHON_USEDEP}]" - -distutils_enable_tests unittest -# ToDo: Fix doc building: -# AttributeError: 'NoDefaultSpecified' object has no attribute '__name__' -#distutils_enable_sphinx docs/source --no-autodoc - -python_prepare_all() { - sed -i -e "s/'-O3'//g" setup.py || die - distutils-r1_python_prepare_all -} - -python_test() { - cd "${BUILD_DIR}"/lib || die - ${EPYTHON} -m unittest discover || die -} diff --git a/dev-python/traits/traits-6.3.2.ebuild b/dev-python/traits/traits-6.3.2.ebuild index 3d81493f5..4d3c699a5 100644 --- a/dev-python/traits/traits-6.3.2.ebuild +++ b/dev-python/traits/traits-6.3.2.ebuild @@ -5,14 +5,13 @@ EAPI=8 PYTHON_COMPAT=( python3_{10..11} ) -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Enthought Tool Suite: Explicitly typed attributes for Python" HOMEPAGE=" https://docs.enthought.com/traits/ https://github.com/enthought/traits " -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" diff --git a/dev-python/traits/traits-6.4.1.ebuild b/dev-python/traits/traits-6.4.1.ebuild index 3d81493f5..ebd3fb97a 100644 --- a/dev-python/traits/traits-6.4.1.ebuild +++ b/dev-python/traits/traits-6.4.1.ebuild @@ -3,16 +3,16 @@ EAPI=8 +DISTUTILS_USE_PEP517=setuptools PYTHON_COMPAT=( python3_{10..11} ) -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Enthought Tool Suite: Explicitly typed attributes for Python" HOMEPAGE=" https://docs.enthought.com/traits/ https://github.com/enthought/traits " -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" @@ -20,7 +20,7 @@ KEYWORDS="~amd64 ~ppc ~ppc64 ~x86" RDEPEND="dev-python/numpy[${PYTHON_USEDEP}]" -distutils_enable_tests unittest +distutils_enable_tests pytest # ToDo: Fix doc building: # AttributeError: 'NoDefaultSpecified' object has no attribute '__name__' #distutils_enable_sphinx docs/source --no-autodoc @@ -31,6 +31,6 @@ python_prepare_all() { } python_test() { - cd "${BUILD_DIR}"/lib || die - ${EPYTHON} -m unittest discover || die + cd "${T}" || die + epytest --pyargs traits } diff --git a/dev-python/transforms3d/transforms3d-0.3.1.ebuild b/dev-python/transforms3d/transforms3d-0.3.1.ebuild index fe3dedf84..661d78acb 100644 --- a/dev-python/transforms3d/transforms3d-0.3.1.ebuild +++ b/dev-python/transforms3d/transforms3d-0.3.1.ebuild @@ -1,23 +1,22 @@ # Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=7 +EAPI=8 -PYTHON_COMPAT=( python3_10 ) -DISTUTILS_USE_SETUPTOOLS=no +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Functions for 3D coordinate transformations" -HOMEPAGE="https://matthew-brett.github.io/transforms3d" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" +HOMEPAGE="https://matthew-brett.github.io/transforms3d/" LICENSE="BSD-2" KEYWORDS="~amd64 ~x86" SLOT="0" -BDEPEND="test? ( dev-python/numpy[${PYTHON_USEDEP}] )" -RDEPEND=">=dev-python/numpy-1.5.1[${PYTHON_USEDEP}]" -DEPEND="${RDEPEND}" +RDEPEND=" + >=dev-python/numpy-1.5.1[${PYTHON_USEDEP}] +" -distutils_enable_tests nose +distutils_enable_tests pytest diff --git a/dev-python/tridesclous/Manifest b/dev-python/tridesclous/Manifest deleted file mode 100644 index 4bcef3213..000000000 --- a/dev-python/tridesclous/Manifest +++ /dev/null @@ -1,2 +0,0 @@ -DIST tridesclous-1.6.4.tar.gz 571689 BLAKE2B c941c159a0aed2f69dd098b5a7073898f305aa04c4db4753fc7de135cf87866fe8857a89b2d1248e3a2dada09229195f2dad557c0c110ac2f061dfe39c8aa257 SHA512 29182af03dc9219c422e37000ceb40787db89408f66b94201bbb2226f97ef251140eafa28a77554aaa1539978c46eece0156d2941c8156212499f544cf42740c -DIST tridesclous-1.6.6.gh.tar.gz 11798502 BLAKE2B af9eb4d4e899f2a065d37e6daaae9ad04209b3d10c250957985ef3603e5d5727947dafff75adf5bb892a4ccbbf2f575f682bd601afcf36bda48f5f7a2af6ab26 SHA512 b101a8a8c2e95b7eb51b7d24d2708a30421be63d48d5a7047dfa2be3ce0f15ce02ce518d5516d5fae3d040cb0d2037a49afd34fdbd03bc641dc42014d8861d0d diff --git a/dev-python/tridesclous/tridesclous-1.6.4.ebuild b/dev-python/tridesclous/tridesclous-1.6.4.ebuild deleted file mode 100644 index a65c30298..000000000 --- a/dev-python/tridesclous/tridesclous-1.6.4.ebuild +++ /dev/null @@ -1,101 +0,0 @@ -# Copyright 2021-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..10} ) -DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 - -DESCRIPTION="offline/online spike sorting" -HOMEPAGE="https://github.com/tridesclous/tridesclous" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64" -IUSE="gui test" - -RDEPEND=" - <dev-python/numpy-1.24.0[${PYTHON_USEDEP}] - dev-python/cython[${PYTHON_USEDEP}] - dev-python/hdbscan[${PYTHON_USEDEP}] - dev-python/loky[${PYTHON_USEDEP}] - dev-python/matplotlib[${PYTHON_USEDEP}] - dev-python/neo[${PYTHON_USEDEP}] - dev-python/numba - dev-python/openpyxl[${PYTHON_USEDEP}] - dev-python/pandas[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - dev-python/seaborn[${PYTHON_USEDEP}] - dev-python/tqdm[${PYTHON_USEDEP}] - sci-libs/scikit-learn[${PYTHON_USEDEP}] - gui? ( - dev-python/PyQt5[${PYTHON_USEDEP}] - ) -" - -distutils_enable_tests pytest - -# Network sandboxing, this is sadly more than half the test suite :( -EPYTEST_DESELECT=( - tridesclous/tests/test_cleancluster.py::test_auto_split - tridesclous/tests/test_cleancluster.py::test_trash_not_aligned - tridesclous/tests/test_cleancluster.py::test_auto_merge - tridesclous/tests/test_cleancluster.py::test_trash_low_extremum - tridesclous/tests/test_cleancluster.py::test_trash_small_cluster - tridesclous/tests/test_cluster.py::test_sawchaincut - tridesclous/tests/test_cluster.py::test_pruningshears - tridesclous/tests/test_decomposition.py::test_all_decomposition - tridesclous/tests/test_export.py::test_export - tridesclous/tests/test_export.py::test_export_catalogue_spikes - tridesclous/tests/test_jobtools.py::test_run_parallel_signalprocessor - tridesclous/tests/test_matplotlibplot.py::test_plot_probe_geometry - tridesclous/tests/test_matplotlibplot.py::test_plot_signals - tridesclous/tests/test_matplotlibplot.py::test_plot_waveforms_with_geometry - tridesclous/tests/test_matplotlibplot.py::test_plot_waveforms - tridesclous/tests/test_matplotlibplot.py::test_plot_features_scatter_2d - tridesclous/tests/test_metrics.py::test_all_metrics - tridesclous/tests/test_metrics.py::test_cluster_ratio - tridesclous/tests/test_peeler.py::test_peeler_geometry - tridesclous/tests/test_peeler.py::test_peeler_geometry_cl - tridesclous/tests/test_peeler.py::test_peeler_empty_catalogue - tridesclous/tests/test_peeler.py::test_peeler_several_chunksize - tridesclous/tests/test_peeler.py::test_peeler_with_and_without_preprocessor - tridesclous/tests/test_peeler.py::test_export_spikes - tridesclous/tests/test_report.py::test_summary_catalogue_clusters - tridesclous/tests/test_report.py::test_summary_noise - tridesclous/tests/test_report.py::test_summary_after_peeler_clusters - tridesclous/tests/test_report.py::test_generate_report - tridesclous/tests/test_autoparams.py::test_get_auto_params - tridesclous/tests/test_catalogueconstructor.py::test_catalogue_constructor - tridesclous/tests/test_catalogueconstructor.py::test_make_catalogue - tridesclous/tests/test_catalogueconstructor.py::test_ratio_amplitude - tridesclous/tests/test_catalogueconstructor.py::test_create_savepoint_catalogue_constructor - tridesclous/tests/test_catalogueconstructor.py::test_feature_with_lda_selection - tridesclous/tests/test_cataloguetools.py::test_apply_all_catalogue_steps - tridesclous/tests/test_dataio.py::test_DataIO - tridesclous/tests/test_dataio.py::test_DataIO_probes - tridesclous/tests/test_datasets.py::test_download_dataset - tridesclous/tests/test_datasets.py::test_get_dataset - tridesclous/tests/test_datasource.py::test_RawDataSource - tridesclous/tests/test_datasource.py::test_NeoRawIOAggregator - tridesclous/tests/test_peakdetector.py::test_compare_offline_online_engines - tridesclous/tests/test_peakdetector.py::test_detect_geometrical_peaks - tridesclous/tests/test_peakdetector.py::test_peak_sign_symetry - tridesclous/tests/test_signalpreprocessor.py::test_compare_offline_online_engines - tridesclous/tests/test_signalpreprocessor.py::test_auto_pad_width - tridesclous/tests/test_tools.py::test_fix_prb_file_py2 -) - -python_test() { - local EPYTEST_IGNORE=( - tridesclous/online/tests/* - ) - if use !gui ; then - local EPYTEST_IGNORE+=( - tridesclous/gui/* - ) - fi - epytest -} diff --git a/dev-python/tridesclous/tridesclous-1.6.6.ebuild b/dev-python/tridesclous/tridesclous-1.6.6.ebuild deleted file mode 100644 index 13697e657..000000000 --- a/dev-python/tridesclous/tridesclous-1.6.6.ebuild +++ /dev/null @@ -1,101 +0,0 @@ -# Copyright 2021-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..10} ) -DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 - -DESCRIPTION="offline/online spike sorting" -HOMEPAGE="https://github.com/tridesclous/tridesclous" -SRC_URI="https://github.com/tridesclous/tridesclous/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64" -IUSE="gui test" - -RDEPEND=" - <dev-python/numpy-1.24.0[${PYTHON_USEDEP}] - dev-python/cython[${PYTHON_USEDEP}] - dev-python/hdbscan[${PYTHON_USEDEP}] - dev-python/loky[${PYTHON_USEDEP}] - dev-python/matplotlib[${PYTHON_USEDEP}] - dev-python/neo[${PYTHON_USEDEP}] - dev-python/numba - dev-python/openpyxl[${PYTHON_USEDEP}] - dev-python/pandas[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - dev-python/seaborn[${PYTHON_USEDEP}] - dev-python/tqdm[${PYTHON_USEDEP}] - sci-libs/scikit-learn[${PYTHON_USEDEP}] - gui? ( - dev-python/PyQt5[${PYTHON_USEDEP}] - ) -" - -distutils_enable_tests pytest - -# Network sandboxing, this is sadly more than half the test suite :( -EPYTEST_DESELECT=( - tridesclous/tests/test_cleancluster.py::test_auto_split - tridesclous/tests/test_cleancluster.py::test_trash_not_aligned - tridesclous/tests/test_cleancluster.py::test_auto_merge - tridesclous/tests/test_cleancluster.py::test_trash_low_extremum - tridesclous/tests/test_cleancluster.py::test_trash_small_cluster - tridesclous/tests/test_cluster.py::test_sawchaincut - tridesclous/tests/test_cluster.py::test_pruningshears - tridesclous/tests/test_decomposition.py::test_all_decomposition - tridesclous/tests/test_export.py::test_export - tridesclous/tests/test_export.py::test_export_catalogue_spikes - tridesclous/tests/test_jobtools.py::test_run_parallel_signalprocessor - tridesclous/tests/test_matplotlibplot.py::test_plot_probe_geometry - tridesclous/tests/test_matplotlibplot.py::test_plot_signals - tridesclous/tests/test_matplotlibplot.py::test_plot_waveforms_with_geometry - tridesclous/tests/test_matplotlibplot.py::test_plot_waveforms - tridesclous/tests/test_matplotlibplot.py::test_plot_features_scatter_2d - tridesclous/tests/test_metrics.py::test_all_metrics - tridesclous/tests/test_metrics.py::test_cluster_ratio - tridesclous/tests/test_peeler.py::test_peeler_geometry - tridesclous/tests/test_peeler.py::test_peeler_geometry_cl - tridesclous/tests/test_peeler.py::test_peeler_empty_catalogue - tridesclous/tests/test_peeler.py::test_peeler_several_chunksize - tridesclous/tests/test_peeler.py::test_peeler_with_and_without_preprocessor - tridesclous/tests/test_peeler.py::test_export_spikes - tridesclous/tests/test_report.py::test_summary_catalogue_clusters - tridesclous/tests/test_report.py::test_summary_noise - tridesclous/tests/test_report.py::test_summary_after_peeler_clusters - tridesclous/tests/test_report.py::test_generate_report - tridesclous/tests/test_autoparams.py::test_get_auto_params - tridesclous/tests/test_catalogueconstructor.py::test_catalogue_constructor - tridesclous/tests/test_catalogueconstructor.py::test_make_catalogue - tridesclous/tests/test_catalogueconstructor.py::test_ratio_amplitude - tridesclous/tests/test_catalogueconstructor.py::test_create_savepoint_catalogue_constructor - tridesclous/tests/test_catalogueconstructor.py::test_feature_with_lda_selection - tridesclous/tests/test_cataloguetools.py::test_apply_all_catalogue_steps - tridesclous/tests/test_dataio.py::test_DataIO - tridesclous/tests/test_dataio.py::test_DataIO_probes - tridesclous/tests/test_datasets.py::test_download_dataset - tridesclous/tests/test_datasets.py::test_get_dataset - tridesclous/tests/test_datasource.py::test_RawDataSource - tridesclous/tests/test_datasource.py::test_NeoRawIOAggregator - tridesclous/tests/test_peakdetector.py::test_compare_offline_online_engines - tridesclous/tests/test_peakdetector.py::test_detect_geometrical_peaks - tridesclous/tests/test_peakdetector.py::test_peak_sign_symetry - tridesclous/tests/test_signalpreprocessor.py::test_compare_offline_online_engines - tridesclous/tests/test_signalpreprocessor.py::test_auto_pad_width - tridesclous/tests/test_tools.py::test_fix_prb_file_py2 -) - -python_test() { - local EPYTEST_IGNORE=( - tridesclous/online/tests/* - ) - if use !gui ; then - local EPYTEST_IGNORE+=( - tridesclous/gui/* - ) - fi - epytest -} diff --git a/dev-python/typish/typish-1.9.3.ebuild b/dev-python/typish/typish-1.9.3.ebuild index f597d0175..a4ecbb65f 100644 --- a/dev-python/typish/typish-1.9.3.ebuild +++ b/dev-python/typish/typish-1.9.3.ebuild @@ -17,7 +17,7 @@ SRC_URI=" LICENSE="MIT" SLOT="0" -KEYWORDS="~amd64 ~arm ~arm64 ~hppa ~ia64 ~ppc ~ppc64 ~riscv ~s390 ~sparc ~x86" +KEYWORDS="~amd64" BDEPEND=" test? ( diff --git a/dev-python/ufl/Manifest b/dev-python/ufl/Manifest deleted file mode 100644 index 636d9ef3e..000000000 --- a/dev-python/ufl/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST ufl-2019.1.0.tar.gz 308107 BLAKE2B b89ac7bc5614d5fc61f3d5a91bdd64c8ef0b8589500e2ca4c0cc33a3488f17630ce006a9908ac53606cfa5867781943a247791ae043c8e15c040de1eabd20199 SHA512 2e79c5c05ddea1edc2aca55eafb5fcb246f24a31d9f7312dca19cfa284f7c039b1cb3d5450bbd628eed29b0881f3f3abdc9be106fd33f86a73720eaba5bea3d5 diff --git a/dev-python/ufl/metadata.xml b/dev-python/ufl/metadata.xml deleted file mode 100644 index 3dff10f36..000000000 --- a/dev-python/ufl/metadata.xml +++ /dev/null @@ -1,19 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <longdescription lang="en"> -The Unified Form Language (UFL) is a domain specific language for -declaration of finite element discretizations of variational forms. More -precisely, it defines a flexible interface for choosing finite element -spaces and defining expressions for weak forms in a notation close to -mathematical notation. -</longdescription> - <upstream> - <remote-id type="bitbucket">fenics-project/ufl</remote-id> - <remote-id type="github">FEniCS/ufl</remote-id> - </upstream> -</pkgmetadata> diff --git a/dev-python/ufl/ufl-2019.1.0.ebuild b/dev-python/ufl/ufl-2019.1.0.ebuild deleted file mode 100644 index ef75774a2..000000000 --- a/dev-python/ufl/ufl-2019.1.0.ebuild +++ /dev/null @@ -1,29 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) - -inherit distutils-r1 optfeature - -DESCRIPTION="Unified Form Language for declaration of for FE discretizations" -HOMEPAGE="https://github.com/FEniCS/ufl" -SRC_URI="https://github.com/FEniCS/ufl/archive/${PV}.tar.gz -> ${P}.tar.gz" - -LICENSE="GPL-3" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND="dev-python/numpy[${PYTHON_USEDEP}]" - -distutils_enable_tests pytest - -python_test() { - distutils_install_for_testing - pytest -vv || die "pytest failed for ${EPYTHON}" -} - -pkg_postinst() { - optfeature "Support for evaluating Bessel functions" dev-python/scipy -} diff --git a/dev-python/uhi/Manifest b/dev-python/uhi/Manifest new file mode 100644 index 000000000..199ee2a62 --- /dev/null +++ b/dev-python/uhi/Manifest @@ -0,0 +1 @@ +DIST uhi-0.4.0.tar.gz 52953 BLAKE2B b0c16c58c676f405d7b46398507968e92e4c3939a53224b49cbd935c3473800341903a9e9c5e3c598d68f171a9ec098feedaa774b2bbfe780581a663e99b2592 SHA512 4f7f0bdce3fef14c8789e0860956d6d4d2ab91e48eb95b6bceb67aef47b23a260f0f33a565c052fe48933f108adfe32f4c28c8cf874cc908929d407687bbc385 diff --git a/dev-python/uhi/metadata.xml b/dev-python/uhi/metadata.xml new file mode 100644 index 000000000..c1ee047a1 --- /dev/null +++ b/dev-python/uhi/metadata.xml @@ -0,0 +1,19 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <maintainer type="person"> + <email>alexander@neuwirth-informatik.de</email> + <name>Alexander Puck Neuwirth</name> + </maintainer> + <longdescription lang="en"> + This is a package meant primarily for documenting histogram indexing and the PlottableHistogram Protocol and any future cross-library standards. It also contains the code for the PlottableHistogram Protocol, to be used in type checking libraries wanting to conform to the protocol. Eventually, it might gain a set of tools for testing conformance to UHI indexing, as well. It is not usually a runtime dependency, but only a type checking, testing, and/or docs dependency in support of other libraries (such as boost-histogram 0.13+, hist 2.1+, mplhep 0.2.15+, uproot 4+, and histoprint 2+). There are a few useful runtime usable components (listed below). It requires Python 3.6+. See what's new. + </longdescription> + <upstream> + <remote-id type="pypi">uhi</remote-id> + <remote-id type="github">scikit-hep/uhi</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/uhi/uhi-0.4.0.ebuild b/dev-python/uhi/uhi-0.4.0.ebuild new file mode 100644 index 000000000..380e3bdbd --- /dev/null +++ b/dev-python/uhi/uhi-0.4.0.ebuild @@ -0,0 +1,27 @@ +EAPI=8 + +PYTHON_COMPAT=( python3_{10..12} ) +DISTUTILS_USE_PEP517=hatchling +SETUPTOOLS_SCM_PRETEND_VERSION=${PV} +inherit distutils-r1 pypi + +DESCRIPTION="Universal Histogram Interface" +HOMEPAGE="https://github.com/scikit-hep/uhi" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64" + +RDEPEND=" + >=dev-python/numpy-1.13.3[${PYTHON_USEDEP}] + test? ( + dev-python/pytest[${PYTHON_USEDEP}] + dev-python/boost-histogram[${PYTHON_USEDEP}] + ) +" +BDEPEND=" + ${RDEPEND} + dev-python/hatch-vcs[${PYTHON_USEDEP}] +" + +distutils_enable_tests pytest diff --git a/dev-python/umap-learn/Manifest b/dev-python/umap-learn/Manifest deleted file mode 100644 index 911c8ce27..000000000 --- a/dev-python/umap-learn/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST umap-learn-0.5.2.tar.gz 86805 BLAKE2B b1381647c947472a10472475477d3f4c91446606b1ee7235dd91c65606e4c54119a706864364845ad34d74db33760013f93fd6f2a3b7e75a5161bbbc216a2c5a SHA512 89d7e7680554c63429eee1c0702f6b0b03f5a29d7770af0630a15bd50aeeaa3c272d87f2380ec71a60accea96fe9936c7c807bfe4143c6afa1444741c865eef5 diff --git a/dev-python/umap-learn/metadata.xml b/dev-python/umap-learn/metadata.xml deleted file mode 100644 index 2f2c0b51c..000000000 --- a/dev-python/umap-learn/metadata.xml +++ /dev/null @@ -1,12 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="person"> - <email>gentoo@aisha.cc</email> - <name>Aisha Tammy</name> - </maintainer> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> -</pkgmetadata> diff --git a/dev-python/umap-learn/umap-learn-0.5.2.ebuild b/dev-python/umap-learn/umap-learn-0.5.2.ebuild deleted file mode 100644 index 45b45b7f1..000000000 --- a/dev-python/umap-learn/umap-learn-0.5.2.ebuild +++ /dev/null @@ -1,26 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 - -DESCRIPTION="Uniform Manifold Approximation and Projection" -HOMEPAGE="https://umap-learn.readthedocs.io/" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - >=dev-python/numba-0.49[${PYTHON_USEDEP}] - >=dev-python/numpy-1.17[${PYTHON_USEDEP}] - >=dev-python/pynndescent-0.5[${PYTHON_USEDEP}] - >=dev-python/scipy-1.0[${PYTHON_USEDEP}] - dev-python/tqdm[${PYTHON_USEDEP}] - >=sci-libs/scikit-learn-0.22[${PYTHON_USEDEP}] -" -DEPEND="${RDEPEND}" diff --git a/dev-python/unyt/Manifest b/dev-python/unyt/Manifest deleted file mode 100644 index 8120c74f7..000000000 --- a/dev-python/unyt/Manifest +++ /dev/null @@ -1,3 +0,0 @@ -DIST old_json_registry.txt 12950 BLAKE2B 54197911cbb4c3167ffe88673db87cc7dec96a55dd762162293eb0616996ec1324d91e6b4bbba4f77be227e63bf52013bcab155ca49a75e14844ae52d82337b7 SHA512 9fe6d46e24257542646e40e7364b93d52f21b6a449532cfaf4a7e913d47b76ac6c5b0579db4bc9449de816e127db90b6d330cb7620376846236829c4bc2f2346 -DIST unyt-2.7.2.tar.gz 584585 BLAKE2B 1ff1083709195510d915979c07e1aa0e0605897d41d8b3eb9497dfa21e86ba6cebc623d6cb42dba85580a416f0ad1c4c4a2be20fd492fc421e19a42c61f8c66a SHA512 73c8585b847baba927357e093336936c2505da28665dc06b79d29eb667604ef195d2c9a68aa851c0231a08f440dc7a711c4ea19ea334675dd78c11e7441aff72 -DIST unyt-2.8.0.tar.gz 324621 BLAKE2B b950ac0ca37795212edcf0a93a418c3287d5019fd9a6509bde50a62795433bcb828595508ffdc0f615b6e1e2426e7cfebf8cd3c65068e9754f79d58783ae7e7e SHA512 b3279023044d54b83833e2503876da67c6a8ce25fe1d3359e045cb9f5f8e5389bb3e1f5e1564479ebef3191c451614c3bd28b9f79ade89d3f9c00dceb04b021c diff --git a/dev-python/unyt/metadata.xml b/dev-python/unyt/metadata.xml deleted file mode 100644 index 2f2c0b51c..000000000 --- a/dev-python/unyt/metadata.xml +++ /dev/null @@ -1,12 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="person"> - <email>gentoo@aisha.cc</email> - <name>Aisha Tammy</name> - </maintainer> - <maintainer type="project"> - <email>sci@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> -</pkgmetadata> diff --git a/dev-python/unyt/unyt-2.7.2.ebuild b/dev-python/unyt/unyt-2.7.2.ebuild deleted file mode 100644 index 893f0c03f..000000000 --- a/dev-python/unyt/unyt-2.7.2.ebuild +++ /dev/null @@ -1,32 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) - -inherit distutils-r1 - -DESCRIPTION="package for handling numpy arrays with units" -HOMEPAGE="https://github.com/yt-project/unyt" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz - https://raw.githubusercontent.com/yt-project/unyt/v${PV}/unyt/tests/data/old_json_registry.txt -" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64" - -RDEPEND="${PYTHON_DEPS} - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/sympy[${PYTHON_USEDEP}] -" - -distutils_enable_tests pytest - -python_prepare_all() { - mkdir -p "${S}"/unyt/tests/data || die - mv "${DISTDIR}"/old_json_registry.txt "${S}"/unyt/tests/data/ - - distutils-r1_python_prepare_all -} diff --git a/dev-python/unyt/unyt-2.8.0.ebuild b/dev-python/unyt/unyt-2.8.0.ebuild deleted file mode 100644 index 893f0c03f..000000000 --- a/dev-python/unyt/unyt-2.8.0.ebuild +++ /dev/null @@ -1,32 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) - -inherit distutils-r1 - -DESCRIPTION="package for handling numpy arrays with units" -HOMEPAGE="https://github.com/yt-project/unyt" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz - https://raw.githubusercontent.com/yt-project/unyt/v${PV}/unyt/tests/data/old_json_registry.txt -" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64" - -RDEPEND="${PYTHON_DEPS} - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/sympy[${PYTHON_USEDEP}] -" - -distutils_enable_tests pytest - -python_prepare_all() { - mkdir -p "${S}"/unyt/tests/data || die - mv "${DISTDIR}"/old_json_registry.txt "${S}"/unyt/tests/data/ - - distutils-r1_python_prepare_all -} diff --git a/dev-python/vector/Manifest b/dev-python/vector/Manifest new file mode 100644 index 000000000..df652f966 --- /dev/null +++ b/dev-python/vector/Manifest @@ -0,0 +1,3 @@ +DIST vector-1.1.1.tar.gz 289916 BLAKE2B 35281c498f244b0307d744a20d0364c4cf664d0bd08a4f17d8d3110aa4eae6d7f66e3b51b4e9847f31d3a6ab943248115221dee4dcd3c3f2f8c47842001b553a SHA512 b1e195751de35ca2c67749b6b2b330db8a29e023f42e9b454adc8fc2408c29b5926b39e9ed6dc6a93f97006fbfb286a2217be8b14cb0eb2b96c9538f6c3943e6 +DIST vector-1.3.1.tar.gz 299581 BLAKE2B 36e99e814b5e8afc7a0179acce74f399db8f76e3c3c59ebbb5a2616bfa8f34ca2cfabe9e42752226dbabbdcd77fc15a4725c4e296f5329533a85cade8fcfae0c SHA512 524752789f6ea0201e1bb3dc09e7396a8bc64a1ee78ccab383bbe968134783bbf7499948784b141353612649f8188d0cb93147b53afdf37ba26f812d8ebd84b0 +DIST vector-1.4.0.tar.gz 368490 BLAKE2B 443922bc00bfddd3601a414af1a2ba70bed0caff0dd5516573a557d736b65ebf42f191c6de776a3a28b2399d4cbe3db56f69864051758839a00e2703e6b3b53c SHA512 f8caba973fe7739537c41b5a86b435134bfa1f59b355a2246ae0cff76b6be5ea8ddae90c11326d439e4c31aacbbf21061479fa0d1d9e644292307bf2a77c416e diff --git a/dev-python/vector/metadata.xml b/dev-python/vector/metadata.xml new file mode 100644 index 000000000..b6aaa9af7 --- /dev/null +++ b/dev-python/vector/metadata.xml @@ -0,0 +1,19 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <maintainer type="person"> + <email>alexander@neuwirth-informatik.de</email> + <name>Alexander Puck Neuwirth</name> + </maintainer> + <longdescription lang="en"> + Vector is a Python 3.8+ library (Python 3.6 and 3.7 supported till v0.9.0 and v1.0.0, respectively) for 2D, 3D, and Lorentz vectors, especially arrays of vectors, to solve common physics problems in a NumPy-like way. + </longdescription> + <upstream> + <remote-id type="pypi">vector</remote-id> + <remote-id type="github">scikit-hep/vector</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/vector/vector-1.1.1.ebuild b/dev-python/vector/vector-1.1.1.ebuild new file mode 100644 index 000000000..8b5a45c3d --- /dev/null +++ b/dev-python/vector/vector-1.1.1.ebuild @@ -0,0 +1,22 @@ +EAPI=8 + +PYTHON_COMPAT=( python3_{10..12} ) +DISTUTILS_USE_PEP517=hatchling +inherit distutils-r1 pypi + +DESCRIPTION="Vector classes and utilities" +HOMEPAGE="https://github.com/scikit-hep/vector" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64" + +RDEPEND=" + >=dev-python/numpy-1.13.3[${PYTHON_USEDEP}] +" +DEPEND="${RDEPEND}" +BDEPEND=" + dev-python/hatch-vcs[${PYTHON_USEDEP}] +" + +export SETUPTOOLS_SCM_PRETEND_VERSION=${PV} diff --git a/dev-python/vector/vector-1.3.1.ebuild b/dev-python/vector/vector-1.3.1.ebuild new file mode 100644 index 000000000..8b5a45c3d --- /dev/null +++ b/dev-python/vector/vector-1.3.1.ebuild @@ -0,0 +1,22 @@ +EAPI=8 + +PYTHON_COMPAT=( python3_{10..12} ) +DISTUTILS_USE_PEP517=hatchling +inherit distutils-r1 pypi + +DESCRIPTION="Vector classes and utilities" +HOMEPAGE="https://github.com/scikit-hep/vector" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64" + +RDEPEND=" + >=dev-python/numpy-1.13.3[${PYTHON_USEDEP}] +" +DEPEND="${RDEPEND}" +BDEPEND=" + dev-python/hatch-vcs[${PYTHON_USEDEP}] +" + +export SETUPTOOLS_SCM_PRETEND_VERSION=${PV} diff --git a/dev-python/vector/vector-1.4.0.ebuild b/dev-python/vector/vector-1.4.0.ebuild new file mode 100644 index 000000000..a57240b49 --- /dev/null +++ b/dev-python/vector/vector-1.4.0.ebuild @@ -0,0 +1,34 @@ +EAPI=8 + +PYTHON_COMPAT=( python3_{10..12} ) +DISTUTILS_USE_PEP517=hatchling +inherit distutils-r1 pypi optfeature + +DESCRIPTION="Vector classes and utilities" +HOMEPAGE=" + https://github.com/scikit-hep/vector + https://vector.readthedocs.io/ + https://doi.org/10.5281/zenodo.7054478 +" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64" +# tests need numba +RESTRICT="test" + +RDEPEND=" + >=dev-python/numpy-1.13.3[${PYTHON_USEDEP}] + >=dev-python/packaging-19[${PYTHON_USEDEP}] +" +DEPEND="${RDEPEND}" +BDEPEND=" + dev-python/hatch-vcs[${PYTHON_USEDEP}] +" + +export SETUPTOOLS_SCM_PRETEND_VERSION=${PV} + +pkg_postinst() { + optfeature "awkward array support" dev-python/awkward + optfeature "sympy support" dev-python/sympy +} diff --git a/dev-python/visvis/Manifest b/dev-python/visvis/Manifest index 10c6f487a..2caf8e4e4 100644 --- a/dev-python/visvis/Manifest +++ b/dev-python/visvis/Manifest @@ -1 +1 @@ -DIST visvis-1.13.0.tar.gz 5095145 BLAKE2B 4c47002902d7ee15f4ccc684b53daec09657422d9e53438a0e91d11ea17b76fd8e413b6caab8fee63752116247b526454bc7830751db1d3bb6d12adab914cc1a SHA512 a2272250060e418c7b78acb51599bf5d440d6d20ffe41d5fbfb3b68f6486b6d9312300dfa94697ff23bdadb2e79a871dc75bf0ba53be3267107d392236693d6a +DIST visvis-1.14.0.tar.gz 4892032 BLAKE2B 564e328d4265676bec35798149ff1283b7289fe04e946ca78b6068ae6f70d1dff809a4ec19b94b1d49a9c3ac7f0b186996070736d3eb4ba4897feac7d03edb6a SHA512 d056ec8a83ac9cee4cbb05806145287fa9dab8064fbc910463255d4510f082ca29f393c309c7b649c6d625f1c368bf5ef28f44de1ebb30ccd1d5650fadb76a81 diff --git a/dev-python/visvis/metadata.xml b/dev-python/visvis/metadata.xml index ae9640ffb..7eac38327 100644 --- a/dev-python/visvis/metadata.xml +++ b/dev-python/visvis/metadata.xml @@ -5,4 +5,8 @@ <email>sci@gentoo.org</email> <name>Gentoo Science Project</name> </maintainer> + <upstream> + <remote-id type="pypi">visvis</remote-id> + <remote-id type="github">almarklein/visvis</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/visvis/visvis-1.13.0.ebuild b/dev-python/visvis/visvis-1.14.0.ebuild index 68d53d30e..1f210c0b4 100644 --- a/dev-python/visvis/visvis-1.13.0.ebuild +++ b/dev-python/visvis/visvis-1.14.0.ebuild @@ -3,14 +3,13 @@ EAPI=8 -DISTUTILS_USE_SETUPTOOLS=no -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="An object oriented approach to visualization of 1D to 4D data" HOMEPAGE="https://github.com/almarklein/visvis" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="BSD" SLOT="0" diff --git a/dev-python/wirerope/Manifest b/dev-python/wirerope/Manifest new file mode 100644 index 000000000..ae2ee16cb --- /dev/null +++ b/dev-python/wirerope/Manifest @@ -0,0 +1 @@ +DIST wirerope-0.4.7.gh.tar.gz 12220 BLAKE2B 1ed861b71cfbfb4c0d18a2c09f6cf96f545d9a88617e7618053c4e5459317532e12195a02e3f3d99a0cc91bf0601c39404b80e4e631a86b24a5926718b4cb287 SHA512 cfa7222503a9c03f9afe6cab9acc45d7115795169325692c5c519913406f8abc4d78d84769d24ff123ca47333f7ea8dde3a8a7961d34d0e20aebc02e0a420aaf diff --git a/dev-python/wirerope/files/wirerope-0.4.7-nocov.patch b/dev-python/wirerope/files/wirerope-0.4.7-nocov.patch new file mode 100644 index 000000000..64d47d0b7 --- /dev/null +++ b/dev-python/wirerope/files/wirerope-0.4.7-nocov.patch @@ -0,0 +1,10 @@ +--- a/setup.cfg 2023-02-05 08:00:42.000000000 -0500 ++++ b/setup.cfg 2024-05-06 11:01:02.896234948 -0400 +@@ -33,7 +33,6 @@ + sphinx + + [tool:pytest] +-addopts=--verbose --cov-config .coveragerc --cov wirerope + python_files = tests/test_*.py + norecursedirs=.git py ci + [flake8] diff --git a/dev-python/wirerope/metadata.xml b/dev-python/wirerope/metadata.xml new file mode 100644 index 000000000..6e39bae5d --- /dev/null +++ b/dev-python/wirerope/metadata.xml @@ -0,0 +1,16 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>gentoo@chymera.eu</email> + <name>Horea Christian</name> + </maintainer> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <upstream> + <remote-id type="github">youknowone/wirerope</remote-id> + <remote-id type="pypi">wirerope</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/wirerope/wirerope-0.4.7.ebuild b/dev-python/wirerope/wirerope-0.4.7.ebuild new file mode 100644 index 000000000..74e7f40bd --- /dev/null +++ b/dev-python/wirerope/wirerope-0.4.7.ebuild @@ -0,0 +1,26 @@ +# Copyright 1999-2022 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=setuptools +PYTHON_COMPAT=( python3_{10..12} ) +inherit distutils-r1 + +DESCRIPTION="A wrapper interface for python callables" +HOMEPAGE="https://github.com/youknowone/wirerope" +# Not using PyPI archive because it misses test files: +# https://github.com/youknowone/wirerope/issues/20 +SRC_URI="https://github.com/youknowone/wirerope/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~x86" + +RDEPEND=" + dev-python/six[${PYTHON_USEDEP}] +" + +PATCHES=( "${FILESDIR}/${P}-nocov.patch" ) + +distutils_enable_tests pytest diff --git a/dev-python/wraps/Manifest b/dev-python/wraps/Manifest index 94118dae2..44510a1dd 100644 --- a/dev-python/wraps/Manifest +++ b/dev-python/wraps/Manifest @@ -1,2 +1 @@ -DIST wraps-0.1.0.tar.gz 25356 BLAKE2B 844293a5f7dfd84aa17f636d4863182118d40aa6ae53e044e77b77207be5b744cc78ef5235b889a963332fedb6922ce8ad829075099d9428be335366fe22cc56 SHA512 0e34d811869be2b22ec61638acb21342693e0fa44cf3d152dde179903c26771a9e26c673d2f37107122ba4bc92fe944b18ed16ebece7df0c07178845fc72bebb DIST wraps-0.2.0.tar.gz 25308 BLAKE2B b68359d34995f7bc39535e97458807a5d55e3547124ccb8b34f9cd34fe1d3b38921a3a0c16df031410022f74d414aba97af9e9f60a20fb635428030bc400b130 SHA512 daf72785c3215db06f4bf06704f02c7ecfd1ef5c58dbf5c50b2dee14755d73b519f8a13be9658bf825c296689d9b3effd08aec4254779812583c1024522751f0 diff --git a/dev-python/wraps/files/wraps-0.1.0-includes.patch b/dev-python/wraps/files/wraps-0.1.0-includes.patch deleted file mode 100644 index a5184e52e..000000000 --- a/dev-python/wraps/files/wraps-0.1.0-includes.patch +++ /dev/null @@ -1,16 +0,0 @@ ---- a/pyproject.toml 2022-06-28 11:08:09.624127900 -0400 -+++ b/pyproject.toml 2022-07-11 16:33:14.810411482 -0400 -@@ -20,8 +20,11 @@ - "Topic :: Utilities", - "Typing :: Typed", - ] -- --include = ["CHANGELOG.md", "tests"] -+include = [ -+ { path = "LICENSE", format = "sdist" }, -+ { path = "README.md", format = "sdist" }, -+ { path = "CHANGELOG.md", format = "sdist" }, -+] - - [tool.poetry.urls] - Discord = "https://nekit.dev/discord" diff --git a/dev-python/wraps/metadata.xml b/dev-python/wraps/metadata.xml index dd3bf5227..d94ee3bee 100644 --- a/dev-python/wraps/metadata.xml +++ b/dev-python/wraps/metadata.xml @@ -11,5 +11,6 @@ </maintainer> <upstream> <remote-id type="github">nekitdev/wraps</remote-id> + <remote-id type="pypi">wraps</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/wraps/wraps-0.1.0-r1.ebuild b/dev-python/wraps/wraps-0.1.0-r1.ebuild deleted file mode 100644 index 4f51a06f2..000000000 --- a/dev-python/wraps/wraps-0.1.0-r1.ebuild +++ /dev/null @@ -1,30 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_USE_PEP517=poetry -PYTHON_COMPAT=( python3_{10..11} ) - -inherit distutils-r1 - -DESCRIPTION=" Meaningful and safe wrapping types. " -HOMEPAGE="https://github.com/nekitdev/wraps" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" -RESTRICT="test" -# package does not have test suite (yet) - -RDEPEND=" - >=dev-python/attrs-21.4.0[${PYTHON_USEDEP}] - >=dev-python/typing-extensions-4.2.0[${PYTHON_USEDEP}] - " - -PATCHES=( - "${FILESDIR}/${P}-poetry_groups.patch" -) - -distutils_enable_tests pytest diff --git a/dev-python/wraps/wraps-0.2.0.ebuild b/dev-python/wraps/wraps-0.2.0.ebuild index 0e4ec817c..b06b511cd 100644 --- a/dev-python/wraps/wraps-0.2.0.ebuild +++ b/dev-python/wraps/wraps-0.2.0.ebuild @@ -5,12 +5,10 @@ EAPI=8 DISTUTILS_USE_PEP517=poetry PYTHON_COMPAT=( python3_{10..11} ) - -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION=" Meaningful and safe wrapping types. " HOMEPAGE="https://github.com/nekitdev/wraps" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" SLOT="0" diff --git a/dev-python/xgboost/Manifest b/dev-python/xgboost/Manifest index 7c74e59be..b76de8dcc 100644 --- a/dev-python/xgboost/Manifest +++ b/dev-python/xgboost/Manifest @@ -1 +1,2 @@ DIST xgboost-1.6.2.tar.gz 790950 BLAKE2B 07c7e65f6969d75b5741e7fb0d113dd98007d7fe296eb2f62cd02d88b39ec4d87c2e51e8f866ee9fb76d9cf73fbb2e0defea3a9d4d78373d170f9298a991ca22 SHA512 6e5221cf569765848484a7476acc1d8ccc7260807c70695047d0dac839404bd191e0f521a91d9e088af2c125770aec7c6a651c4bb830059c04482c4c799bb62b +DIST xgboost-2.0.3.tar.gz 1048322 BLAKE2B 2140b805aaed441da956e47cbfe08d84db1b0af96844771f4912480b05346b18632051886b237bef3e2b55a80f09c1db996be4dfeff48c942220079c4a4a149c SHA512 93614a9ad9d0a256cc31586b701c46eef4353df76c3eac26f39df23c8c02fa9ec95e72a0cea0b51bc3e416b81b3ac557ed361afeda246376a7b561bb6f7da579 diff --git a/dev-python/xgboost/metadata.xml b/dev-python/xgboost/metadata.xml index a83159655..f862a0379 100644 --- a/dev-python/xgboost/metadata.xml +++ b/dev-python/xgboost/metadata.xml @@ -5,4 +5,7 @@ SYSTEM 'http://www.gentoo.org/dtd/metadata.dtd'> <maintainer type="person"> <email>heroxbd@gentoo.org</email> </maintainer> + <upstream> + <remote-id type="pypi">xgboost</remote-id> + </upstream> </pkgmetadata> diff --git a/dev-python/xgboost/xgboost-1.6.2.ebuild b/dev-python/xgboost/xgboost-1.6.2.ebuild index 645522c9c..780adec11 100644 --- a/dev-python/xgboost/xgboost-1.6.2.ebuild +++ b/dev-python/xgboost/xgboost-1.6.2.ebuild @@ -5,11 +5,10 @@ EAPI=8 PYTHON_COMPAT=( python3_{10..11} ) DISTUTILS_USE_PEP517=setuptools -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="XGBoost Python Package" HOMEPAGE="https://xgboost.readthedocs.io" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="Apache-2.0" SLOT="0" diff --git a/dev-python/xgboost/xgboost-2.0.3.ebuild b/dev-python/xgboost/xgboost-2.0.3.ebuild new file mode 100644 index 000000000..60302a1cb --- /dev/null +++ b/dev-python/xgboost/xgboost-2.0.3.ebuild @@ -0,0 +1,27 @@ +# Copyright 1999-2021 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..12} ) +DISTUTILS_USE_PEP517="standalone" +inherit distutils-r1 pypi + +DESCRIPTION="XGBoost Python Package" +HOMEPAGE=" + https://xgboost.readthedocs.io + https://github.com/dmlc/xgboost/ +" + +REQUIRED_USE=" + ${PYTHON_REQUIRED_USE} +" + +LICENSE="Apache-2.0" +SLOT="0" +KEYWORDS="~amd64 ~x86" + +RDEPEND=" + dev-python/numpy[${PYTHON_USEDEP}] + dev-python/scipy[${PYTHON_USEDEP}] +" diff --git a/dev-python/xopen/Manifest b/dev-python/xopen/Manifest deleted file mode 100644 index 7c783a2c0..000000000 --- a/dev-python/xopen/Manifest +++ /dev/null @@ -1,4 +0,0 @@ -DIST xopen-0.9.0.tar.gz 13334 BLAKE2B e3131bccf25b486eb9e23abcde03b09287edbff7fe78f558d158700e21219a330f3bf50390de4bd9f0598f1079261ff42b5d3bfd58a5b81e44b0051f592b2d7f SHA512 1cc8f32aaa9e626855e038ce3422d485a73c3d7d3af6e0957b8d735bc2c673f1780896686e9541a25fb25a57d7fe37d63099b23cada112ee2be382ccc0b52def -DIST xopen-1.0.0.tar.gz 17487 BLAKE2B b805c8bc9bbfd57027a83e6d12d5bfdcb53cd9a4d3d938e9c97160e05e0684ee061121b800bcfdbfa3eb84bd10205c1a29a9c787563377a015a962132ee3c4d5 SHA512 d0ca9118d7ff871ee71605e3bbdf8271aca1179d8fbc4ec4e4ce86c0d822dcd74bb4c7927a8aa5796f01cb5cd14ef88414d9dc1f26e734b0037e81a180fbff09 -DIST xopen-1.0.1.tar.gz 18237 BLAKE2B 4019176c80d135551de09a057fe24c1ae96ccff3a2dc59129dbc6262e13b95993618701deae7795df49bfc9cfeb6503c2c9de4d25f1d7499a6ccce91878e49fd SHA512 045fd685b1a9f2dcd91e4ec28b5d3e1dba5ff71bee22165b0b6f1ca4d0fec91fd9551118e1f096d94d543e67512f7bc0c5bf58954115908b03544cf7afcef7b7 -DIST xopen-1.1.0.tar.gz 17836 BLAKE2B bdc70e4b9f08bbacadc8ca7bfb543a554104d41d092c771524277d83e616d29d2425724c35f82b2480e42ee60b9671d18742537c157acfea857669007ba63979 SHA512 74e366febede75afd09760a0f04fe13738bc432fe6801507435efb8020d4431aa37aab9500e55d78de5030474f473b379aff7764205e07647454d12118a26997 diff --git a/dev-python/xopen/metadata.xml b/dev-python/xopen/metadata.xml deleted file mode 100644 index 822323020..000000000 --- a/dev-python/xopen/metadata.xml +++ /dev/null @@ -1,16 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="person"> - <email>mmokrejs@fold.natur.cuni.cz</email> - <name>Martin Mokrejs</name> - </maintainer> - <maintainer type="person"> - <email>gentoo@aisha.cc</email> - <name>Aisha Tammy</name> - </maintainer> - <maintainer type="project"> - <email>sci-biology@gentoo.org</email> - <name>Gentoo Biology Project</name> - </maintainer> -</pkgmetadata> diff --git a/dev-python/xopen/xopen-0.9.0.ebuild b/dev-python/xopen/xopen-0.9.0.ebuild deleted file mode 100644 index 7c32e8298..000000000 --- a/dev-python/xopen/xopen-0.9.0.ebuild +++ /dev/null @@ -1,21 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) -inherit distutils-r1 - -DESCRIPTION="Open compressed files transparently" -HOMEPAGE="https://pypi.python.org/pypi/xopen" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - app-arch/pigz -" - -distutils_enable_tests pytest diff --git a/dev-python/xopen/xopen-1.0.0.ebuild b/dev-python/xopen/xopen-1.0.0.ebuild deleted file mode 100644 index 7c32e8298..000000000 --- a/dev-python/xopen/xopen-1.0.0.ebuild +++ /dev/null @@ -1,21 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) -inherit distutils-r1 - -DESCRIPTION="Open compressed files transparently" -HOMEPAGE="https://pypi.python.org/pypi/xopen" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - app-arch/pigz -" - -distutils_enable_tests pytest diff --git a/dev-python/xopen/xopen-1.0.1.ebuild b/dev-python/xopen/xopen-1.0.1.ebuild deleted file mode 100644 index 7c32e8298..000000000 --- a/dev-python/xopen/xopen-1.0.1.ebuild +++ /dev/null @@ -1,21 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) -inherit distutils-r1 - -DESCRIPTION="Open compressed files transparently" -HOMEPAGE="https://pypi.python.org/pypi/xopen" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - app-arch/pigz -" - -distutils_enable_tests pytest diff --git a/dev-python/xopen/xopen-1.1.0.ebuild b/dev-python/xopen/xopen-1.1.0.ebuild deleted file mode 100644 index 3c721232d..000000000 --- a/dev-python/xopen/xopen-1.1.0.ebuild +++ /dev/null @@ -1,21 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..9} ) -inherit distutils-r1 - -DESCRIPTION="Open compressed files transparently" -HOMEPAGE="https://pypi.python.org/pypi/xopen" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64 ~x86" - -RDEPEND=" - app-arch/pigz -" - -distutils_enable_tests pytest diff --git a/dev-python/yte/Manifest b/dev-python/yte/Manifest new file mode 100644 index 000000000..2ad6d3366 --- /dev/null +++ b/dev-python/yte/Manifest @@ -0,0 +1 @@ +DIST yte-1.5.4.tar.gz 6352 BLAKE2B f304d1846c0f54949397570564f6bf9d048cd26a99a87feb62f8944403fd0f619546ed0989a2f9fda381c0f39adaa4d987ff66eb4e3bcbce107a460091c1b775 SHA512 eb61553d4c17f6d39f954ea5ab1a09a83009ab8f6f653afbf780b7a30f355e149b4508f8e3755a804f245246e0a1184c74be995f1477e1d2d27bc536bc1ff1f7 diff --git a/dev-python/yte/metadata.xml b/dev-python/yte/metadata.xml new file mode 100644 index 000000000..ea4e4616a --- /dev/null +++ b/dev-python/yte/metadata.xml @@ -0,0 +1,16 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>mschu.dev@gmail.com</email> + <name>Michael Schubert</name> + </maintainer> + <maintainer type="project"> + <email>sci@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <upstream> + <remote-id type="github">yte-template-engine/yte</remote-id> + <remote-id type="pypi">yte</remote-id> + </upstream> +</pkgmetadata> diff --git a/dev-python/yte/yte-1.5.4.ebuild b/dev-python/yte/yte-1.5.4.ebuild new file mode 100644 index 000000000..ad7b669b1 --- /dev/null +++ b/dev-python/yte/yte-1.5.4.ebuild @@ -0,0 +1,22 @@ +# Copyright 1999-2018 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +DISTUTILS_USE_PEP517=poetry +PYTHON_COMPAT=( python3_{10..12} ) + +inherit pypi distutils-r1 + +DESCRIPTION="A YAML template engine with Python expressions" +HOMEPAGE="https://pypi.org/project/yte/" + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux" + +RDEPEND=" + dev-python/dpath[${PYTHON_USEDEP}] + dev-python/plac[${PYTHON_USEDEP}] + dev-python/pyyaml[${PYTHON_USEDEP}] +" diff --git a/dev-python/zarr/Manifest b/dev-python/zarr/Manifest index 08592fdcc..bb2213da1 100644 --- a/dev-python/zarr/Manifest +++ b/dev-python/zarr/Manifest @@ -1,3 +1,3 @@ -DIST zarr-2.11.1.tar.gz 3492813 BLAKE2B ff31cc2d11f5f863770f91136694108ab76525c644dd57861a4a57ca03dae0bb8cde5c20a2654f3566ffb69900d581e7592f576b9c0d2746e4fb95ed6991c740 SHA512 e0079a69f65a1bc230049469f50bf52af036d85d84f7c163ecdc2a4a8d7b75b07b59c1fcdecd83f578682914a6463641e9341d2c18f939c57f1e78f298f6b7ea -DIST zarr-2.11.3.tar.gz 3492924 BLAKE2B ca7c5d4b4dd9a3ba4b108fb878e91418fda5b4020a09eb024c774ea8b06b1b329fd7537806632550d60b19ab16b6f6542b6e368cbaef1bbf43a8514b2347c5d6 SHA512 e11e08341769a730a22fcf9a14bbd6d284c4cb051d971dbd3a234ef42224a46e8119cb53360df1aa55580bc4912df61ddde42284c16173f68a3db1d666afbc65 DIST zarr-2.12.0.tar.gz 3571172 BLAKE2B f8c628d0ff1fdb75fa46dc923de413f4de5f7aeed822a14523c3c2277b2692852f4896c80d160c503c787d510270c25fc813a9556f1a1f54ed2ffa0147f41763 SHA512 300fc20e22def9b444629c5bb7d5ae9d8178100b88f02b5dc4ddeabc2007cc9d19e7fe9b1710f3b69ebf1aa2154f7e03b11b1a78809be9285caf294d4d49c4ee +DIST zarr-2.14.2.tar.gz 3589944 BLAKE2B 5e7de6c3a2bd9bd970b07bdfe1d51f14ad0e50bac37f2fbad91d98066d5239d237fa5af8cfef2f0a1ab4461dba4eeaed1db9fa0a4a1bfcd1757d54da4bbb15f7 SHA512 cc1eb40cd3723e87916e84f958d26df6353fc1e767e33a986068e182ad2a83c2dd7eb4939bf12ff45d4de49d822a0e6cb0afb5a5f1292d4c196f812d48939191 +DIST zarr-2.16.1.tar.gz 3597771 BLAKE2B 459f8022b3a4e3298b0f9650738713f6c13bb474ae50005b9387fefc87360f6358e4899037b26b9893d87298b14606d7b29bc1539fc8fa1479a08b30f2c8323b SHA512 e3b7c234c6376bea535d47304d83ee5b4d8b4bfc6952dde5e0bf1276833c1f427c98a7af0867f351e0139404d3729024b591a1f9b2242e219846a994e0762ee5 diff --git a/dev-python/zarr/zarr-2.12.0.ebuild b/dev-python/zarr/zarr-2.12.0.ebuild index d0781c09f..f18e92d44 100644 --- a/dev-python/zarr/zarr-2.12.0.ebuild +++ b/dev-python/zarr/zarr-2.12.0.ebuild @@ -1,16 +1,15 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Chunked, compressed, N-dimensional arrays for Python" HOMEPAGE="https://github.com/zarr-developers/zarr-python" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" SLOT="0" @@ -59,4 +58,4 @@ EPYTEST_DESELECT=( ) distutils_enable_tests pytest -distutils_enable_sphinx docs dev-python/numpydoc dev-python/sphinx-issues dev-python/sphinx_rtd_theme +distutils_enable_sphinx docs dev-python/numpydoc dev-python/sphinx-issues dev-python/sphinx-rtd-theme diff --git a/dev-python/zarr/zarr-2.11.3.ebuild b/dev-python/zarr/zarr-2.14.2.ebuild index d0781c09f..f18e92d44 100644 --- a/dev-python/zarr/zarr-2.11.3.ebuild +++ b/dev-python/zarr/zarr-2.14.2.ebuild @@ -1,16 +1,15 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Chunked, compressed, N-dimensional arrays for Python" HOMEPAGE="https://github.com/zarr-developers/zarr-python" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" SLOT="0" @@ -59,4 +58,4 @@ EPYTEST_DESELECT=( ) distutils_enable_tests pytest -distutils_enable_sphinx docs dev-python/numpydoc dev-python/sphinx-issues dev-python/sphinx_rtd_theme +distutils_enable_sphinx docs dev-python/numpydoc dev-python/sphinx-issues dev-python/sphinx-rtd-theme diff --git a/dev-python/zarr/zarr-2.11.1.ebuild b/dev-python/zarr/zarr-2.16.1.ebuild index fb138aad0..f18e92d44 100644 --- a/dev-python/zarr/zarr-2.11.1.ebuild +++ b/dev-python/zarr/zarr-2.16.1.ebuild @@ -1,16 +1,15 @@ -# Copyright 1999-2022 Gentoo Authors +# Copyright 1999-2023 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=8 DISTUTILS_USE_PEP517=setuptools -PYTHON_COMPAT=( python3_10 ) +PYTHON_COMPAT=( python3_{10..11} ) -inherit distutils-r1 +inherit distutils-r1 pypi DESCRIPTION="Chunked, compressed, N-dimensional arrays for Python" HOMEPAGE="https://github.com/zarr-developers/zarr-python" -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" LICENSE="MIT" SLOT="0" @@ -21,8 +20,8 @@ RESTRICT="!test? ( test )" RDEPEND=" dev-python/asciitree[${PYTHON_USEDEP}] dev-python/fasteners[${PYTHON_USEDEP}] - dev-python/numcodecs[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] + >=dev-python/numcodecs-0.6.4[${PYTHON_USEDEP}] + >=dev-python/numpy-1.7[${PYTHON_USEDEP}] " DEPEND=" @@ -59,3 +58,4 @@ EPYTEST_DESELECT=( ) distutils_enable_tests pytest +distutils_enable_sphinx docs dev-python/numpydoc dev-python/sphinx-issues dev-python/sphinx-rtd-theme diff --git a/dev-python/zarr_checksum/Manifest b/dev-python/zarr_checksum/Manifest new file mode 100644 index 000000000..5ca7cc376 --- /dev/null +++ b/dev-python/zarr_checksum/Manifest @@ -0,0 +1,2 @@ +DIST zarr_checksum-0.2.8.tar.gz 11824 BLAKE2B b26b6e1b9559e6572c95fb3700afada3c9040dfa1d26f736dcf6edfe4272c2e513f209286e24d7690de9fa2789297075469258f65edc8a2999fa2c4eee58f3ee SHA512 5c79611568decc8b9a353002e96c6ca73ec2c378debcba11f89feecb62089a78a4c3a8f4948971dd1a120a476dba7f357b23ba0b6edcf93d3f44dbb7c531feb5 +DIST zarr_checksum-0.4.0.tar.gz 11618 BLAKE2B 90c963f6540fd9a7a667f0a683b6c3d4a70230b4d71eb08f62a1cfecb20b7eb46b515b4cafc12b90fbc6c80fb83d5c5779682c6313bc56a819a4a8a5ff1843dc SHA512 e903bbc04847767dd14a0e0ad7e2fae47e97b18b813911b3bdb835e75454f573e8e1021c68f79cbf44fa21af64a4833f41ecb754a5b263e5d46dc0c7dc83447f diff --git a/dev-python/palettable/metadata.xml b/dev-python/zarr_checksum/metadata.xml index a5b9b813a..57bdec31a 100644 --- a/dev-python/palettable/metadata.xml +++ b/dev-python/zarr_checksum/metadata.xml @@ -2,15 +2,15 @@ <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> <pkgmetadata> <maintainer type="person"> - <email>marbre@linux.sungazer.de</email> - <name>Marius Brehler</name> + <email>gentoo@chymera.eu</email> + <name>Horea Christian</name> </maintainer> <maintainer type="project"> <email>sci@gentoo.org</email> <name>Gentoo Science Project</name> </maintainer> <upstream> - <remote-id type="github">jiffyclub/palettable</remote-id> - <remote-id type="pypi">palettable</remote-id> + <remote-id type="github">dandi/zarr_checksum</remote-id> + <remote-id type="pypi">zarr_checksum</remote-id> </upstream> </pkgmetadata> diff --git a/dev-python/zarr_checksum/zarr_checksum-0.2.8.ebuild b/dev-python/zarr_checksum/zarr_checksum-0.2.8.ebuild new file mode 100644 index 000000000..58cb87329 --- /dev/null +++ b/dev-python/zarr_checksum/zarr_checksum-0.2.8.ebuild @@ -0,0 +1,26 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=poetry + +inherit distutils-r1 pypi + +DESCRIPTION="Calculatine zarr checksums from local or cloud storage" +HOMEPAGE="https://github.com/dandi/zarr_checksum" + +LICENSE="Apache-2.0" +SLOT="0" +KEYWORDS="~amd64 ~x86" + +RDEPEND=" + dev-python/boto3[${PYTHON_USEDEP}] + dev-python/click[${PYTHON_USEDEP}] + dev-python/pydantic[${PYTHON_USEDEP}] + dev-python/tqdm[${PYTHON_USEDEP}] + dev-python/zarr[${PYTHON_USEDEP}] +" + +distutils_enable_tests pytest diff --git a/dev-python/zarr_checksum/zarr_checksum-0.4.0.ebuild b/dev-python/zarr_checksum/zarr_checksum-0.4.0.ebuild new file mode 100644 index 000000000..58cb87329 --- /dev/null +++ b/dev-python/zarr_checksum/zarr_checksum-0.4.0.ebuild @@ -0,0 +1,26 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..11} ) +DISTUTILS_USE_PEP517=poetry + +inherit distutils-r1 pypi + +DESCRIPTION="Calculatine zarr checksums from local or cloud storage" +HOMEPAGE="https://github.com/dandi/zarr_checksum" + +LICENSE="Apache-2.0" +SLOT="0" +KEYWORDS="~amd64 ~x86" + +RDEPEND=" + dev-python/boto3[${PYTHON_USEDEP}] + dev-python/click[${PYTHON_USEDEP}] + dev-python/pydantic[${PYTHON_USEDEP}] + dev-python/tqdm[${PYTHON_USEDEP}] + dev-python/zarr[${PYTHON_USEDEP}] +" + +distutils_enable_tests pytest |