commit: 8e78e2bf9ed815575f8c00157166095423e14681 Author: Michał Górny <mgorny <AT> gentoo <DOT> org> AuthorDate: Sat Apr 13 14:32:16 2024 +0000 Commit: Michał Górny <mgorny <AT> gentoo <DOT> org> CommitDate: Sat Apr 13 14:33:01 2024 +0000 URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=8e78e2bf
sci-chemistry/mdtraj: Remove last-rited pkg Bug: https://bugs.gentoo.org/911646 Signed-off-by: Michał Górny <mgorny <AT> gentoo.org> profiles/package.mask | 2 - sci-chemistry/mdtraj/Manifest | 1 - .../mdtraj/files/mdtraj-1.9.7-python311.patch | 16 ------- sci-chemistry/mdtraj/mdtraj-1.9.7.ebuild | 49 ---------------------- sci-chemistry/mdtraj/metadata.xml | 12 ------ 5 files changed, 80 deletions(-) diff --git a/profiles/package.mask b/profiles/package.mask index d1d21c35d120..ac905ea5c03f 100644 --- a/profiles/package.mask +++ b/profiles/package.mask @@ -319,7 +319,6 @@ dev-java/failureaccess # dev-python/python-efl: econnman as revdep, bug #925692. # dev-python/pygame_sdl2: also py3.12, bug #911781 # games-engines/renpy: also py3.12, bug #925693 -# sci-chemistry/mdtraj: also py3.12, PEP517, bug #911646. # # Includes their few reverse dependencies and their exclusive # dependencies without Python 3.12 support. @@ -330,7 +329,6 @@ dev-python/pygame_sdl2 dev-python/python-efl games-engines/renpy net-misc/econnman -sci-chemistry/mdtraj # Eray Aslan <[email protected]> (2024-03-10) # Mask experimental software diff --git a/sci-chemistry/mdtraj/Manifest b/sci-chemistry/mdtraj/Manifest deleted file mode 100644 index 8fa7ae2e758e..000000000000 --- a/sci-chemistry/mdtraj/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST mdtraj-1.9.7.tar.gz 2087085 BLAKE2B 430b42eddee0be8beba47994efd16515727970ac7acb36007c9b153cdb474551e5ea228f78a194fa9672d5b169753a9db3c090412bf749b3f1e9323bad9f52de SHA512 5dc9d474909a160e0b1d7989325e8190d1c593087f0130854094eb9c49bc00fd631ea19142d396d49aa7a3dadddaf535b5e811f7574ffff36f0cd22f14691067 diff --git a/sci-chemistry/mdtraj/files/mdtraj-1.9.7-python311.patch b/sci-chemistry/mdtraj/files/mdtraj-1.9.7-python311.patch deleted file mode 100644 index 303c819aaee4..000000000000 --- a/sci-chemistry/mdtraj/files/mdtraj-1.9.7-python311.patch +++ /dev/null @@ -1,16 +0,0 @@ -Index: mdtraj/setup.py -=================================================================== ---- mdtraj.orig/setup.py 2023-01-18 15:26:51.424826255 +0100 -+++ mdtraj/setup.py 2023-01-18 15:26:51.420826223 +0100 -@@ -298,6 +298,10 @@ - - for e in extensions: - e.include_dirs.append(np.get_include()) -- metadata['ext_modules'] = cythonize(extensions, language_level=sys.version_info[0]) -+ metadata['ext_modules'] = cythonize( -+ extensions, -+ language_level=sys.version_info[0], -+ force=True, -+ ) - - setup(**metadata) diff --git a/sci-chemistry/mdtraj/mdtraj-1.9.7.ebuild b/sci-chemistry/mdtraj/mdtraj-1.9.7.ebuild deleted file mode 100644 index 75356685592c..000000000000 --- a/sci-chemistry/mdtraj/mdtraj-1.9.7.ebuild +++ /dev/null @@ -1,49 +0,0 @@ -# Copyright 1999-2024 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 -PYTHON_COMPAT=( python3_{10..11} ) - -inherit distutils-r1 pypi - -DESCRIPTION="Read, write and analyze MD trajectories with only a few lines of Python code" -HOMEPAGE="https://mdtraj.org"; - -SLOT="0" -LICENSE="LGPL-2.1+" -KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux" - -RDEPEND=" - dev-python/astunparse[${PYTHON_USEDEP}] - dev-python/astor[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/pandas[${PYTHON_USEDEP}] - dev-python/pyparsing[${PYTHON_USEDEP}] - dev-python/networkx[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - dev-python/tables[${PYTHON_USEDEP}] -" -DEPEND="${RDEPEND} - test? ( - dev-python/ipykernel[${PYTHON_USEDEP}] - dev-python/jupyter-client[${PYTHON_USEDEP}] - dev-python/nbformat[${PYTHON_USEDEP}] - dev-python/scikit-learn[${PYTHON_USEDEP}] - ) -" -# <cython-3 for bug #911646 -BDEPEND=" - <dev-python/cython-3[${PYTHON_USEDEP}] -" - -distutils_enable_tests --install pytest - -PATCHES=( - "${FILESDIR}/${P}-python311.patch" -) - -python_prepare_all() { - sed -e "s:re.match('build.*(mdtraj.*)', output_dir).group(1):'.':g" \ - -i basesetup.py || die - distutils-r1_python_prepare_all -} diff --git a/sci-chemistry/mdtraj/metadata.xml b/sci-chemistry/mdtraj/metadata.xml deleted file mode 100644 index b91aca7d360a..000000000000 --- a/sci-chemistry/mdtraj/metadata.xml +++ /dev/null @@ -1,12 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd";> -<pkgmetadata> - <maintainer type="project"> - <email>[email protected]</email> - <name>Gentoo Science Project</name> - </maintainer> - <upstream> - <remote-id type="github">mdtraj/mdtraj</remote-id> - <remote-id type="pypi">mdtraj</remote-id> - </upstream> -</pkgmetadata>
