commit: 3ca7e670a753666e8f51fc8f34f038bf18e07a69 Author: David Seifert <soap <AT> gentoo <DOT> org> AuthorDate: Thu Dec 30 18:12:11 2021 +0000 Commit: David Seifert <soap <AT> gentoo <DOT> org> CommitDate: Thu Dec 30 18:12:11 2021 +0000 URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=3ca7e670
sci-biology/biopython: drop 1.77 Closes: https://bugs.gentoo.org/757867 Closes: https://bugs.gentoo.org/780345 Signed-off-by: David Seifert <soap <AT> gentoo.org> sci-biology/biopython/Manifest | 1 - sci-biology/biopython/biopython-1.77.ebuild | 61 ----------------------------- 2 files changed, 62 deletions(-) diff --git a/sci-biology/biopython/Manifest b/sci-biology/biopython/Manifest index 9bc0eede97dc..014c48aa8401 100644 --- a/sci-biology/biopython/Manifest +++ b/sci-biology/biopython/Manifest @@ -1,2 +1 @@ -DIST biopython-1.77.tar.gz 16837021 BLAKE2B b5586f0ea3e476b11801dcc98039d5eea7b191e11d390192c0cf348018ded005fe2ad5dc9ba71c83aebc9cdde20c97244905dcc3aeb5436a97588da9f8c79c3e SHA512 6f4b03d46c591e1f49dd1e76bcc4ac5c9aaa2bf748c9dd37ffc5de5a613fbeed38f89b418c01601dd99c65b13b2e294bc8d81ffafc42a9ff1b309c84f840d0d5 DIST biopython-1.79.tar.gz 16738730 BLAKE2B 8c97fc23e458f7bc98b0ed0226bd6fb42f6c6f3ce03d562b13fac66c5061451595cd5bd01cad07bbe1fc6b20f4de21b0f03766b5a20e602545da888047a57185 SHA512 81e2718f4015bb038637b4d1181e6bea48018fec1e769c5f0ab75442a769336899191f1222e82e1b9569c1fac470500d7582420e5cbe9bce0056b41751adeaaa diff --git a/sci-biology/biopython/biopython-1.77.ebuild b/sci-biology/biopython/biopython-1.77.ebuild deleted file mode 100644 index 1dcbc2101c45..000000000000 --- a/sci-biology/biopython/biopython-1.77.ebuild +++ /dev/null @@ -1,61 +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="Python modules for computational molecular biology" -HOMEPAGE="https://www.biopython.org/ https://pypi.org/project/biopython/"; -SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz" - -LICENSE="HPND" -SLOT="0" -KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux" - -RDEPEND=" - dev-python/matplotlib[${PYTHON_USEDEP}] - dev-python/networkx[${PYTHON_USEDEP}] - dev-python/numpy[${PYTHON_USEDEP}] - dev-python/rdflib[${PYTHON_USEDEP}] - dev-python/pygraphviz[${PYTHON_USEDEP}] - >=dev-python/reportlab-3.5.13-r1[${PYTHON_USEDEP}] - dev-python/pydot[${PYTHON_USEDEP}]" -DEPEND="${RDEPEND}" -BDEPEND="sys-devel/flex" - -DOCS=( {CONTRIB,DEPRECATED,NEWS,README}.rst Doc/. ) - -python_test() { - distutils_install_for_testing - cp -r {Doc,Tests} "${TEST_DIR}"/lib/ || die - - # need to create symlinks for doctests - mkdir -p "${TEST_DIR}"/lib/Bio/Align/substitution_matrices || die - ln -r -s "${S}"/Bio/Align/substitution_matrices/data \ - "${TEST_DIR}"/lib/Bio/Align/substitution_matrices/data || die - - cd "${TEST_DIR}"/lib/Tests || die - rm test_BioSQL_{psycopg2.py,MySQLdb.py,mysql_connector.py} || die - "${EPYTHON}" run_tests.py --offline --verbose || die -} - -python_install_all() { - # remove files causing ecompressdir to fail - rm Doc/examples/ls_orchid.gbk.{gz,bz2} || die - - distutils-r1_python_install_all - - dodir /usr/share/${PN} - cp -r --preserve=mode Scripts Tests "${ED}"/usr/share/${PN} || die -} - -pkg_postinst() { - optfeature_header "For database support you need to install:" - optfeature "MySQL database support" dev-python/mysql-python - optfeature "PostgreSQL database support" dev-python/psycopg - optfeature_header "Some applications need extra packages:" - optfeature "EMBOSS (The European Molecular Biology Open Software Suite)" sci-biology/emboss -}
