diff options
Diffstat (limited to 'sci-biology/biopython')
| -rw-r--r-- | sci-biology/biopython/Manifest | 1 | ||||
| -rw-r--r-- | sci-biology/biopython/biopython-1.81.ebuild | 61 |
2 files changed, 0 insertions, 62 deletions
diff --git a/sci-biology/biopython/Manifest b/sci-biology/biopython/Manifest index 3211736a9658..b7d6fe2a78b7 100644 --- a/sci-biology/biopython/Manifest +++ b/sci-biology/biopython/Manifest @@ -2,5 +2,4 @@ AUX biopython-1.81-python3.12.patch 472 BLAKE2B 1c4b1c777e6bd7b80503b6a820caa9aa AUX biopython-1.81-reportlab4.patch 1068 BLAKE2B 1d2c2bf7929f5741f1bcae083d9842b16badba53f3be8fd3352b2b437a670b5032d146dc18610b7b360d503ad6613e9f0632457b8134392e8507900eff191526 SHA512 a576b12b8673471c27c8582f5ecb00ddf4b729a749af21a9ba67c6972dd5e9a535d7116b0ad7d06a5b89ff5b26d042914d23b1909b1081e1226df334e62d57f9 DIST biopython-1.81.tar.gz 19324875 BLAKE2B be3a85f5b60638987d6186af498411b494f8d27389f24cd1b9e658bc6b1a29c799ec8b20a9ac0b955c6d4c239706f4dbb5b75f6d56908f63d731b1d56c9fd587 SHA512 1595fad6631bfb6cf4e1a92ed72e6093e2a0c24f3c0bd4182267ec9742fb03dff16099eedde139598aa6b5b8380bbac9e48246cb9ab8b44109333d60adfd00ed EBUILD biopython-1.81-r1.ebuild 1621 BLAKE2B 4bfbb5ad817e10da15718f781aa2a0d6a9293739292ee3c228634fbb3e7df6e287018a00e6583c751e5d614f130c82ebc216ef7a5677688f66a6ae04c1f99070 SHA512 ea60a63b08a8345a2cf0b97d4a4ef9c4bdba9723d22e7875288406eee3494de4ce8fbedd626953773d71aeccfda625db4269236b325b5d372a7540fbc1f32f3a -EBUILD biopython-1.81.ebuild 1842 BLAKE2B 3037b2bd68de90c8d29911c36c82a9d0444fa4b0de4351d17ef261fbc652eba9f949562184b43556e8b9daf8f31c9e3def2af45f1f5355381bd75365c7a833bc SHA512 400ade4fe5e956a16ea939ba5d0f5bfcf6794cda64faeb181e1d8ca1c6ea99983fd89cc33e2d1998fd92da19083c0b9a8d83721af2cdc9f23950368f61a606e5 MISC metadata.xml 334 BLAKE2B 4d97c23444fdddcca57631fa2ddf4a11cfcef0accf91db65071d520f6601c0626e290e67cbf162abdefe7a74f4b410f8366a23186fc417e1fab7e9ce157d7610 SHA512 a870bd044d0e0d4e2a0c48b50f710845c6269e038790243f1d1de65b1252fd653f0f403fc55b98946df8eb27f24dfae5c84f52fcc38c969afcbdb548ccbb7a59 diff --git a/sci-biology/biopython/biopython-1.81.ebuild b/sci-biology/biopython/biopython-1.81.ebuild deleted file mode 100644 index 8b90d610c6ae..000000000000 --- a/sci-biology/biopython/biopython-1.81.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_{9..11} ) - -inherit distutils-r1 optfeature pypi - -DESCRIPTION="Python modules for computational molecular biology" -HOMEPAGE="https://www.biopython.org/ https://pypi.org/project/biopython/" - -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 || die - ln -r -s "${S}"/Bio/Align/substitution_matrices \ - "${TEST_DIR}"/lib/Bio/Align/substitution_matrices || 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/mysqlclient - optfeature "PostgreSQL database support" dev-python/psycopg:2 - - optfeature_header "Some applications need extra packages:" - optfeature "EMBOSS (The European Molecular Biology Open Software Suite)" sci-biology/emboss -} |