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author | V3n3RiX <venerix@koprulu.sector> | 2023-07-21 14:46:21 +0100 |
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committer | V3n3RiX <venerix@koprulu.sector> | 2023-07-21 14:46:21 +0100 |
commit | d3f42b1ace45210af6c1b0c1970d626d411b15e0 (patch) | |
tree | 247085c9b7eb4f9b76c091d65482f26262c9b924 /sci-biology/biopython/biopython-1.81-r1.ebuild | |
parent | 7c334a9594ae315e537bf98259b95bafc60d479c (diff) |
gentoo auto-resync : 21:07:2023 - 14:46:21
Diffstat (limited to 'sci-biology/biopython/biopython-1.81-r1.ebuild')
-rw-r--r-- | sci-biology/biopython/biopython-1.81-r1.ebuild | 59 |
1 files changed, 59 insertions, 0 deletions
diff --git a/sci-biology/biopython/biopython-1.81-r1.ebuild b/sci-biology/biopython/biopython-1.81-r1.ebuild new file mode 100644 index 000000000000..115a4d3b1a4c --- /dev/null +++ b/sci-biology/biopython/biopython-1.81-r1.ebuild @@ -0,0 +1,59 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{9..11} ) +DISTUTILS_USE_PEP517="setuptools" +DISTUTILS_EXT=1 + +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/. ) + +PATCHES=( + "${FILESDIR}/${P}-reportlab4.patch" + "${FILESDIR}/${P}-python3.12.patch" +) + +python_test() { + cd Tests || 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 +} |