commit: a040b84602dd0e14247d2467d148c4227ccc534a Author: Tiziano Müller <dev-zero <AT> gentoo <DOT> org> AuthorDate: Sat Mar 26 14:58:27 2016 +0000 Commit: Tiziano Müller <dev-zero <AT> gentoo <DOT> org> CommitDate: Sat Mar 26 14:58:27 2016 +0000 URL: https://gitweb.gentoo.org/dev/dev-zero.git/commit/?id=a040b846
sci-biology/biopython: add revbump for EAPI=6 and python-3.5 compat profiles/categories | 1 + sci-biology/biopython/Manifest | 2 + sci-biology/biopython/biopython-1.66-r1.ebuild | 56 ++++++++++++++++++++++++++ sci-biology/biopython/metadata.xml | 8 ++++ 4 files changed, 67 insertions(+) diff --git a/profiles/categories b/profiles/categories index 38fa978..a276bb0 100644 --- a/profiles/categories +++ b/profiles/categories @@ -86,3 +86,4 @@ sys-process app-i18n sci-chemistry sci-electronics +sci-biology diff --git a/sci-biology/biopython/Manifest b/sci-biology/biopython/Manifest new file mode 100644 index 0000000..a54d05e --- /dev/null +++ b/sci-biology/biopython/Manifest @@ -0,0 +1,2 @@ +DIST biopython-1.65.tar.gz 12641342 SHA256 463cc81db84e9bfcdfb15629511c81ed556a6c0287e670dbfe80f03c65d2a88e SHA512 2a9c6a89d0279374c243938d13bfdd6f2b124a08afbfb0c262e1e4827c48a141fb9941f4cdb960f76b523f0ac152095a8c6ea566d9b469ce9daf8a7e7993f7af WHIRLPOOL 40757938c0eb7e30c9609ef5aa2d397fa21ad92cd20c9b6300cde1b381a0e6c21e4ebb7f4d25bf02651789437d7d86341154b907ccc0007759c17939f2e29da2 +DIST biopython-1.66.tar.gz 13724754 SHA256 5178ea3b343b1d8710f39205386093e5369ed653aa020e1b0c4b7622a59346c1 SHA512 6bb01f1058728f957527447df82ffbb9027e74564e81c8308b3404d033a0f12fef50da05b343bd4c4eae98508931eedc9c4bc23b2efdf36bbb49f1557fa52d71 WHIRLPOOL 0cfe3f4829ec72afa466b17cf6745cc334105713ebeeb06019e2df94acc1289aeb07a7bba70a50afeae00de90c48d2455a1af8cf26f916ceb4c0ab92a4a05fbd diff --git a/sci-biology/biopython/biopython-1.66-r1.ebuild b/sci-biology/biopython/biopython-1.66-r1.ebuild new file mode 100644 index 0000000..e32eccf --- /dev/null +++ b/sci-biology/biopython/biopython-1.66-r1.ebuild @@ -0,0 +1,56 @@ +# Copyright 1999-2016 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI=6 + +PYTHON_COMPAT=( python2_7 python3_{3,4,5} pypy ) + +inherit distutils-r1 eutils + +DESCRIPTION="Python modules for computational molecular biology" +HOMEPAGE="http://www.biopython.org/ https://pypi.python.org/pypi/biopython/" +SRC_URI="http://www.biopython.org/DIST/${P}.tar.gz" + +LICENSE="HPND" +SLOT="0" +KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux" +IUSE="" + +RDEPEND=" + dev-python/matplotlib[$(python_gen_usedep 'python*')] + dev-python/networkx[$(python_gen_usedep 'python*')] + dev-python/numpy[$(python_gen_usedep 'python*')] + dev-python/rdflib[$(python_gen_usedep 'python*')] + dev-python/pygraphviz[$(python_gen_usedep 'python2*')] + dev-python/reportlab[$(python_gen_usedep 'python*')] + media-gfx/pydot[$(python_gen_usedep 'python2*')] + " +DEPEND="${RDEPEND} + sys-devel/flex" + +DOCS=( CONTRIB DEPRECATED NEWS README Doc/. ) + +python_test() { + distutils_install_for_testing + cp -r "${S}"/{Doc,Tests} "${TEST_DIR}"/lib/ || die + cd "${TEST_DIR}"/lib/Tests || die + rm ./test_BioSQL_psycopg2.py ./test_BioSQL_MySQLdb.py ./test_BioSQL_mysql_connector.py || die + ${PYTHON} run_tests.py --offline --verbose || die +} + +python_install_all() { + distutils-r1_python_install_all + + dodir /usr/share/${PN} + cp -r --preserve=mode Scripts Tests "${ED}"/usr/share/${PN} || die +} + +pkg_postinst() { + elog "For database support you need to install:" + optfeature "MySQL" dev-python/mysql-python + optfeature "PostGreSQL" dev-python/psycopg + echo + elog "Some applications need extra packages:" + optfeature "EMBOSS (The European Molecular Biology Open Software Suite)" sci-biology/emboss +} diff --git a/sci-biology/biopython/metadata.xml b/sci-biology/biopython/metadata.xml new file mode 100644 index 0000000..959160f --- /dev/null +++ b/sci-biology/biopython/metadata.xml @@ -0,0 +1,8 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="project"> + <email>sci-biol...@gentoo.org</email> + <name>Gentoo Biology Project</name> + </maintainer> +</pkgmetadata>