commit: a41f49e0eec39e31152d2829b0131417cb86850c
Author: David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Sun Apr 16 12:35:20 2023 +0000
Commit: David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Sun Apr 16 12:35:20 2023 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=a41f49e0
sci-biology/biopython: drop 1.79
Signed-off-by: David Seifert <soap <AT> gentoo.org>
sci-biology/biopython/Manifest | 1 -
sci-biology/biopython/biopython-1.79.ebuild | 62 -----------------------------
2 files changed, 63 deletions(-)
diff --git a/sci-biology/biopython/Manifest b/sci-biology/biopython/Manifest
index c693a5a8a963..0c16022dea2c 100644
--- a/sci-biology/biopython/Manifest
+++ b/sci-biology/biopython/Manifest
@@ -1,2 +1 @@
-DIST biopython-1.79.tar.gz 16738730 BLAKE2B
8c97fc23e458f7bc98b0ed0226bd6fb42f6c6f3ce03d562b13fac66c5061451595cd5bd01cad07bbe1fc6b20f4de21b0f03766b5a20e602545da888047a57185
SHA512
81e2718f4015bb038637b4d1181e6bea48018fec1e769c5f0ab75442a769336899191f1222e82e1b9569c1fac470500d7582420e5cbe9bce0056b41751adeaaa
DIST biopython-1.81.tar.gz 19324875 BLAKE2B
be3a85f5b60638987d6186af498411b494f8d27389f24cd1b9e658bc6b1a29c799ec8b20a9ac0b955c6d4c239706f4dbb5b75f6d56908f63d731b1d56c9fd587
SHA512
1595fad6631bfb6cf4e1a92ed72e6093e2a0c24f3c0bd4182267ec9742fb03dff16099eedde139598aa6b5b8380bbac9e48246cb9ab8b44109333d60adfd00ed
diff --git a/sci-biology/biopython/biopython-1.79.ebuild
b/sci-biology/biopython/biopython-1.79.ebuild
deleted file mode 100644
index c6a93b3af58d..000000000000
--- a/sci-biology/biopython/biopython-1.79.ebuild
+++ /dev/null
@@ -1,62 +0,0 @@
-# Copyright 1999-2023 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=8
-
-PYTHON_COMPAT=( python3_{9..10} )
-
-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 "${TEST_DIR}"/lib/Bio/Align || die
- ln -r -s "${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
-}
