From d83532aee7e94505bf23da29e6224ca164aac759 Mon Sep 17 00:00:00 2001 From: V3n3RiX Date: Sun, 16 Apr 2023 17:51:01 +0100 Subject: gentoo auto-resync : 16:04:2023 - 17:51:01 --- sci-biology/Manifest.gz | Bin 19500 -> 19493 bytes sci-biology/biopython/Manifest | 2 - sci-biology/biopython/biopython-1.79.ebuild | 62 ---------------------------- 3 files changed, 64 deletions(-) delete mode 100644 sci-biology/biopython/biopython-1.79.ebuild (limited to 'sci-biology') diff --git a/sci-biology/Manifest.gz b/sci-biology/Manifest.gz index fbf7c03b0357..fc09f9eec99e 100644 Binary files a/sci-biology/Manifest.gz and b/sci-biology/Manifest.gz differ diff --git a/sci-biology/biopython/Manifest b/sci-biology/biopython/Manifest index 4835348132b1..c5cb8d233f06 100644 --- a/sci-biology/biopython/Manifest +++ b/sci-biology/biopython/Manifest @@ -1,5 +1,3 @@ -DIST biopython-1.79.tar.gz 16738730 BLAKE2B 8c97fc23e458f7bc98b0ed0226bd6fb42f6c6f3ce03d562b13fac66c5061451595cd5bd01cad07bbe1fc6b20f4de21b0f03766b5a20e602545da888047a57185 SHA512 81e2718f4015bb038637b4d1181e6bea48018fec1e769c5f0ab75442a769336899191f1222e82e1b9569c1fac470500d7582420e5cbe9bce0056b41751adeaaa DIST biopython-1.81.tar.gz 19324875 BLAKE2B be3a85f5b60638987d6186af498411b494f8d27389f24cd1b9e658bc6b1a29c799ec8b20a9ac0b955c6d4c239706f4dbb5b75f6d56908f63d731b1d56c9fd587 SHA512 1595fad6631bfb6cf4e1a92ed72e6093e2a0c24f3c0bd4182267ec9742fb03dff16099eedde139598aa6b5b8380bbac9e48246cb9ab8b44109333d60adfd00ed -EBUILD biopython-1.79.ebuild 1889 BLAKE2B bd56decca7a0e6233bfd68bdf910ecde89452832517202040bfaa732f43f8817edde6ce8996af4c58e5d1ac329316fd4cae14afbb29078f9105c8cb093dbdb81 SHA512 596d2b3577318af2ac6c4ac0062b0e7d88c058050e4f3206218365962ac0a035477a1f162e04295ce87f46611d2caab8efed545442da5143832e8b4f81a7e86c 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-1.79.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 -} -- cgit v1.2.3