gentoo resync : 15.01.2020

4 files changed, 3 insertions, 120 deletions

diff --git a/sci-biology/biopython/Manifest b/sci-biology/biopython/Manifest
index acc4141192b8..f252db4b4e14 100644
--- a/sci-biology/biopython/Manifest
+++ b/sci-biology/biopython/Manifest
@@ -1,7 +1,3 @@
-DIST biopython-1.68.tar.gz 14445813 BLAKE2B 566931c4e522e95278f7f6a9dc07ecc091dc54b69cdea8bb07603339af4f1fd38e3df87482e97729acb776dd2df19a4e61d49ee7608ec5cb0f24966e28c2e3dd SHA512 0ca994475654bb68ff326c8e86cbd4547cd87b42e1633dda039ad668e1298884b22e169f6b25ab514e929861334a93b7db6d057a3486cea9997ca2de95c61a69
-DIST biopython-1.71.tar.gz 16031832 BLAKE2B 2062065b77fc35ea8a3f09ec967482c233a6e0bbfc7d09187ff5e892848b45fa7bd6d7b6027b38c3d4c9a9c601785521fa7edb91fa960b46c8e49aed91b1f5dc SHA512 003955e92295e98526c88abb573db9bdc37877fc41395551b541e7106ffa603327a36c6f4d999838c0be38b378901235c9dbd7cb7fc25c14a5d7001939fe23bd
 DIST biopython-1.73.tar.gz 15715102 BLAKE2B b2c40f9ed02681f19607c88f91b469784985acefc6e81770a54e5c13c715915344bc7fd72e4a88ae50879a2463965ac6d0d04c6d263908887028d1e065620b95 SHA512 d067330ef8e25ca6881b56f4e5e89e16a816c89760473e2f32a6236ab202f805294650aa944f0b098987425bcb65727317da7a26deb4d4937f02b00123ea9a8f
-EBUILD biopython-1.68.ebuild 1634 BLAKE2B 43d435496fc239c847b19a4e66bf52f920454ee6fd810b94d0d32bde6381059abb9561f90d06e5d1ca83a80721958c6051f79d0c92e5b76dc8d930ed54254f78 SHA512 70b8d2a8f84f70edc6a6225a8958328d8657dbb8b01c0716b7b1c15320914e827129c30da32b670f6ba9ab4d24a8f6cf01ea728b5d14e1607e9cef5c35f7b47f
-EBUILD biopython-1.71.ebuild 1616 BLAKE2B e1e4b60cfe88dd00ef28135f137657147112249bc60738d145c5036bab3d1436878834f9ac03c829aa39c40696d0350d9ea98040be43e7f393752f9baf63ac21 SHA512 ae8fa77eefe2bb67c430bd6351a60e2a5d1e0193be4c8e6330f81edbac90b4730d5ec59b1bd25baf04452a9d8ea4f9b7550b703ecf20b1af9c9473b6465b2e5a
-EBUILD biopython-1.73.ebuild 1684 BLAKE2B c98e92b2e989b2a398912b1335049750565933b202cc1e1d77d83f1aa13071bb5dd1ce63ac37113a2bf03cc1394dcb7011fb2346728d3463c353460101b847a5 SHA512 b71c3acc6b6f97564b31b3bfc4a8fe47ad1c95fcd07f265964f3cf381ef3d2c2917d2bc2ef8446ef3290eaf447a1c77ff38fc7d1459694c8884dc45cd8350e9a
+EBUILD biopython-1.73.ebuild 1671 BLAKE2B d899d54d6983bbbcc43e34a051cd5cfdbed4ff92d50dcc95fd38df84f60882bfdda7d95cf4a5fa84ece32e36e10e53010340cdceb2f50b37351b917afd0dc062 SHA512 3d648fe4b0a62f984fe4541c8b4298759dcf772ef0119ca7de42b207fc09994ed2c5d0b3a561fc647382c2e41f2ec1832fe388c7fdf1f8b8d83ee4565d0e20b1
 MISC metadata.xml 267 BLAKE2B 7cf386952842945148119de3263231db4d1046d5f54811f7e303ed8ec4d27cbc1960b99c92daf6f32e5b981c2fb9f50ec666be6193865d6e18541b7427a152a9 SHA512 91ab266d9ab24401bc0fec759c5b6cfcf44a3c5669fc31c7301d79770839bb5dfa0e155d949392ef06176b4a0b2c32b91b1b54b0027f972db61f0a5e54644403
diff --git a/sci-biology/biopython/biopython-1.68.ebuild b/sci-biology/biopython/biopython-1.68.ebuild
deleted file mode 100644
index f76da59c1b84..000000000000
--- a/sci-biology/biopython/biopython-1.68.ebuild
+++ /dev/null
@@ -1,55 +0,0 @@
-# Copyright 1999-2019 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-PYTHON_COMPAT=( python2_7 python3_5 pypy )
-
-inherit distutils-r1 eutils
-
-DESCRIPTION="Python modules for computational molecular biology"
-HOMEPAGE="http://www.biopython.org/ https://pypi.org/project/biopython/"
-SRC_URI="http://www.biopython.org/DIST/${P}.tar.gz"
-
-LICENSE="HPND"
-SLOT="0"
-KEYWORDS="amd64 x86 ~amd64-linux ~x86-linux"
-IUSE=""
-
-RDEPEND="
-	dev-python/matplotlib[$(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[$(python_gen_usedep 'python*')]
-	dev-python/pydot[$(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,MySQLdb.py,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
-	elog
-	elog "Some applications need extra packages:"
-	optfeature "EMBOSS (The European Molecular Biology Open Software Suite)" sci-biology/emboss
-}
diff --git a/sci-biology/biopython/biopython-1.71.ebuild b/sci-biology/biopython/biopython-1.71.ebuild
deleted file mode 100644
index 8b9a0cd7112e..000000000000
--- a/sci-biology/biopython/biopython-1.71.ebuild
+++ /dev/null
@@ -1,57 +0,0 @@
-# Copyright 1999-2019 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-PYTHON_COMPAT=( python2_7 python3_{5,6} )
-
-inherit distutils-r1 eutils
-
-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}/${P}.tar.gz"
-
-LICENSE="HPND"
-SLOT="0"
-KEYWORDS="amd64 x86 ~amd64-linux ~x86-linux"
-IUSE=""
-
-RDEPEND="
-	dev-python/matplotlib[${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[${PYTHON_USEDEP}]
-	dev-python/pydot[${PYTHON_USEDEP}]"
-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,MySQLdb.py,mysql_connector.py} || die
-	"${EPYTHON}" run_tests.py --offline --verbose || die
-}
-
-python_install_all() {
-	# remove files causing ecompressdir to fail
-	rm Doc/examples/ls_orchid.gbk.bz2 || die
-
-	distutils-r1_python_install_all
-
-	dodir /usr/share/${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
-
-	elog "Some applications need extra packages:"
-	optfeature "EMBOSS (The European Molecular Biology Open Software Suite)" sci-biology/emboss
-}
diff --git a/sci-biology/biopython/biopython-1.73.ebuild b/sci-biology/biopython/biopython-1.73.ebuild
index f0d335a5933a..94acdfc2a2cb 100644
--- a/sci-biology/biopython/biopython-1.73.ebuild
+++ b/sci-biology/biopython/biopython-1.73.ebuild
@@ -1,10 +1,9 @@
-# Copyright 1999-2019 Gentoo Authors
+# Copyright 1999-2020 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=7
 
-PYTHON_COMPAT=( python2_7 python3_{5,6,7} )
-
+PYTHON_COMPAT=( python3_{6,7} )
 inherit distutils-r1 eutils
 
 DESCRIPTION="Python modules for computational molecular biology"