Drop old

Package-Manager: portage-2.2.17/cvs/Linux x86_64
Manifest-Sign-Key: 0xB9D4F231BD1558AB!

diff --git a/sci-biology/biopython/ChangeLog b/sci-biology/biopython/ChangeLog
index c7671622e36e450c434558b094e4e38ca361bfa5..7daa655adb46d409d5b15bdda575a61581414d79 100644 (file)
--- a/sci-biology/biopython/ChangeLog
+++ b/sci-biology/biopython/ChangeLog
@@ -1,6 +1,12 @@
 # ChangeLog for sci-biology/biopython
 # Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/biopython/ChangeLog,v 1.77 2015/03/03 16:01:46 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/biopython/ChangeLog,v 1.78 2015/03/03 16:03:42 jlec Exp $
+
+  03 Mar 2015; Justin Lecher <jlec@gentoo.org> -biopython-1.58.ebuild,
+  -biopython-1.59.ebuild, -biopython-1.61.ebuild, -biopython-1.62-r1.ebuild,
+  -biopython-1.62.ebuild, -biopython-1.63-r1.ebuild, -biopython-1.63.ebuild,
+  biopython-1.64.ebuild:
+  Drop old
 
 *biopython-1.65 (03 Mar 2015)
 

diff --git a/sci-biology/biopython/Manifest b/sci-biology/biopython/Manifest
index 5044c50ec70977b0dfe6b8754495267283fb2486..5746ad66c11ab03cde8599e1919cde7d6fdd435c 100644 (file)
--- a/sci-biology/biopython/Manifest
+++ b/sci-biology/biopython/Manifest
@@ -6,41 +6,29 @@ AUX SffIO_error_in_check_eof.patch 511 SHA256 49492906fcab2a7694c9adc12fdb5f636c
 AUX biopython-1.51-flex.patch 782 SHA256 ad957b435fc70b218a7a65eb492b0eae5f82b7c6371d2f1451c9dd714fa056dc SHA512 4d7adf0716d8de840e0c7ef3415d16056a933ec457451e17fd83029e70bcb7c18db8aaf1c9c101a64205eea6f79cd68b78331c6a5a4133bf755ea7c1d5301e83 WHIRLPOOL 194117f335c6c7abc567f6e9365eeef8f8eec4526aac2a0af6f07b7ce026074dc4be024bc8ce1a1f40182d50eb2c241da7b0656f2a42cb19eecd3088dd9148e1
 AUX biopython-1.62-SffIO.patch 2133 SHA256 93177adc422c4bcdadde3d36b0fa92b707aa54620932fca341c9a99c59f758ad SHA512 77b9ab665d2ccd4e8ad64e96f69133764241976f100239dee475636984d3822be2ba3e0afa4a054c26dd994ebce0feff7593ee9520de854f1f81367761f587c6 WHIRLPOOL ea82687b66dc4ad31634fb7921f9046505aec8a663213eeb8741082ba0a70ce9da62cc25367a3b660e28fffb6a8538b3e839adb67fc7658f473c179f1190fafb
 DIST biopython-1.57.tar.gz 6945024 SHA256 07c16a86127770c8d5b653a6e82fee0999159f7284a3a01c98cf66ed2f0ec4a0
-DIST biopython-1.58.tar.gz 8035063 SHA256 f9183facf01d3b0b489401f43a0cae8249c3dd1f7452d939f137980f5e683e73
-DIST biopython-1.59.tar.gz 8577492 SHA256 588abf55de3d8e4deac611a0f810a9c5d9ce7e5868d3064f79efe6cabd18cacb SHA512 235cbe0689f9a72fe4a0713cd6c5b963b0351f7565405ef643001df14c1c5809f023f7612c5253f2487eca123f2d6fe5b66bf817d511fa82155f509edaaf5096 WHIRLPOOL 61ea1bfa2bdcb32e1eb86f37bec2e1f1eb024743e72c572b13585a6f76fe2beb97a65a6414a01408b48a9ce899d1cb63b7b71383c468cddaf047385a3bdd0036
-DIST biopython-1.61.tar.gz 10557825 SHA256 61ec95432f085277da90cde811feee78ced8c7770ef6d1c58d02e6f78b5a51b0 SHA512 dfc8bb902d3a8d927e7e3526d12724d92d96a4ca459534f70d117d7e17a467c4e8decf3214d9b27f63c76ae586eefa19fd1ee0ef1f26348e851d380b127082a2 WHIRLPOOL c373eba9c4811bb17f74cc058467c9a063bc3e2c6066d1dd3c02b6b35982fda132ee2cb353f3ce2a1e569274ff4e67e7d49fc2a74f92910edccd223041522e70
-DIST biopython-1.62.tar.gz 11389349 SHA256 b056414028c8cc0eea3de20d740f7a12ad0813b705de7dd454deec8f9ede52c6 SHA512 0178fd2c2e7b5e9a6cf05e8b8567bb0c1a93e9b05d5faa9802e0e2b0d59fc5e2ce9786c38cbbd00be5b35e4e4a3b41869e774a50cbbcdf6b34788c873cf0f3f2 WHIRLPOOL 63f61243581afee07cd9295989cb90b2221588e066eb1d5695da4b75fcd0abc95a9341ce07a8ffdfc3e85afdc6002582c589ac39e36e98ca4c8a257e63826351
-DIST biopython-1.63.tar.gz 11506485 SHA256 643b92debdfe7fea8771749dee24fb68733232b6e3c02ce94e568a724cc40658 SHA512 d5ef9be40ccf57c35dc7ecdc55c9bc99b0ee6af896584fc029b16e22c1eb5a5cf7d68146635f32e252130fe193998841ac39dc9d96a5511547ba70fc38f566b3 WHIRLPOOL ec9a20264266b6412d8a793ed18bbebf1633d4f6123593b542fa14d00018097b490bf9b837cb186cf30216f8db97e3063e23e565279890cef28011684a2c8536
 DIST biopython-1.64.tar.gz 11671170 SHA256 f79c4f4a7abc6a73b546f2177f041e5d27f68610be8685065b7180d21ec78916 SHA512 f744eee08e4eaa63836ff8fbc56be4d70659d1e36b52c5eed517001bd9d5e64b1d5f3f1c9879c1e82318ff981b3bd6b8d50942415c40b0e855df5aec41ab3dc6 WHIRLPOOL 1f2c4478109d90f73fdc7325c1d298d9f2508f6257ecaf5d3bd8a38bf51019ff596da57665fc2d480eb006b628ee123934c661a1da1746fd8ba27e9e6001dcaa
 DIST biopython-1.65.tar.gz 12641342 SHA256 463cc81db84e9bfcdfb15629511c81ed556a6c0287e670dbfe80f03c65d2a88e SHA512 2a9c6a89d0279374c243938d13bfdd6f2b124a08afbfb0c262e1e4827c48a141fb9941f4cdb960f76b523f0ac152095a8c6ea566d9b469ce9daf8a7e7993f7af WHIRLPOOL 40757938c0eb7e30c9609ef5aa2d397fa21ad92cd20c9b6300cde1b381a0e6c21e4ebb7f4d25bf02651789437d7d86341154b907ccc0007759c17939f2e29da2
 EBUILD biopython-1.57.ebuild 1423 SHA256 9096221918c30adbd01157581f42e61286cb7d20b8ad52ad52756d8c7de155df SHA512 782410b327703e9d6d612c22daf4c977e06051995e7d7a9763690ef101d0261e0689b7787a27ae0a205d26a01df09fa6b98e2d4bc6047856b35917bb87a3a262 WHIRLPOOL a58be3d9ed1aa3fee35d2fbf5ad208b82a1e0ff6067aa989a21989f9f45d5fe6020eb4ee639cdd2ab87820dbb5f52bdcb53aebe300e91c45584f000b914c41de
-EBUILD biopython-1.58.ebuild 1426 SHA256 f81164aafdb8b60963bbfc169fe103ca182c3d13fcfac1ebe1de62c08d4267bf SHA512 d03df5653dc6265bcd90bccec157a4e28e455bf0aa7473c2ca3ae72af059ea0c1100d4274ac140595259aeff98e3540b499905e480ab310e9e664bf149586695 WHIRLPOOL 79078204643918d609d02a586bad87d04bd58dce14b9f503472ba1fecade6a084476e78c980bcaa46c64f5a7db150c7408aa7aeea07ae78407d93dfdc69287cd
-EBUILD biopython-1.59.ebuild 1426 SHA256 062a763ab89f982dad4bc36d358359a1d80fc64a79cae5f7ab0ddc797edcf4c3 SHA512 50cba2bac1b5379b673f6ff82c8607195bc33441156b94f914938a1fe0aaff2e1894077eaacc158a7e14ed10598a29f22960460490d2f25fac3ad6a00faa646f WHIRLPOOL 477f06e99a07c30773c388134db9492ae02a0a1b4626af2fd281ced42694ea445b360d10b0cfca5fa5de03a49fb39ab87ed54670ec076147725a602ba45c66bc
-EBUILD biopython-1.61.ebuild 1314 SHA256 73bb77089b9aa06687d5aae8675b99d8447c092dd408daf29d7cfda04aecb56f SHA512 6ebe97c1659f71539a1dd60c9178344046085d9f3c3787f8a62d702c3026031dbafa6d49afaad2c3eb1270edfce40fd0ad749be76ce8792f7afe6b1790ae4b09 WHIRLPOOL 14430afb8e9c2bb53c175161ea2483a4825b1322934e72eb6655d8e3332652419302438050935c441a86aa5a387020e064ea57b07cfd53d90c42659ab17c0d22
-EBUILD biopython-1.62-r1.ebuild 1346 SHA256 9c3b8a63c5094d6660dc53f5bd8437347dcc863d5baa8e5b945db75bac5458bd SHA512 d9c4b73ceea3e9322cdaf922e300a4da3708d531e7aaf95a0be2424182a378d629bad58794ed754dc17aed02e7e7d6586d53f86f8b7723dde36e0f9331f932f3 WHIRLPOOL 5d47aea89ac838532e0f843253a3dce100660a961a9e32c0c35a03144f229be47cab9b29ec96a3f23b1a0aaa9a5ecb5c9f3cdd2b5ee5bb0687ce7d629caae94b
-EBUILD biopython-1.62.ebuild 1286 SHA256 1c619ca81e8be0769789fbcabcfcbade48b5f0311ce2df423e5e6be184caff6f SHA512 8cd7d64388ee04a15ce80003c035e035cb9520f6ebfb25096caddf6848f64501f7198812f2954f6a355541985e1ea3c4602f3b9e4a7f26c33bb1133bb0654325 WHIRLPOOL a9abe1addad10d68fc3276bfd3782f4b6a2c0e6f32bd28358ff4d005e0f8e6e52b56f6d6e9e9a5f4959a36887beb76465dbd7873dcd14f5da6f2b888d757345d
-EBUILD biopython-1.63-r1.ebuild 1435 SHA256 6ba5a007554d20dc4562aec65e603707c9e478a79d0dbb298e9e65c605169edf SHA512 ce6c6fd7bf5b17409f0a1262bdf94b0b92b12aa5253d316fb121bf59a3b42ae186f2d16e653168d37dce436a9a1abe8fb6bc71ed837d935c45f2f7284790b5be WHIRLPOOL f218436fa1ef2c22bbf1c9a322ec16560775c4fb1c5f2aa18e9adba275f99e1e78ca5532624040537e33d91e0fc9d38c6bc058d55b3db392918aad13b0a5d676
-EBUILD biopython-1.63.ebuild 1330 SHA256 93a4b8c94f18685e17c9e0cee0d9bb75dd3e3e2d36eb8377c05cc893278870dc SHA512 73b174abff04e6de56c4a8fc011e7cb7f448c5baf2fba4f55477cd79047306e47112b5c4e6aad84f6828ecfcb7691def0baac6b5ede22838aee00eae09c4e50c WHIRLPOOL 0cf0dfedb89fd0e0a3ccdc7da65f475198ce96f13e87ceb23ce6ddade0c5fdb49ffc59e30085c04972f5ba9998a2dff0e4d332c88a65242097cd24af29044074
-EBUILD biopython-1.64.ebuild 1324 SHA256 fc862a248eba42b2e5e65a341ffadcf0d921a0170b2101a879f840ca41e1df75 SHA512 580c7265124a2facd3dd48fa9c7f88bbfa1f860d0e6c558d925b3c7b5527db65b063af9ee3210aa7e27a354bb510d328b00a21d3e94af1f687597d337abcf0e8 WHIRLPOOL 9f680f68f965f57636231a859c93f8396093676eca802c278e789e929096ac4bd6aec0d78a3371cb71e06919adafcac9d7ef92eb47f608cb17ac78a4066c1bde
+EBUILD biopython-1.64.ebuild 1326 SHA256 0683b026831015249844c3acc0f9e35eead01e0ae1061f7d88ab29d76c9fef2e SHA512 a07fed11f1f1a4d16b4837e58698302fecd6b2552bf74e65d1d5f0bc485bfc7d10c59a58a42546f3783b229e3677cea291ca329e6cc1fafbe51d57347e2be86a WHIRLPOOL 40ede10189505c6565ece5a5bca156c3b74ad366e0cadb3622b2ba7085428b54f3ab66210b0a96ab682ee3a6a5784ce77b52ccc6656fdb0831207237937cbc21
 EBUILD biopython-1.65.ebuild 1466 SHA256 d14eca1b7feb162cc2df8f0707acd12550ec709a1e76e92a9ab9116f1420be1d SHA512 f3534a7febf1761b3993126fe369ce909014502f592a11d8fc26ff0ba6cced58cd2b64e62fd0ce201259f7f36fae28464b519a8c9495b31304a8868d00f6bd01 WHIRLPOOL c39085a433b935fceb3ec2277f6270dfbabb2b24a54db77550dae2ab5c4671ff3f394313e4368fec6a996fa1c786b346ace6090af35e1c417f0c672560b8ce60
-MISC ChangeLog 12122 SHA256 6c7cea9af676a84209a16a941682afe451ed4984d6ed202fff143b052e926069 SHA512 409dc93386a840251f5562995160ca994dd5d70628356e397566ef354f12324f75f699e041ef1880ccf7b9085eaeb398d9130530178db08899a5c9d78a67ff26 WHIRLPOOL 2f616da4495250a073bbb53b552a6d63508be55376ee8ae52caf8513b263a77f2ba69c07e9be48d7695caedc6d853cf9b71311b768fff4db8572d59fdeb49d71
+MISC ChangeLog 12384 SHA256 c897cfc5b6d9f4bb47973a4005cb0b40f506ef857690bda0754c5f7c57d895d9 SHA512 32a37a70d2726fc5142a29ed13b43c39add18ebe900b6b84359e0843758cfad0c7d5b6976c9253711cbb2d3c1954a4eae546338db909b7446436873430c255b4 WHIRLPOOL 77e893211990c424d30cba777fb37a6ff8fc04a6edd967ba1e395bc67a01bfd0d929e79e010951860429307978ccd317f9df023887b88e19e9555e6059bdff95
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diff --git a/sci-biology/biopython/biopython-1.58.ebuild b/sci-biology/biopython/biopython-1.58.ebuild
deleted file mode 100644 (file)
index 4433194..0000000
--- a/sci-biology/biopython/biopython-1.58.ebuild
+++ /dev/null
@@ -1,55 +0,0 @@
-# Copyright 1999-2012 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/biopython/biopython-1.58.ebuild,v 1.2 2012/12/14 10:00:10 ulm Exp $
-
-EAPI=3
-PYTHON_DEPEND="2"
-SUPPORT_PYTHON_ABIS="1"
-RESTRICT_PYTHON_ABIS="3.* *-jython"
-
-inherit distutils eutils
-
-DESCRIPTION="Python modules for computational molecular biology"
-HOMEPAGE="http://www.biopython.org/ http://pypi.python.org/pypi/biopython/"
-SRC_URI="http://www.biopython.org/DIST/${P}.tar.gz"
-
-LICENSE="HPND"
-SLOT="0"
-KEYWORDS="~amd64 ~ppc ~x86"
-IUSE="mysql postgres"
-
-RDEPEND="
-       dev-python/numpy
-       dev-python/reportlab
-       mysql? ( dev-python/mysql-python )
-       postgres? ( dev-python/psycopg )"
-DEPEND="${RDEPEND}
-       sys-devel/flex"
-
-PYTHON_CFLAGS=("2.* + -fno-strict-aliasing")
-
-DISTUTILS_USE_SEPARATE_SOURCE_DIRECTORIES="1"
-DOCS="CONTRIB DEPRECATED NEWS README"
-PYTHON_MODNAME="Bio BioSQL"
-
-src_prepare() {
-       distutils_src_prepare
-       epatch "${FILESDIR}/${PN}-1.51-flex.patch"
-}
-
-src_test() {
-       testing() {
-               cd Tests
-               PYTHONPATH="$(ls -d ../build/lib.*)" "$(PYTHON)" run_tests.py
-       }
-       python_execute_function --nonfatal -s testing
-}
-
-src_install() {
-       distutils_src_install
-
-       insinto /usr/share/doc/${PF}
-       doins -r Doc/* || die "Installation of documentation failed"
-       insinto /usr/share/${PN}
-       cp -r --preserve=mode Scripts Tests "${ED}usr/share/${PN}" || die "Installation of shared files failed"
-}

diff --git a/sci-biology/biopython/biopython-1.59.ebuild b/sci-biology/biopython/biopython-1.59.ebuild
deleted file mode 100644 (file)
index 66e93c7..0000000
--- a/sci-biology/biopython/biopython-1.59.ebuild
+++ /dev/null
@@ -1,55 +0,0 @@
-# Copyright 1999-2012 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/biopython/biopython-1.59.ebuild,v 1.2 2012/12/14 10:00:10 ulm Exp $
-
-EAPI=3
-PYTHON_DEPEND="2"
-SUPPORT_PYTHON_ABIS="1"
-RESTRICT_PYTHON_ABIS="3.* *-jython"
-
-inherit distutils eutils
-
-DESCRIPTION="Python modules for computational molecular biology"
-HOMEPAGE="http://www.biopython.org/ http://pypi.python.org/pypi/biopython/"
-SRC_URI="http://www.biopython.org/DIST/${P}.tar.gz"
-
-LICENSE="HPND"
-SLOT="0"
-KEYWORDS="~amd64 ~ppc ~x86"
-IUSE="mysql postgres"
-
-RDEPEND="
-       dev-python/numpy
-       dev-python/reportlab
-       mysql? ( dev-python/mysql-python )
-       postgres? ( dev-python/psycopg )"
-DEPEND="${RDEPEND}
-       sys-devel/flex"
-
-PYTHON_CFLAGS=("2.* + -fno-strict-aliasing")
-
-DISTUTILS_USE_SEPARATE_SOURCE_DIRECTORIES="1"
-DOCS="CONTRIB DEPRECATED NEWS README"
-PYTHON_MODNAME="Bio BioSQL"
-
-src_prepare() {
-       distutils_src_prepare
-       epatch "${FILESDIR}/${PN}-1.51-flex.patch"
-}
-
-src_test() {
-       testing() {
-               cd Tests
-               PYTHONPATH="$(ls -d ../build/lib.*)" "$(PYTHON)" run_tests.py
-       }
-       python_execute_function --nonfatal -s testing
-}
-
-src_install() {
-       distutils_src_install
-
-       insinto /usr/share/doc/${PF}
-       doins -r Doc/* || die "Installation of documentation failed"
-       insinto /usr/share/${PN}
-       cp -r --preserve=mode Scripts Tests "${ED}usr/share/${PN}" || die "Installation of shared files failed"
-}

diff --git a/sci-biology/biopython/biopython-1.61.ebuild b/sci-biology/biopython/biopython-1.61.ebuild
deleted file mode 100644 (file)
index 22ccbb0..0000000
--- a/sci-biology/biopython/biopython-1.61.ebuild
+++ /dev/null
@@ -1,48 +0,0 @@
-# Copyright 1999-2013 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/biopython/biopython-1.61.ebuild,v 1.3 2013/07/02 12:47:34 jlec Exp $
-
-EAPI=5
-
-PYTHON_COMPAT=( python{2_6,2_7} )
-
-inherit distutils-r1
-
-DESCRIPTION="Python modules for computational molecular biology"
-HOMEPAGE="http://www.biopython.org/ http://pypi.python.org/pypi/biopython/"
-SRC_URI="http://www.biopython.org/DIST/${P}.tar.gz"
-
-LICENSE="HPND"
-SLOT="0"
-KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux"
-IUSE="mysql postgres"
-
-REQUIRED_USE="${PYTHON_REQUIRED_USE}"
-
-RDEPEND="${PYTHON_DEPS}
-       dev-python/matplotlib[${PYTHON_USEDEP}]
-       dev-python/networkx[${PYTHON_USEDEP}]
-       dev-python/numpy[${PYTHON_USEDEP}]
-       dev-python/pygraphviz[${PYTHON_USEDEP}]
-       dev-python/reportlab[${PYTHON_USEDEP}]
-       media-gfx/pydot[${PYTHON_USEDEP}]
-       mysql? ( dev-python/mysql-python[${PYTHON_USEDEP}] )
-       postgres? ( dev-python/psycopg[${PYTHON_USEDEP}] )"
-DEPEND="${RDEPEND}
-       sys-devel/flex"
-
-DOCS=( CONTRIB DEPRECATED NEWS README )
-
-python_test() {
-       cd Tests
-       ${PYTHON} run_tests.py
-}
-
-python_install_all() {
-       distutils-r1_python_install_all
-
-       insinto /usr/share/doc/${PF}
-       doins -r Doc/*
-       insinto /usr/share/${PN}
-       cp -r --preserve=mode Scripts Tests "${ED}"/usr/share/${PN} || die
-}

diff --git a/sci-biology/biopython/biopython-1.62-r1.ebuild b/sci-biology/biopython/biopython-1.62-r1.ebuild
deleted file mode 100644 (file)
index 433cffb..0000000
--- a/sci-biology/biopython/biopython-1.62-r1.ebuild
+++ /dev/null
@@ -1,48 +0,0 @@
-# Copyright 1999-2013 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/biopython/biopython-1.62-r1.ebuild,v 1.1 2013/12/29 00:56:58 jlec Exp $
-
-EAPI=5
-
-PYTHON_COMPAT=( python{2_6,2_7} )
-
-inherit distutils-r1 eutils
-
-DESCRIPTION="Python modules for computational molecular biology"
-HOMEPAGE="http://www.biopython.org/ http://pypi.python.org/pypi/biopython/"
-SRC_URI="http://www.biopython.org/DIST/${P}.tar.gz"
-
-LICENSE="HPND"
-SLOT="0"
-KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux"
-IUSE="mysql postgres"
-
-REQUIRED_USE="${PYTHON_REQUIRED_USE}"
-
-RDEPEND="${PYTHON_DEPS}
-       dev-python/matplotlib[${PYTHON_USEDEP}]
-       dev-python/networkx[${PYTHON_USEDEP}]
-       dev-python/numpy[${PYTHON_USEDEP}]
-       dev-python/pygraphviz[${PYTHON_USEDEP}]
-       dev-python/reportlab[${PYTHON_USEDEP}]
-       media-gfx/pydot[${PYTHON_USEDEP}]
-       mysql? ( dev-python/mysql-python[${PYTHON_USEDEP}] )
-       postgres? ( dev-python/psycopg[${PYTHON_USEDEP}] )"
-DEPEND="${RDEPEND}
-       sys-devel/flex"
-
-DOCS=( CONTRIB DEPRECATED NEWS README Doc/. )
-
-PATCHES=( "${FILESDIR}/${PN}-1.62-SffIO.patch" )
-
-python_test() {
-       cd Tests || die
-       ${PYTHON} run_tests.py || die
-}
-
-python_install_all() {
-       distutils-r1_python_install_all
-
-       dodir /usr/share/${PN}
-       cp -r --preserve=mode Scripts Tests "${ED}"/usr/share/${PN} || die
-}

diff --git a/sci-biology/biopython/biopython-1.62.ebuild b/sci-biology/biopython/biopython-1.62.ebuild
deleted file mode 100644 (file)
index 7d36020..0000000
--- a/sci-biology/biopython/biopython-1.62.ebuild
+++ /dev/null
@@ -1,46 +0,0 @@
-# Copyright 1999-2013 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/biopython/biopython-1.62.ebuild,v 1.1 2013/09/17 16:07:56 jlec Exp $
-
-EAPI=5
-
-PYTHON_COMPAT=( python{2_6,2_7} )
-
-inherit distutils-r1
-
-DESCRIPTION="Python modules for computational molecular biology"
-HOMEPAGE="http://www.biopython.org/ http://pypi.python.org/pypi/biopython/"
-SRC_URI="http://www.biopython.org/DIST/${P}.tar.gz"
-
-LICENSE="HPND"
-SLOT="0"
-KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux"
-IUSE="mysql postgres"
-
-REQUIRED_USE="${PYTHON_REQUIRED_USE}"
-
-RDEPEND="${PYTHON_DEPS}
-       dev-python/matplotlib[${PYTHON_USEDEP}]
-       dev-python/networkx[${PYTHON_USEDEP}]
-       dev-python/numpy[${PYTHON_USEDEP}]
-       dev-python/pygraphviz[${PYTHON_USEDEP}]
-       dev-python/reportlab[${PYTHON_USEDEP}]
-       media-gfx/pydot[${PYTHON_USEDEP}]
-       mysql? ( dev-python/mysql-python[${PYTHON_USEDEP}] )
-       postgres? ( dev-python/psycopg[${PYTHON_USEDEP}] )"
-DEPEND="${RDEPEND}
-       sys-devel/flex"
-
-DOCS=( CONTRIB DEPRECATED NEWS README Doc/. )
-
-python_test() {
-       cd Tests || die
-       ${PYTHON} run_tests.py || die
-}
-
-python_install_all() {
-       distutils-r1_python_install_all
-
-       dodir /usr/share/${PN}
-       cp -r --preserve=mode Scripts Tests "${ED}"/usr/share/${PN} || die
-}

diff --git a/sci-biology/biopython/biopython-1.63-r1.ebuild b/sci-biology/biopython/biopython-1.63-r1.ebuild
deleted file mode 100644 (file)
index eeeb100..0000000
--- a/sci-biology/biopython/biopython-1.63-r1.ebuild
+++ /dev/null
@@ -1,52 +0,0 @@
-# Copyright 1999-2014 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/biopython/biopython-1.63-r1.ebuild,v 1.1 2014/05/07 11:00:43 jlec Exp $
-
-EAPI=5
-
-PYTHON_COMPAT=( python{2_6,2_7} )
-
-inherit distutils-r1 eutils
-
-DESCRIPTION="Python modules for computational molecular biology"
-HOMEPAGE="http://www.biopython.org/ http://pypi.python.org/pypi/biopython/"
-SRC_URI="http://www.biopython.org/DIST/${P}.tar.gz"
-
-LICENSE="HPND"
-SLOT="0"
-KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux"
-IUSE="mysql postgres"
-
-REQUIRED_USE="${PYTHON_REQUIRED_USE}"
-
-RDEPEND="${PYTHON_DEPS}
-       dev-python/matplotlib[${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[${PYTHON_USEDEP}]
-       media-gfx/pydot[${PYTHON_USEDEP}]
-       mysql? ( dev-python/mysql-python[${PYTHON_USEDEP}] )
-       postgres? ( dev-python/psycopg[${PYTHON_USEDEP}] )"
-DEPEND="${RDEPEND}
-       sys-devel/flex"
-
-DOCS=( CONTRIB DEPRECATED NEWS README Doc/. )
-
-PATCHES=(
-       "${FILESDIR}/SffIO_error_in_check_eof.patch"
-       "${FILESDIR}/SffIO_broken_padding.patch"
-       )
-
-python_test() {
-       cd Tests || die
-       ${PYTHON} run_tests.py || die
-}
-
-python_install_all() {
-       distutils-r1_python_install_all
-
-       dodir /usr/share/${PN}
-       cp -r --preserve=mode Scripts Tests "${ED}"/usr/share/${PN} || die
-}

diff --git a/sci-biology/biopython/biopython-1.63.ebuild b/sci-biology/biopython/biopython-1.63.ebuild
deleted file mode 100644 (file)
index f807971..0000000
--- a/sci-biology/biopython/biopython-1.63.ebuild
+++ /dev/null
@@ -1,47 +0,0 @@
-# Copyright 1999-2014 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/biopython/biopython-1.63.ebuild,v 1.1 2014/01/30 15:15:24 jlec Exp $
-
-EAPI=5
-
-PYTHON_COMPAT=( python{2_6,2_7} )
-
-inherit distutils-r1 eutils
-
-DESCRIPTION="Python modules for computational molecular biology"
-HOMEPAGE="http://www.biopython.org/ http://pypi.python.org/pypi/biopython/"
-SRC_URI="http://www.biopython.org/DIST/${P}.tar.gz"
-
-LICENSE="HPND"
-SLOT="0"
-KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux"
-IUSE="mysql postgres"
-
-REQUIRED_USE="${PYTHON_REQUIRED_USE}"
-
-RDEPEND="${PYTHON_DEPS}
-       dev-python/matplotlib[${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[${PYTHON_USEDEP}]
-       media-gfx/pydot[${PYTHON_USEDEP}]
-       mysql? ( dev-python/mysql-python[${PYTHON_USEDEP}] )
-       postgres? ( dev-python/psycopg[${PYTHON_USEDEP}] )"
-DEPEND="${RDEPEND}
-       sys-devel/flex"
-
-DOCS=( CONTRIB DEPRECATED NEWS README Doc/. )
-
-python_test() {
-       cd Tests || die
-       ${PYTHON} run_tests.py || die
-}
-
-python_install_all() {
-       distutils-r1_python_install_all
-
-       dodir /usr/share/${PN}
-       cp -r --preserve=mode Scripts Tests "${ED}"/usr/share/${PN} || die
-}

diff --git a/sci-biology/biopython/biopython-1.64.ebuild b/sci-biology/biopython/biopython-1.64.ebuild
index c1cad3f6d8226e9b067b8d01f07d733b977c467b..09e531bc734d248f5777589ee739b2d4371b83f5 100644 (file)
--- a/sci-biology/biopython/biopython-1.64.ebuild
+++ b/sci-biology/biopython/biopython-1.64.ebuild
@@ -1,6 +1,6 @@
-# Copyright 1999-2014 Gentoo Foundation
+# Copyright 1999-2015 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/biopython/biopython-1.64.ebuild,v 1.1 2014/06/03 06:54:27 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/biopython/biopython-1.64.ebuild,v 1.2 2015/03/03 16:03:42 jlec Exp $
 
 EAPI=5
 
@@ -28,7 +28,7 @@ RDEPEND="${PYTHON_DEPS}
        dev-python/reportlab[${PYTHON_USEDEP}]
        media-gfx/pydot[${PYTHON_USEDEP}]
        mysql? ( dev-python/mysql-python[${PYTHON_USEDEP}] )
-       postgres? ( dev-python/psycopg[${PYTHON_USEDEP}] )"
+       postgres? ( dev-python/psycopg:2[${PYTHON_USEDEP}] )"
 DEPEND="${RDEPEND}
        sys-devel/flex"