sci-biology/abyss: Drop old

Package-Manager: portage-2.2.0_alpha196/cvs/Linux x86_64
Manifest-Sign-Key: 0xB9D4F231BD1558AB!

5 files changed, 19 insertions, 122 deletions

diff --git a/sci-biology/abyss/ChangeLog b/sci-biology/abyss/ChangeLog
index e435c9ab5f36..62ae090239c6 100644
--- a/sci-biology/abyss/ChangeLog
+++ b/sci-biology/abyss/ChangeLog
@@ -1,6 +1,10 @@
 # ChangeLog for sci-biology/abyss
 # Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/abyss/ChangeLog,v 1.17 2013/07/27 22:22:05 ago Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/abyss/ChangeLog,v 1.18 2013/08/11 13:29:32 jlec Exp $
+
+  11 Aug 2013; Justin Lecher <jlec@gentoo.org> -abyss-1.2.3.ebuild,
+  -abyss-1.2.7.ebuild, -abyss-1.3.0.ebuild:
+  Drop old
 
   27 Jul 2013; Agostino Sarubbo <ago@gentoo.org> abyss-1.3.3.ebuild:
   Stable for x86, wrt bug #477144
diff --git a/sci-biology/abyss/Manifest b/sci-biology/abyss/Manifest
index d66e12f6a932..475ffbaf2e74 100644
--- a/sci-biology/abyss/Manifest
+++ b/sci-biology/abyss/Manifest
@@ -3,32 +3,26 @@ Hash: SHA512
 
 AUX abyss-1.3.3-gcc-4.7.patch 388 SHA256 a5f57201cfcffba775003bc2d02aed7263f2fdc03728b75664d5cb3f6af9f977 SHA512 ddc6b832fb821566361570ed129ae23372da48934f402a6b8ce6a2c67c91095db09e4820eacdff4124967948e830ff97120c5ca3c2d913242f761050a6cdd568 WHIRLPOOL a4b4436c1990e3f1f1578d32961870b1b078b887ecb089f77fce45490e0a5ab837f785654ec845e2e5ffe00bf3d92605093e14b6c3f27dfae369ebc1f319f14e
 AUX abyss-1.3.4-gcc-4.7.patch 388 SHA256 369b2f4e34ee63f8fe3d305ee1995b024d1b850404cf9df565f863a56e7933b0 SHA512 4a28fbdc3da8b4a46b6def895b244d566186d90af76592ec72b2a6481ed15563189cefb55238314e604c39596ba7c522947d26c34dbc6ef7cc387d34c0448d4b WHIRLPOOL 0f8bb74f20d835a32524941d2e618774466597dfa5b49138570672474caf4930dc746544d8d3c188226141ebb262619ee9b4ac2a659f543c081ce9c9bb64a012
-DIST abyss-1.2.3.tar.gz 313587 SHA256 d4039cc4cd44ebdcbf3107e6d1e80380dfe3817c64a74d8ac64bc717f07e4fd5
-DIST abyss-1.2.7.tar.gz 467831 SHA256 2c3bc0b6046dbbfcb9298f91314c4a2979886009a5d5d68178871e3a8b1d11c2
-DIST abyss-1.3.0.tar.gz 509670 SHA256 50ea7d29f442060fa9cb9f794e5b651d99ced38049be3a489c9bbe37288e8012
 DIST abyss-1.3.3.tar.gz 621480 SHA256 60396e2c8813952ceb1c66a3ad7c87eda984aa1e4952a14265217d9f639706a0 SHA512 4ec7fdd24bdb1e3d66e2bda50929122ff347107010701703e81ca1609fb1b4913c713991b3fe84a48ccfbc069e126f4f4120aafbab81e54e567a95a2f1099fb2 WHIRLPOOL 35f6fdfe60b70316e67bcbbb0a9c67e952302333e9ec71d893f2de7a94482dca1a604dc8cfef1ecee49e464244bb5df7469a8ad7bdc37bd54ff455b0f75b7914
 DIST abyss-1.3.4.tar.gz 640545 SHA256 6b6ccb04baaa9d244dd67d95e1512a934d2e54fd28a539149b6845ed5c496baf SHA512 0fa4c14117699945e007412deaeeccca27124a210669accbc1444baf5a4de1a17e1f9b48e6ee43fefed63f0d56b933c847363e59a0fc2bad60ae6d603cd8c09e WHIRLPOOL 42b16f22bc47c8f29b07c256d504d6f58119c64fdcf0e198fd8b836ceb45139fd5cadc7feec72adf958800e55eb1065a449ce7dd288339887dcea4ab13623c01
-EBUILD abyss-1.2.3.ebuild 753 SHA256 693c360bad8e1a93cd2fda81b3471b19af4ba3eeb7bd0b508d2257fb00e7a997 SHA512 3a80d9d87a85b7ecf61cc14d9dcc5e0a4e50cc5ecfec2ba26c198511e0ab6ddd69b84b73c70ff7385e7e27f93cfbb4c16b11fda626a3cc2b4059ce21f35438d7 WHIRLPOOL 94a3fe4c4be63f298e853952d7b6f0973e35321115be9bdee4c4dea4594e0c2b869aa687375a1589fa29370bd2233451aa5eead4f40cff6ff5210ab7f36148e2
-EBUILD abyss-1.2.7.ebuild 869 SHA256 7e0052aca03cf180b839de88f367c0c8f39cb913bea27f4faa781dcb448bbf65 SHA512 c122c9ad4f657b1460efc9febeb558fdebafbc521209dec9310c26e517ef7ef4e2c9d129e24ad1ea85e9f409ffaae6e7ea6483d8fc4944333ef06551dfbde5fc WHIRLPOOL 1d651faa02d843e609e1d0041a1edeff684241b824c15b5b435d40dd9be8b30990e92aaa4fd204bb53ff302c749a8b1ceec6d44aaec1b3efa4852033483b3fe0
-EBUILD abyss-1.3.0.ebuild 917 SHA256 f96bbd4515d854068ae3633324d031250cdf273919596d6117f9c03465823d28 SHA512 9cff8611736320e1315f4bf4cb5006df2602787052aad2fedf7cb66ca53a3e3083c124305bad7a2b0d669c602fe1b997413bf8bc8fd113792b13873e135ba4a9 WHIRLPOOL 1748c986ff41dc71345e87cee7a29c710845c9aa5d73f8ec24e32c91b3dbf6b054e10d90b4d756f8a0876b0dfbc6d7425ec60749a97422f21ad89f9969efbdfb
 EBUILD abyss-1.3.3.ebuild 962 SHA256 6b7c15541db2f1ff8e83626fe494ccec6ed1e73fb9abbdeb8c644170c3b03b7b SHA512 c3ae5032e1ce21160bf5c4cc9ac407b4a928a5fb2667f00544c0561ccd98e9b2ccf12a0088a7a6eed7e075ccfc5b3ebcae10c59a68926311faf8ac7806569d7f WHIRLPOOL b9785a3b184919d493a081a8d266c191d92f446e1fd0ca51fdf022ff2154b4941ace70af0140d46456190ec6ab4af1c2679513f04396ea78cbb17bded340056a
 EBUILD abyss-1.3.4.ebuild 1054 SHA256 9967b59e82e505e7554749df6ca1092d625ff085849cb30e75ce04c95b234f16 SHA512 70997bb901f9d0a2203a618e5952ef0967bd7e5647d3b354f4bc1bd8d11f71596cb0e791c3bc7231a8e630f69df71c31552ca84c60c41df8464937f4c2ef82ab WHIRLPOOL 34fa59427d1ee72eb8584cfc47563ae904fab1dddb9958b11f15df96564dbb27b49e2fb5555041cbe3fefaccfce1a1d766a90fc4e589d2768811dcc19b05d14c
-MISC ChangeLog 2572 SHA256 bba014f493a25498a3a47afab81fac24a83582fa18ac88c4cb14ae11fcf036bf SHA512 5b78d18eb1329b50bd3112d20134c47fd2d04f81d97523e57e9ff206c42edb542136a4bde49fb84f04ed2e5800fb5b30b2cf1ffb40b3e5496a119ccf5a9f9c3a WHIRLPOOL f3d8a521b4ee4dfc426cf859d5409e316d9fbdace1ad37d61c14c42f5307a6231f564dddaeea4e595f3863feb80287c9eeda47faf78e9a7ff71803010c0adcb9
+MISC ChangeLog 2697 SHA256 7989d686d62e8494af5b430b7f7351e7f3f38812fa59ae1763ded553dde0d365 SHA512 4c56f958347a273eb4846dad589b60fb7685854fa0232bf39c7a024d75cd721470d37a41973a2b25a000ec1b051d4d103986fb5277cd3bc3eceb4bc71813ac5d WHIRLPOOL 683fd24198032a546878f78be8c3a58aa2279db945aaa0798cff3224efd675a8ec6f36aa1de02c8b8c107464cddbeba3d3b8497ad64317dfe4124cf9ce6190a0
 MISC metadata.xml 166 SHA256 29b228f683c71345323d841414e410c929a320f34536eb30910498728260c8ac SHA512 51c5345bb1c4466b73e2feac8895c64fc119365e7f2c156702f4c93664d3aba028b3da9daaabf24f61a88220345fca7806771a252e8ae906cac5dec97862c7e0 WHIRLPOOL 211bf955d94fc1d93b12388a2c597a8d440fb5d78f84d59b2549569537098c3525b1fbab707441d62fabe20edcac2fd9ebe09c5d9870f1c9558d7ee90d5db5b3
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diff --git a/sci-biology/abyss/abyss-1.2.3.ebuild b/sci-biology/abyss/abyss-1.2.3.ebuild
deleted file mode 100644
index 6bd129f02523..000000000000
--- a/sci-biology/abyss/abyss-1.2.3.ebuild
+++ /dev/null
@@ -1,30 +0,0 @@
-# Copyright 1999-2011 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/abyss/abyss-1.2.3.ebuild,v 1.5 2011/04/29 17:27:31 mr_bones_ Exp $
-
-EAPI="2"
-
-DESCRIPTION="Assembly By Short Sequences - a de novo, parallel, paired-end sequence assembler"
-HOMEPAGE="http://www.bcgsc.ca/platform/bioinfo/software/abyss/"
-SRC_URI="http://www.bcgsc.ca/downloads/abyss/${P}.tar.gz"
-
-LICENSE="abyss"
-SLOT="0"
-IUSE="+mpi"
-KEYWORDS="amd64 x86"
-
-DEPEND="
-	dev-cpp/sparsehash
-	mpi? ( virtual/mpi )"
-RDEPEND="${DEPEND}"
-
-# todo: --enable-maxk=N configure option
-# todo: fix automagic mpi toggling
-
-src_prepare() {
-	sed 's:-Werror::g' -i configure || die
-}
-
-src_install() {
-	einstall || die
-}
diff --git a/sci-biology/abyss/abyss-1.2.7.ebuild b/sci-biology/abyss/abyss-1.2.7.ebuild
deleted file mode 100644
index 2bfafaaab3a9..000000000000
--- a/sci-biology/abyss/abyss-1.2.7.ebuild
+++ /dev/null
@@ -1,35 +0,0 @@
-# Copyright 1999-2011 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/abyss/abyss-1.2.7.ebuild,v 1.2 2011/04/28 15:01:05 jlec Exp $
-
-EAPI="4"
-
-inherit autotools
-
-DESCRIPTION="Assembly By Short Sequences - a de novo, parallel, paired-end sequence assembler"
-HOMEPAGE="http://www.bcgsc.ca/platform/bioinfo/software/abyss/"
-SRC_URI="http://www.bcgsc.ca/downloads/abyss/${P}.tar.gz"
-
-LICENSE="abyss"
-SLOT="0"
-IUSE="+mpi openmp"
-KEYWORDS="amd64 x86"
-
-DEPEND="
-	dev-cpp/sparsehash
-	mpi? ( virtual/mpi )"
-RDEPEND="${DEPEND}"
-
-# todo: --enable-maxk=N configure option
-# todo: fix automagic mpi toggling
-
-src_prepare() {
-	sed -i -e "s/-Werror//" configure.ac || die #365195
-	sed -i -e "/dist_pkgdoc_DATA/d" Makefile.am || die
-	eautoreconf
-}
-
-src_configure() {
-	econf \
-		$(use_enable openmp)
-}
diff --git a/sci-biology/abyss/abyss-1.3.0.ebuild b/sci-biology/abyss/abyss-1.3.0.ebuild
deleted file mode 100644
index 4ac14a4e2c49..000000000000
--- a/sci-biology/abyss/abyss-1.3.0.ebuild
+++ /dev/null
@@ -1,36 +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/abyss/abyss-1.3.0.ebuild,v 1.2 2012/06/20 20:48:56 jlec Exp $
-
-EAPI="4"
-
-inherit autotools
-
-DESCRIPTION="Assembly By Short Sequences - a de novo, parallel, paired-end sequence assembler"
-HOMEPAGE="http://www.bcgsc.ca/platform/bioinfo/software/abyss/"
-SRC_URI="http://www.bcgsc.ca/downloads/abyss/${P}.tar.gz"
-
-LICENSE="abyss"
-SLOT="0"
-IUSE="+mpi openmp"
-KEYWORDS="~amd64 ~x86"
-
-DEPEND="
-	dev-cpp/sparsehash
-	mpi? ( virtual/mpi )"
-RDEPEND="${DEPEND}"
-
-# todo: --enable-maxk=N configure option
-# todo: fix automagic mpi toggling
-
-src_prepare() {
-	sed -i -e "s/-Werror//" configure.ac || die #365195
-	sed -i -e "/dist_pkgdoc_DATA/d" Makefile.am || die
-	eautoreconf
-}
-
-src_configure() {
-	econf \
-		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable openmp)
-}