Version bump, drop old versions

Package-Manager: portage-2.2_rc67/cvs/Linux x86_64

4 files changed, 15 insertions, 38 deletions

diff --git a/sci-biology/bowtie/ChangeLog b/sci-biology/bowtie/ChangeLog
index 4e0b7f54301c..a31434552b36 100644
--- a/sci-biology/bowtie/ChangeLog
+++ b/sci-biology/bowtie/ChangeLog
@@ -1,6 +1,12 @@
 # ChangeLog for sci-biology/bowtie
-# Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/bowtie/ChangeLog,v 1.7 2009/09/22 11:43:28 maekke Exp $
+# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/bowtie/ChangeLog,v 1.8 2010/03/23 07:20:14 weaver Exp $
+
+*bowtie-0.12.3 (23 Mar 2010)
+
+  23 Mar 2010; Andrey Kislyuk <weaver@gentoo.org> -bowtie-0.9.9.2.ebuild,
+  -bowtie-0.10.0.ebuild, +bowtie-0.12.3.ebuild:
+  Version bump, drop old versions
 
   22 Sep 2009; Markus Meier <maekke@gentoo.org> bowtie-0.10.1.ebuild:
   x86 stable, bug #282110
diff --git a/sci-biology/bowtie/Manifest b/sci-biology/bowtie/Manifest
index 37399d00e2fc..ba802cfe53b1 100644
--- a/sci-biology/bowtie/Manifest
+++ b/sci-biology/bowtie/Manifest
@@ -1,8 +1,6 @@
-DIST bowtie-0.10.0-src.zip 10255341 RMD160 33218e30da716cf358ca0df68e5dfedb16948e91 SHA1 2d9f0e2a9b2ff8db0798a35564e11fbf69479bcd SHA256 48eb4f5ed98f344ebd2739cbdef77b9747abb2b5bf290781ddb853471c0b72cf
 DIST bowtie-0.10.1-src.zip 10258866 RMD160 99628de52fda58ee358f1ac629634210be24cf3e SHA1 f509f442d824a7b2b0650f29d2b3625aea1a1466 SHA256 71a64c08eee4147f670d52a8e9f61d28d9c67fa595ece93d55d9524e15fed809
-DIST bowtie-0.9.9.2-src.zip 10234128 RMD160 ad728d8f23742ece2d9d2bfe708b76cdcabf32b0 SHA1 f1d2afd5391d08f7481fe0eb5f38e9d3878e9598 SHA256 c002647a0412ed736cfbd879b3a3194286d2973c6e3e32b2f7d749bebbd96228
-EBUILD bowtie-0.10.0.ebuild 861 RMD160 cd67e587879e0f019d5b3a74b15c365aebc4eaed SHA1 bf86360991819d2bebbe89d0bbefc01b3e13a30d SHA256 1ccb7b06831dd21d88325ca4d527d5e0848e6453130db4cbdeced5db00c3bfe9
+DIST bowtie-0.12.3-src.zip 10314474 RMD160 a5e9fc5de69c8c4e64e30bcfaf8303b3021e5b8f SHA1 7bf3ca4071638d36ff5139f8ccd976315e98c4b3 SHA256 aac6e02cc95058e19092f6f56e87ed2eac3df11ecce889050c6feea2b2344b84
 EBUILD bowtie-0.10.1.ebuild 859 RMD160 08afd397a1e50da00b9209180a8cf94ae7896c33 SHA1 e7e5add9032a345ce2688f4b17417c9693039f13 SHA256 474c8f2ee5303e04d39e8642187daa3531c91327c921f99a3a16b986e4f57842
-EBUILD bowtie-0.9.9.2.ebuild 803 RMD160 02b3cc8d5fc424b1ab859ca3b5556f59c09cbfa4 SHA1 5a910d97e8112e54ed8bb52346f3834498c22b7d SHA256 837f262ce03aeda12bf4a63d833fde9ce2e43eb633c9fd58ab3835c38467690b
-MISC ChangeLog 1158 RMD160 b12a398746cb4d84286743aae050cf99aa9fe356 SHA1 d3fb4e4b0660a65154505622fd25b7ae4310d00d SHA256 985c6692ef350e72e232a512f37b1683193a3ed751f198eaed59d3f249ec2f0f
+EBUILD bowtie-0.12.3.ebuild 919 RMD160 57af2e47928f2bd074794b1dc396de86402ada60 SHA1 d5c86bb95744c9671552e4e621244ed2191830b6 SHA256 a7987aec6d4c354928fe1203a269b09c49b1968b8e24cbc5549a9610b40d5f15
+MISC ChangeLog 1345 RMD160 8cc241d41f91f4b760c4b5448e5f40d2865549f3 SHA1 e762dc57ae361279b88e063c822a620080766e74 SHA256 81e541ceacf44bf8274fb8fd067c85173efff2d10c97f92ef3cd7eb03dc42cfa
 MISC metadata.xml 259 RMD160 d9d81b67d635fabd81aef8ae0edf971211ae9072 SHA1 8e32f751c67ff891fa35405a2cf6fb33752d6eb1 SHA256 541c3fbcf299d9a8ccf4132ee61f9e53a5d737cefdaa6fdc77764d8d4c7f3110
diff --git a/sci-biology/bowtie/bowtie-0.10.0.ebuild b/sci-biology/bowtie/bowtie-0.12.3.ebuild
index f38f49aa0c0f..73f28a9f46fe 100644
--- a/sci-biology/bowtie/bowtie-0.10.0.ebuild
+++ b/sci-biology/bowtie/bowtie-0.12.3.ebuild
@@ -1,6 +1,6 @@
-# Copyright 1999-2009 Gentoo Foundation
+# Copyright 1999-2010 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/bowtie/bowtie-0.10.0.ebuild,v 1.1 2009/06/21 15:15:43 weaver Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/bowtie/bowtie-0.12.3.ebuild,v 1.1 2010/03/23 07:20:14 weaver Exp $
 
 EAPI="2"
 
@@ -25,6 +25,8 @@ src_prepare() {
 
 src_install() {
 	dobin bowtie bowtie-* || die
+	exeinto /usr/share/${PN}/scripts
+	doexe scripts/* || die
 	newman MANUAL bowtie.1
 	dodoc AUTHORS NEWS TUTORIAL
 }
diff --git a/sci-biology/bowtie/bowtie-0.9.9.2.ebuild b/sci-biology/bowtie/bowtie-0.9.9.2.ebuild
deleted file mode 100644
index cf7feed786d4..000000000000
--- a/sci-biology/bowtie/bowtie-0.9.9.2.ebuild
+++ /dev/null
@@ -1,29 +0,0 @@
-# Copyright 1999-2009 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/bowtie/bowtie-0.9.9.2.ebuild,v 1.1 2009/05/02 23:48:39 weaver Exp $
-
-EAPI="2"
-
-DESCRIPTION="An ultrafast memory-efficient short read aligner"
-HOMEPAGE="http://bowtie-bio.sourceforge.net/"
-SRC_URI="mirror://sourceforge/bowtie-bio/${P}-src.zip"
-
-LICENSE="Artistic"
-SLOT="0"
-IUSE=""
-KEYWORDS="~amd64 ~x86"
-
-DEPEND="app-arch/unzip"
-RDEPEND=""
-
-# NB: Bundles code from Maq (http://maq.sf.net) and the SeqAn library (http://www.seqan.de)
-
-src_prepare() {
-	sed -i 's/$(CXX) $(RELEASE_FLAGS)/$(CXX) $(CXXFLAGS) $(RELEASE_FLAGS)/' "${S}/Makefile" || die
-}
-
-src_install() {
-	dobin bowtie bowtie-* || die
-	newman MANUAL bowtie.1
-	dodoc AUTHORS NEWS TUTORIAL
-}