[gentoo-commits] gentoo-x86 commit in sci-biology/shrimp: shrimp-1.3.1.ebuild ChangeLog shrimp-1.2.1.ebuild shrimp-1.3.0.ebuild

[gentoo-commits] gentoo-x86 commit in sci-biology/shrimp: shrimp-1.3.1.ebuild ChangeLog shrimp-1.2.1.ebuild shrimp-1.3.0.ebuild

[Andrey Kislyuk (weaver)]

weaver      09/12/09 18:52:14

  Modified:             ChangeLog shrimp-1.2.1.ebuild
  Added:                shrimp-1.3.1.ebuild
  Removed:              shrimp-1.3.0.ebuild
  Log:
  Fix gcc-4.4 issue, bug 294811. Thanks to Martin Mokrejš. Version bump.
  (Portage version: 2.2_rc30/cvs/Linux x86_64)

Revision  Changes    Path
1.6                  sci-biology/shrimp/ChangeLog

file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/shrimp/ChangeLog?rev=1.6&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/shrimp/ChangeLog?rev=1.6&content-type=text/plain
diff : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/shrimp/ChangeLog?r1=1.5&r2=1.6

Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/shrimp/ChangeLog,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- ChangeLog	29 Oct 2009 01:47:54 -0000	1.5
+++ ChangeLog	9 Dec 2009 18:52:14 -0000	1.6
@@ -1,6 +1,12 @@
 # ChangeLog for sci-biology/shrimp
 # Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/shrimp/ChangeLog,v 1.5 2009/10/29 01:47:54 weaver Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/shrimp/ChangeLog,v 1.6 2009/12/09 18:52:14 weaver Exp $
+
+*shrimp-1.3.1 (09 Dec 2009)
+
+  09 Dec 2009; Andrey Kislyuk <weaver@gentoo.org> shrimp-1.2.1.ebuild,
+  -shrimp-1.3.0.ebuild, +shrimp-1.3.1.ebuild:
+  Fix gcc-4.4 issue, bug 294811. Thanks to Martin Mokrejš. Version bump.
 
 *shrimp-1.3.0 (28 Oct 2009)
 



1.5                  sci-biology/shrimp/shrimp-1.2.1.ebuild

file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/shrimp/shrimp-1.2.1.ebuild?rev=1.5&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/shrimp/shrimp-1.2.1.ebuild?rev=1.5&content-type=text/plain
diff : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/shrimp/shrimp-1.2.1.ebuild?r1=1.4&r2=1.5

Index: shrimp-1.2.1.ebuild
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/shrimp/shrimp-1.2.1.ebuild,v
retrieving revision 1.4
retrieving revision 1.5
diff -u -r1.4 -r1.5
--- shrimp-1.2.1.ebuild	22 Sep 2009 14:08:40 -0000	1.4
+++ shrimp-1.2.1.ebuild	9 Dec 2009 18:52:14 -0000	1.5
@@ -1,6 +1,6 @@
 # Copyright 1999-2009 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/shrimp/shrimp-1.2.1.ebuild,v 1.4 2009/09/22 14:08:40 maekke Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/shrimp/shrimp-1.2.1.ebuild,v 1.5 2009/12/09 18:52:14 weaver Exp $
 
 EAPI="2"
 
@@ -20,7 +20,8 @@
 
 S="${WORKDIR}/SHRiMP_${MY_PV}"
 
-src_configure() {
+src_prepare() {
+	sed -i -e '1 a #include <stdint.h>' common/dag_glue.cpp || die
 	sed -i -e '1 a CXXFLAGS+= -O3 -mmmx -msse -msse2' \
 		-e 's/-static//' "${S}/Makefile" || die
 }



1.1                  sci-biology/shrimp/shrimp-1.3.1.ebuild

file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/shrimp/shrimp-1.3.1.ebuild?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/shrimp/shrimp-1.3.1.ebuild?rev=1.1&content-type=text/plain

Index: shrimp-1.3.1.ebuild
===================================================================
# Copyright 1999-2009 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/shrimp/shrimp-1.3.1.ebuild,v 1.1 2009/12/09 18:52:14 weaver Exp $

EAPI="2"

MY_PV=${PV//./_}

DESCRIPTION="SHort Read Mapping Package"
HOMEPAGE="http://compbio.cs.toronto.edu/shrimp/"
SRC_URI="http://compbio.cs.toronto.edu/shrimp/releases/SHRiMP_${MY_PV}.src.tar.gz"

LICENSE="as-is"
SLOT="0"
IUSE=""
KEYWORDS="~amd64 ~x86"

DEPEND=""
RDEPEND=""

S="${WORKDIR}/SHRiMP_${MY_PV}"

src_prepare() {
	sed -i -e '1 a #include <stdint.h>' common/dag_glue.cpp || die
	sed -i -e '1 a CXXFLAGS+= -O3 -mmmx -msse -msse2' \
		-e 's/-static//' "${S}/Makefile" || die
}

src_install() {
	rm bin/README
	dobin bin/* || die
	insinto /usr/share/${PN}
	doins -r utils || die
	dodoc HISTORY README TODO MEMORY
}