* [gentoo-commits] gentoo-x86 commit in sci-biology/samtools: samtools-0.1.12a-r1.ebuild ChangeLog samtools-0.1.16.ebuild samtools-0.1.12.ebuild
@ 2011-04-30 11:12 Justin Lecher (jlec)
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From: Justin Lecher (jlec) @ 2011-04-30 11:12 UTC (permalink / raw
To: gentoo-commits
jlec 11/04/30 11:12:50
Modified: samtools-0.1.12a-r1.ebuild ChangeLog
samtools-0.1.12.ebuild
Added: samtools-0.1.16.ebuild
Log:
Version BUmp, #365265
(Portage version: 2.2.0_alpha30/cvs/Linux x86_64)
Revision Changes Path
1.2 sci-biology/samtools/samtools-0.1.12a-r1.ebuild
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/samtools-0.1.12a-r1.ebuild?rev=1.2&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/samtools-0.1.12a-r1.ebuild?rev=1.2&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/samtools-0.1.12a-r1.ebuild?r1=1.1&r2=1.2
Index: samtools-0.1.12a-r1.ebuild
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/samtools/samtools-0.1.12a-r1.ebuild,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- samtools-0.1.12a-r1.ebuild 14 Mar 2011 09:37:27 -0000 1.1
+++ samtools-0.1.12a-r1.ebuild 30 Apr 2011 11:12:49 -0000 1.2
@@ -1,6 +1,6 @@
# Copyright 1999-2011 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/samtools/samtools-0.1.12a-r1.ebuild,v 1.1 2011/03/14 09:37:27 xarthisius Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/samtools/samtools-0.1.12a-r1.ebuild,v 1.2 2011/04/30 11:12:49 jlec Exp $
EAPI="2"
@@ -33,7 +33,7 @@
dobin $(find misc -type f -executable) || die
dolib.so libbam.so.1 || die
insinto /usr/include/bam
- doins bam.h bgzf.h faidx.h kaln.h khash.h kprobaln.h kseq.h ksort.h sam.h|| die
+ doins bam.h bgzf.h faidx.h kaln.h khash.h kprobaln.h kseq.h ksort.h sam.h || die
insinto /usr/share/${PN}
doins -r examples || die
doman ${PN}.1 || die
1.6 sci-biology/samtools/ChangeLog
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/ChangeLog?rev=1.6&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/ChangeLog?rev=1.6&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/ChangeLog?r1=1.5&r2=1.6
Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/samtools/ChangeLog,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- ChangeLog 14 Mar 2011 09:37:27 -0000 1.5
+++ ChangeLog 30 Apr 2011 11:12:49 -0000 1.6
@@ -1,6 +1,12 @@
# ChangeLog for sci-biology/samtools
# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/samtools/ChangeLog,v 1.5 2011/03/14 09:37:27 xarthisius Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/samtools/ChangeLog,v 1.6 2011/04/30 11:12:49 jlec Exp $
+
+*samtools-0.1.16 (30 Apr 2011)
+
+ 30 Apr 2011; Justin Lecher <jlec@gentoo.org> samtools-0.1.12.ebuild,
+ samtools-0.1.12a-r1.ebuild, +samtools-0.1.16.ebuild:
+ Version BUmp, #365265
*samtools-0.1.12a-r1 (14 Mar 2011)
1.4 sci-biology/samtools/samtools-0.1.12.ebuild
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/samtools-0.1.12.ebuild?rev=1.4&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/samtools-0.1.12.ebuild?rev=1.4&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/samtools-0.1.12.ebuild?r1=1.3&r2=1.4
Index: samtools-0.1.12.ebuild
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/samtools/samtools-0.1.12.ebuild,v
retrieving revision 1.3
retrieving revision 1.4
diff -u -r1.3 -r1.4
--- samtools-0.1.12.ebuild 17 Feb 2011 09:05:13 -0000 1.3
+++ samtools-0.1.12.ebuild 30 Apr 2011 11:12:50 -0000 1.4
@@ -1,13 +1,13 @@
# Copyright 1999-2011 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/samtools/samtools-0.1.12.ebuild,v 1.3 2011/02/17 09:05:13 tomka Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/samtools/samtools-0.1.12.ebuild,v 1.4 2011/04/30 11:12:50 jlec Exp $
EAPI="2"
MY_P="${P}a"
DESCRIPTION="Utilities for SAM (Sequence Alignment/Map), a format for large nucleotide sequence alignments"
-HOMEPAGE="http://${PN}.sourceforge.net/"
+HOMEPAGE="http://samtools.sourceforge.net/"
SRC_URI="mirror://sourceforge/${PN}/${MY_P}.tar.bz2"
LICENSE="MIT"
@@ -15,9 +15,6 @@
IUSE=""
KEYWORDS="amd64 x86"
-DEPEND=""
-RDEPEND=""
-
S="${WORKDIR}/${MY_P}"
src_prepare() {
1.1 sci-biology/samtools/samtools-0.1.16.ebuild
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/samtools-0.1.16.ebuild?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/samtools-0.1.16.ebuild?rev=1.1&content-type=text/plain
Index: samtools-0.1.16.ebuild
===================================================================
# Copyright 1999-2011 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/samtools/samtools-0.1.16.ebuild,v 1.1 2011/04/30 11:12:50 jlec Exp $
EAPI="2"
inherit toolchain-funcs
DESCRIPTION="Utilities for SAM (Sequence Alignment/Map), a format for large nucleotide sequence alignments"
HOMEPAGE="http://samtools.sourceforge.net/"
SRC_URI="mirror://sourceforge/${PN}/${P}.tar.bz2"
LICENSE="MIT"
SLOT="0"
IUSE=""
KEYWORDS="~amd64 ~x86 ~x64-macos"
src_prepare() {
sed -e '/^CFLAGS=/d' \
-e "s/\$(CC) \$(CFLAGS)/& \$(LDFLAGS)/g" \
-e "s/-shared/& \$(LDFLAGS)/" \
-i "${S}"/{Makefile,misc/Makefile} || die #358563
sed -i 's~/software/bin/python~/usr/bin/env python~' "${S}"/misc/varfilter.py || die
}
src_compile() {
emake CC="$(tc-getCC)" dylib || die
emake CC="$(tc-getCC)" || die
}
src_install() {
dobin samtools || die
dobin $(find misc -type f -executable) || die
dolib.so libbam.so.1 || die
insinto /usr/include/bam
doins bam.h bgzf.h faidx.h kaln.h khash.h kprobaln.h kseq.h ksort.h sam.h || die
insinto /usr/share/${PN}
doins -r examples || die
doman ${PN}.1 || die
dodoc AUTHORS ChangeLog NEWS
}
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2011-04-30 11:12 [gentoo-commits] gentoo-x86 commit in sci-biology/samtools: samtools-0.1.12a-r1.ebuild ChangeLog samtools-0.1.16.ebuild samtools-0.1.12.ebuild Justin Lecher (jlec)
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