[gentoo-commits] gentoo-x86 commit in sci-biology/gatk: ChangeLog gatk-1.3.ebuild

[Andrey Kislyuk (weaver)]

weaver      11/12/26 05:40:50

  Modified:             ChangeLog
  Added:                gatk-1.3.ebuild
  Log:
  Version bump
  
  (Portage version: 2.2.0_alpha74/cvs/Linux x86_64)

Revision  Changes    Path
1.2                  sci-biology/gatk/ChangeLog

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/gatk/ChangeLog?rev=1.2&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/gatk/ChangeLog?rev=1.2&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/gatk/ChangeLog?r1=1.1&r2=1.2

Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/gatk/ChangeLog,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- ChangeLog	31 Oct 2011 21:18:17 -0000	1.1
+++ ChangeLog	26 Dec 2011 05:40:50 -0000	1.2
@@ -1,6 +1,11 @@
 # ChangeLog for sci-biology/gatk
 # Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/gatk/ChangeLog,v 1.1 2011/10/31 21:18:17 weaver Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/gatk/ChangeLog,v 1.2 2011/12/26 05:40:50 weaver Exp $
+
+*gatk-1.3 (26 Dec 2011)
+
+  26 Dec 2011; Andrey Kislyuk <weaver@g.o> +gatk-1.3.ebuild:
+  Version bump
 
 *gatk-9999 (31 Oct 2011)
 *gatk-1.2 (31 Oct 2011)



1.1                  sci-biology/gatk/gatk-1.3.ebuild

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/gatk/gatk-1.3.ebuild?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/gatk/gatk-1.3.ebuild?rev=1.1&content-type=text/plain

Index: gatk-1.3.ebuild
===================================================================
# Copyright 1999-2011 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/gatk/gatk-1.3.ebuild,v 1.1 2011/12/26 05:40:50 weaver Exp $

EAPI=4

MY_HASH=9dec377

EGIT_REPO_URI="https://github.com/broadgsa/gatk.git"

EANT_BUILD_TARGET="dist"
EANT_NEEDS_TOOLS="true"
JAVA_ANT_REWRITE_CLASSPATH="true"

#inherit java-pkg-2 java-ant-2 git
inherit java-pkg-2 java-ant-2

DESCRIPTION="The Genome Analysis Toolkit"
HOMEPAGE="http://www.broadinstitute.org/gsa/wiki/index.php/The_Genome_Analysis_Toolkit"
SRC_URI="https://github.com/broadgsa/gatk/tarball/${PV} -> ${P}.tar.gz"

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

COMMON_DEPS=""
DEPEND=">=virtual/jdk-1.6
	${COMMON_DEPS}"
RDEPEND=">=virtual/jre-1.6
	${COMMON_DEPS}"

S="${WORKDIR}/broadgsa-gatk-${MY_HASH}"

src_prepare() {
	sed -i '/property name="ivy.home"/ s|${user.home}|'${WORKDIR}'|' build.xml || die
	java-pkg-2_src_prepare
}

src_install() {
	java-pkg_dojar dist/*.jar
	java-pkg_dolauncher GenomeAnalysisTK --jar GenomeAnalysisTK.jar
	java-pkg_dolauncher AnalyzeCovariates --jar AnalyzeCovariates.jar
}