commit: bee1add2f405f7e728e35c473d6cc85acd05e0e6
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Tue Nov 15 19:13:13 2016 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Tue Nov 15 19:13:13 2016 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=bee1add2
sci-biology/VarScan: install upstream jar with *.java and *.class files
Package-Manager: portage-2.3.2
.../VarScan/{VarScan-2.3.7.ebuild => VarScan-2.4.2.ebuild} | 14 ++++++++++----
1 file changed, 10 insertions(+), 4 deletions(-)
diff --git a/sci-biology/VarScan/VarScan-2.3.7.ebuild
b/sci-biology/VarScan/VarScan-2.4.2.ebuild
similarity index 70%
rename from sci-biology/VarScan/VarScan-2.3.7.ebuild
rename to sci-biology/VarScan/VarScan-2.4.2.ebuild
index f1b31c7..63eb84a 100644
--- a/sci-biology/VarScan/VarScan-2.3.7.ebuild
+++ b/sci-biology/VarScan/VarScan-2.4.2.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2015 Gentoo Foundation
+# Copyright 1999-2016 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Id$
@@ -6,7 +6,7 @@ EAPI=5
inherit java-pkg-2
-DESCRIPTION="Variant detection (germline, multi-sample, somatic mut., som. cp
nr alterations (CNA)), SNP calls"
+DESCRIPTION="Variant detection (germline, multi-sample, somatic mutations,
CNA, SNP calls)"
HOMEPAGE="http://varscan.sourceforge.net/";
# binary
@@ -16,11 +16,12 @@
SRC_URI="http://downloads.sourceforge.net/project/varscan/${PN}.v${PV}.source.ja
LICENSE="Non-profit-OSL-3.0"
SLOT="0"
-KEYWORDS=""
+KEYWORDS="~amd64"
IUSE=""
DEPEND="
- >=virtual/jdk-1.5:*"
+ >=virtual/jdk-1.5:*
+ !sci-biology/VarScan-bin"
RDEPEND=">=virtual/jre-1.5:*"
S="${WORKDIR}"/net/sf/varscan
@@ -28,3 +29,8 @@ S="${WORKDIR}"/net/sf/varscan
src_compile(){
javac *.java
}
+
+src_install(){
+ java-pkg_newjar "${DISTDIR}"/${PN}.v${PV}.source.jar ${PN}.source.jar
+ java-pkg_dolauncher VarScan
+}
