From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from lists.gentoo.org (pigeon.gentoo.org [208.92.234.80]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by finch.gentoo.org (Postfix) with ESMTPS id 62F161395E2 for ; Tue, 15 Nov 2016 19:06:00 +0000 (UTC) Received: from pigeon.gentoo.org (localhost [127.0.0.1]) by pigeon.gentoo.org (Postfix) with SMTP id B442BE0C73; Tue, 15 Nov 2016 19:05:56 +0000 (UTC) Received: from smtp.gentoo.org (smtp.gentoo.org [140.211.166.183]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by pigeon.gentoo.org (Postfix) with ESMTPS id 9AACEE0C73 for ; Tue, 15 Nov 2016 19:05:56 +0000 (UTC) Received: from oystercatcher.gentoo.org (oystercatcher.gentoo.org [148.251.78.52]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by smtp.gentoo.org (Postfix) with ESMTPS id 24C6F3413A6 for ; Tue, 15 Nov 2016 19:05:55 +0000 (UTC) Received: from localhost.localdomain (localhost [127.0.0.1]) by oystercatcher.gentoo.org (Postfix) with ESMTP id 2CFAC2EF for ; Tue, 15 Nov 2016 19:05:53 +0000 (UTC) From: "Martin Mokrejs" To: gentoo-commits@lists.gentoo.org Content-Transfer-Encoding: 8bit Content-type: text/plain; charset=UTF-8 Reply-To: gentoo-dev@lists.gentoo.org, "Martin Mokrejs" Message-ID: <1479236702.e0ff471d76529dece393c722b8fe23753a11a385.mmokrejs@gentoo> Subject: [gentoo-commits] proj/sci:master commit in: sci-biology/VarScan/ X-VCS-Repository: proj/sci X-VCS-Files: sci-biology/VarScan/VarScan-2.3.7.ebuild sci-biology/VarScan/metadata.xml X-VCS-Directories: sci-biology/VarScan/ X-VCS-Committer: mmokrejs X-VCS-Committer-Name: Martin Mokrejs X-VCS-Revision: e0ff471d76529dece393c722b8fe23753a11a385 X-VCS-Branch: master Date: Tue, 15 Nov 2016 19:05:53 +0000 (UTC) Precedence: bulk List-Post: List-Help: List-Unsubscribe: List-Subscribe: List-Id: Gentoo Linux mail X-BeenThere: gentoo-commits@lists.gentoo.org X-Archives-Salt: cb1e4e3e-aabe-430d-8175-648f6e553205 X-Archives-Hash: 0d9057f5a54a3e98109188f4ded7ed65 commit: e0ff471d76529dece393c722b8fe23753a11a385 Author: Martin Mokrejš fold natur cuni cz> AuthorDate: Tue Nov 15 19:05:02 2016 +0000 Commit: Martin Mokrejs fold natur cuni cz> CommitDate: Tue Nov 15 19:05:02 2016 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=e0ff471d Revert "sci-biology/VarScan: remove a package skeleton, no sources available" This reverts commit 6911112e32296b390cdd2bda69aba1ae426a2031. sci-biology/VarScan/VarScan-2.3.7.ebuild | 30 ++++++++++++++++++++++++++++++ sci-biology/VarScan/metadata.xml | 11 +++++++++++ 2 files changed, 41 insertions(+) diff --git a/sci-biology/VarScan/VarScan-2.3.7.ebuild b/sci-biology/VarScan/VarScan-2.3.7.ebuild new file mode 100644 index 0000000..f1b31c7 --- /dev/null +++ b/sci-biology/VarScan/VarScan-2.3.7.ebuild @@ -0,0 +1,30 @@ +# Copyright 1999-2015 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI=5 + +inherit java-pkg-2 + +DESCRIPTION="Variant detection (germline, multi-sample, somatic mut., som. cp nr alterations (CNA)), SNP calls" +HOMEPAGE="http://varscan.sourceforge.net/" + +# binary +#http://downloads.sourceforge.net/project/varscan/VarScan.v2.3.7.jar +#SRC_URI="http://downloads.sourceforge.net/project/varscan/${PN}.v${PV}.jar" +SRC_URI="http://downloads.sourceforge.net/project/varscan/${PN}.v${PV}.source.jar" + +LICENSE="Non-profit-OSL-3.0" +SLOT="0" +KEYWORDS="" +IUSE="" + +DEPEND=" + >=virtual/jdk-1.5:*" +RDEPEND=">=virtual/jre-1.5:*" + +S="${WORKDIR}"/net/sf/varscan + +src_compile(){ + javac *.java +} diff --git a/sci-biology/VarScan/metadata.xml b/sci-biology/VarScan/metadata.xml new file mode 100644 index 0000000..fae01f1 --- /dev/null +++ b/sci-biology/VarScan/metadata.xml @@ -0,0 +1,11 @@ + + + + + sci@gentoo.org + Gentoo Science Project + + + varscan + +