From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from lists.gentoo.org (pigeon.gentoo.org [208.92.234.80]) by finch.gentoo.org (Postfix) with ESMTP id 866A2138C9D for ; Sat, 18 Apr 2015 01:07:54 +0000 (UTC) Received: from pigeon.gentoo.org (localhost [127.0.0.1]) by pigeon.gentoo.org (Postfix) with SMTP id 7E1F4E0977; Sat, 18 Apr 2015 01:07:52 +0000 (UTC) Received: from smtp.gentoo.org (smtp.gentoo.org [140.211.166.183]) (using TLSv1.2 with cipher AECDH-AES256-SHA (256/256 bits)) (No client certificate requested) by pigeon.gentoo.org (Postfix) with ESMTPS id 0A342E0977 for ; Sat, 18 Apr 2015 01:07:51 +0000 (UTC) Received: from oystercatcher.gentoo.org (oystercatcher.gentoo.org [148.251.78.52]) (using TLSv1.2 with cipher AECDH-AES256-SHA (256/256 bits)) (No client certificate requested) by smtp.gentoo.org (Postfix) with ESMTPS id 1E12F3408B8 for ; Sat, 18 Apr 2015 01:07:51 +0000 (UTC) Received: from localhost.localdomain (localhost [127.0.0.1]) by oystercatcher.gentoo.org (Postfix) with ESMTP id B8BCC16282 for ; Sat, 18 Apr 2015 01:07:47 +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: <1429319205.7516202601abbac750c7fb7ed7a8c52bafb16a49.mmokrejs@gentoo> Subject: [gentoo-commits] proj/sci:master commit in: sci-biology/rum/ X-VCS-Repository: proj/sci X-VCS-Files: sci-biology/rum/ChangeLog sci-biology/rum/metadata.xml sci-biology/rum/rum-2.0.5.5.ebuild X-VCS-Directories: sci-biology/rum/ X-VCS-Committer: mmokrejs X-VCS-Committer-Name: Martin Mokrejs X-VCS-Revision: 7516202601abbac750c7fb7ed7a8c52bafb16a49 X-VCS-Branch: master Date: Sat, 18 Apr 2015 01:07:47 +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: c259adf7-9c64-4c9d-81be-744bacb6eca6 X-Archives-Hash: 6ad96f1de261e8c1e1168c621f2e9932 commit: 7516202601abbac750c7fb7ed7a8c52bafb16a49 Author: Martin Mokrejš fold natur cuni cz> AuthorDate: Sat Apr 18 01:06:45 2015 +0000 Commit: Martin Mokrejs fold natur cuni cz> CommitDate: Sat Apr 18 01:06:45 2015 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=75162026 sci-biology/rum: new package Package-Manager: portage-2.2.18 sci-biology/rum/ChangeLog | 9 +++++++++ sci-biology/rum/metadata.xml | 9 +++++++++ sci-biology/rum/rum-2.0.5.5.ebuild | 40 ++++++++++++++++++++++++++++++++++++++ 3 files changed, 58 insertions(+) diff --git a/sci-biology/rum/ChangeLog b/sci-biology/rum/ChangeLog new file mode 100644 index 0000000..3dd7b15 --- /dev/null +++ b/sci-biology/rum/ChangeLog @@ -0,0 +1,9 @@ +# ChangeLog for sci-biology/rum +# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2 +# $Header: $ + +*rum-2.0.5.5 (18 Apr 2015) + + 18 Apr 2015; Martin Mokrejs +metadata.xml, + +rum-2.0.5.5.ebuild: + sci-biology/rum: new package diff --git a/sci-biology/rum/metadata.xml b/sci-biology/rum/metadata.xml new file mode 100644 index 0000000..2bc8930 --- /dev/null +++ b/sci-biology/rum/metadata.xml @@ -0,0 +1,9 @@ + + + + sci-biology + + mmokrejs@fold.natur.cuni.cz + Martin Mokrejs + + diff --git a/sci-biology/rum/rum-2.0.5.5.ebuild b/sci-biology/rum/rum-2.0.5.5.ebuild new file mode 100644 index 0000000..c8fc01b --- /dev/null +++ b/sci-biology/rum/rum-2.0.5.5.ebuild @@ -0,0 +1,40 @@ +# Copyright 1999-2015 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: $ + +EAPI=5 + +inherit perl-module eutils + +DESCRIPTION="RNA-Seq Unified Mapper (digital normalization)" +HOMEPAGE="https://github.com/itmat/rum/wiki" +SRC_URI="https://github.com/itmat/rum/archive/v2.0.5_05.tar.gz" + +# stable +#EGIT_REPO_URI="https://github.com/PGFI/rum/tags" + +# dev +#EGIT_REPO_URI="https://github.com/PGFI/rum" + +LICENSE="UPennState" +SLOT="0" +KEYWORDS="~amd64 ~x86" +IUSE="" + +DEPEND="dev-lang/perl + dev-perl/Log-Log4perl + perl-core/autodie" +RDEPEND="${DEPEND} + sci-biology/seqclean + sci-biology/blat + sci-biology/bowtie + sci-biology/seqclean" + +S="${WORKDIR}/${PN}-2.0.5_05" + +src_install(){ + emake install + rm "${D}"/usr/lib64/perl5/vendor_perl/*/RUM/bowtie + rm "${D}"/usr/lib64/perl5/vendor_perl/*/RUM/blat + rm "${D}"/usr/lib64/perl5/vendor_perl/*/RUM/mdust +}