commit: 7211dfa04b9f68a765a5a48c254b3ee380bcdcef Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> AuthorDate: Thu Jan 29 19:11:17 2015 +0000 Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> CommitDate: Thu Jan 29 19:11:17 2015 +0000 URL: http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=7211dfa0
sci-biology/subread: new package Package-Manager: portage-2.2.15 --- sci-biology/subread/ChangeLog | 9 +++++++ sci-biology/subread/metadata.xml | 9 +++++++ sci-biology/subread/subread-1.4.6.ebuild | 40 ++++++++++++++++++++++++++++++++ 3 files changed, 58 insertions(+) diff --git a/sci-biology/subread/ChangeLog b/sci-biology/subread/ChangeLog new file mode 100644 index 0000000..df4d2f8 --- /dev/null +++ b/sci-biology/subread/ChangeLog @@ -0,0 +1,9 @@ +# ChangeLog for sci-biology/subread +# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2 +# $Header: $ + +*subread-1.4.6 (29 Jan 2015) + + 29 Jan 2015; Martin Mokrejs <[email protected]> +metadata.xml, + +subread-1.4.6.ebuild: + sci-biology/subread: new package diff --git a/sci-biology/subread/metadata.xml b/sci-biology/subread/metadata.xml new file mode 100644 index 0000000..2bc8930 --- /dev/null +++ b/sci-biology/subread/metadata.xml @@ -0,0 +1,9 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd";> +<pkgmetadata> + <herd>sci-biology</herd> + <maintainer> + <email>[email protected]</email> + <name>Martin Mokrejs</name> + </maintainer> +</pkgmetadata> diff --git a/sci-biology/subread/subread-1.4.6.ebuild b/sci-biology/subread/subread-1.4.6.ebuild new file mode 100644 index 0000000..2e1de79 --- /dev/null +++ b/sci-biology/subread/subread-1.4.6.ebuild @@ -0,0 +1,40 @@ +# Copyright 1999-2015 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: $ + +EAPI=5 + +[ "$PV" == "9999" ] && inherit subversion + +DESCRIPTION="NGS suite for read mapping, analysis of mapped reads, summary of exon/intron/gene counts" +HOMEPAGE="http://bioinf.wehi.edu.au/featureCounts/"; +if [ "$PV" == "9999" ]; then + ESVN_REPO_URI="https://subread.svn.sourceforge.net/svnroot/subread/trunk"; + #KEYWORDS="~amd64 ~x86" +else + SRC_URI="http://sourceforge.net/projects/subread/files/"${P}"/"${P}"-source.tar.gz"; + KEYWORDS="~amd64 ~x86" +fi + +LICENSE="GPL-3" +SLOT="0" +IUSE="" + +DEPEND="" +RDEPEND="${DEPEND}" + +S="${S}"-source + +src_prepare(){ + sed -e "s/-mtune=core2//g" -e "s/-O9//g" -i src/Makefile.Linux || die +} + +src_compile(){ + cd src || die + emake -f Makefile.Linux +} + +src_install(){ + dobin bin/[a-s]* bin/utilities/* + dodoc README.txt doc/SubreadUsersGuide.pdf +}
