diff options
| author |   Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2015-11-13 18:26:00 +0100 |
|---|---|---|
| committer | Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2015-11-13 18:26:00 +0100 |
| commit | c10c56b06fbaf0b0127db70aa6ad7b7910694d2e (patch) | |
| tree | af086269e6f2d4822dd136f45511627287c1b918 /sci-biology/SEECER/SEECER-0.1.3-r2.ebuild | |
| parent | sci-biology/BBmap-34.56: restoring previous working version (diff) | |
| download | sci-c10c56b06fbaf0b0127db70aa6ad7b7910694d2e.tar.gz sci-c10c56b06fbaf0b0127db70aa6ad7b7910694d2e.tar.bz2 sci-c10c56b06fbaf0b0127db70aa6ad7b7910694d2e.zip | |
sci-biology/SEECER: remove hardcoded paths
Package-Manager: portage-2.2.18
Diffstat (limited to 'sci-biology/SEECER/SEECER-0.1.3-r2.ebuild')
| -rw-r--r-- | sci-biology/SEECER/SEECER-0.1.3-r2.ebuild | 38 |
1 files changed, 38 insertions, 0 deletions
diff --git a/sci-biology/SEECER/SEECER-0.1.3-r2.ebuild b/sci-biology/SEECER/SEECER-0.1.3-r2.ebuild new file mode 100644 index 000000000..730c4291e --- /dev/null +++ b/sci-biology/SEECER/SEECER-0.1.3-r2.ebuild @@ -0,0 +1,38 @@ +# Copyright 1999-2015 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI=5 + +inherit eutils + +DESCRIPTION="SEquencing Error Corrector for RNA-Seq reads" +HOMEPAGE="http://sb.cs.cmu.edu/seecer/" +SRC_URI=" + http://sb.cs.cmu.edu/seecer/downloads/"${P}".tar.gz + http://sb.cs.cmu.edu/seecer/downloads/manual.pdf -> "${PN}"-manual.pdf" + +LICENSE="GPL-3" +SLOT="0" +KEYWORDS="~amd64" +IUSE="" + +# although has bundled jellyfish-1.1.11 copy it just calls the executable during runtime +DEPEND=" + sci-libs/gsl + sci-biology/seqan" +RDEPEND="${DEPEND} + sci-biology/jellyfish" + +S="${S}"/SEECER + +src_prepare(){ + # http://seecer-rna-read-error-correction-mailing-list.21961.x6.nabble.com/Segmentation-fault-in-step-4-td41.html + cp -p "${FILESDIR}"/replace_ids.cc "${S}"/src/ || die + epatch "${FILESDIR}"/remove-hardcoded-paths.patch +} + +src_install(){ + dobin bin/seecer bin/random_sub_N bin/replace_ids bin/run_jellyfish.sh bin/run_seecer.sh + dodoc README "${DISTDIR}"/"${PN}"-manual.pdf +} |