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| author |   Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2014-03-23 18:05:44 +0100 |
|---|---|---|
| committer | Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2014-03-23 18:05:44 +0100 |
| commit | 0a17f05714124c90b425b51925dea9557a003422 (patch) | |
| tree | df7e6aebfb51900781d9042053804773066ce4c9 | |
| parent | sci-biology/quast: a skeleton for a new python-based package, need help (diff) | |
| download | sci-0a17f05714124c90b425b51925dea9557a003422.tar.gz sci-0a17f05714124c90b425b51925dea9557a003422.tar.bz2 sci-0a17f05714124c90b425b51925dea9557a003422.zip | |
sci-biology/fastqc: a skeleton for a new perl wrapper calling java libs, need help
Package-Manager: portage-2.2.7
| -rw-r--r-- | sci-biology/fastqc/ChangeLog | 10 | ||||
| -rw-r--r-- | sci-biology/fastqc/Manifest | 1 | ||||
| -rw-r--r-- | sci-biology/fastqc/fastqc-0.10.1.ebuild | 29 | ||||
| -rw-r--r-- | sci-biology/fastqc/metadata.xml | 9 |
4 files changed, 49 insertions, 0 deletions
diff --git a/sci-biology/fastqc/ChangeLog b/sci-biology/fastqc/ChangeLog new file mode 100644 index 000000000..69015c491 --- /dev/null +++ b/sci-biology/fastqc/ChangeLog @@ -0,0 +1,10 @@ +# ChangeLog for sci-biology/fastqc +# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2 +# $Header: $ + +*fastqc-0.10.1 (23 Mar 2014) + + 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> + +fastqc-0.10.1.ebuild, +metadata.xml: + sci-biology/fastqc: a skeleton for a new perl wrapper calling java libs, need + help diff --git a/sci-biology/fastqc/Manifest b/sci-biology/fastqc/Manifest new file mode 100644 index 000000000..401fb1828 --- /dev/null +++ b/sci-biology/fastqc/Manifest @@ -0,0 +1 @@ +DIST fastqc_v0.10.1_source.zip 605722 SHA256 5e7a731c9a21c6b50604db8bb43396e772a7665219ab03a5574a662c24169b88 SHA512 e344043fe9faeb02136d5df2827a1e9609752eb95f5a4b6bc4ac42f5110eb06d3ed74de5b3a2973ba6f17f79f7bb0299c2f754bcace00d8faf6ad549a3245358 WHIRLPOOL ee18a410fed681ff0a6a855f5a56fdab5417f11f59b43d1b47590e5ad40e17e7909aa25388b547379b44775560e94afa4f9890a546e5ab1836b14cdadba3dfc3 diff --git a/sci-biology/fastqc/fastqc-0.10.1.ebuild b/sci-biology/fastqc/fastqc-0.10.1.ebuild new file mode 100644 index 000000000..527455413 --- /dev/null +++ b/sci-biology/fastqc/fastqc-0.10.1.ebuild @@ -0,0 +1,29 @@ +# Copyright 1999-2014 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: $ + +EAPI=5 + +inherit java-pkg-2 eutils + +DESCRIPTION="Perl-based wrapper around java apps to quality control FASTA/FASTQ sequence files" +HOMEPAGE="http://www.bioinformatics.babraham.ac.uk/projects/fastqc/" +SRC_URI="http://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc_v"${PV}"_source.zip" + +LICENSE="GPL-3+" +SLOT="0" +KEYWORDS="" +IUSE="" + +DEPEND="sci-biology/picard + >=virtual/jrei-1.6" +RDEPEND="${DEPEND}" + +S="${WORKDIR}"/FastQC + +src_install(){ + dobin fastqc + + # TODO: need to compile java in uk/ac/babraham/FastQC/ + # and decide whether jbzip2-0.9.jar and sam-1.32.jar are standard java libs and from samtools or whetehr not +} diff --git a/sci-biology/fastqc/metadata.xml b/sci-biology/fastqc/metadata.xml new file mode 100644 index 000000000..07b525505 --- /dev/null +++ b/sci-biology/fastqc/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>mmokrejs@fold.natur.cuni.cz</email> + <name>Martin Mokrejs</name> + </maintainer> +</pkgmetadata> |