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| author |   Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2016-03-30 22:22:23 +0200 |
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| committer | Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2016-03-30 22:22:23 +0200 |
| commit | c0c2589594db6900b277d68628ece4d62254e1ae (patch) | |
| tree | 9e837c3b49083108d67d90a9635cbfdf0c164ad1 | |
| parent | sci-biology/cap3-bin: fix version number to match version generated at runtim... (diff) | |
| download | sci-c0c2589594db6900b277d68628ece4d62254e1ae.tar.gz sci-c0c2589594db6900b277d68628ece4d62254e1ae.tar.bz2 sci-c0c2589594db6900b277d68628ece4d62254e1ae.zip | |
sci-biology/arachne: new package; does not compile (upstream contacted) and the LICENSE is not exactly MIT?
Package-Manager: portage-2.2.28
| -rw-r--r-- | sci-biology/arachne/Manifest | 1 | ||||
| -rw-r--r-- | sci-biology/arachne/arachne-46233.ebuild | 41 | ||||
| -rw-r--r-- | sci-biology/arachne/metadata.xml | 12 |
3 files changed, 54 insertions, 0 deletions
diff --git a/sci-biology/arachne/Manifest b/sci-biology/arachne/Manifest new file mode 100644 index 000000000..c06393105 --- /dev/null +++ b/sci-biology/arachne/Manifest @@ -0,0 +1 @@ +DIST arachne-46233.tar.gz 5161566 SHA256 1b2c254a19b4792ec8a6c32ffc3d97c20e43deea3141ee975995221c7ccdf990 SHA512 4ab293e7f4477dd6aeba7c6bc1a78d168cbb811d7f67cbcbc1eea094a7b6bd180bdde6fb1b7c8256ff473dba3d748a43bd426d971575f1c0793289a0b200dc2b WHIRLPOOL 9d18c31fba1e69690d6a20c75b47319298b56c7a73ede0fed55e1d4b30c7783bc7f5d5f54346b1fb05376c54854c4ba7f2f89401bda178c5aac8e39957292ff8 diff --git a/sci-biology/arachne/arachne-46233.ebuild b/sci-biology/arachne/arachne-46233.ebuild new file mode 100644 index 000000000..71fc0b87e --- /dev/null +++ b/sci-biology/arachne/arachne-46233.ebuild @@ -0,0 +1,41 @@ +# Copyright 1999-2016 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI=5 + +DESCRIPTION="Whole genome shotgun assembler for Sanger read lengths (overlap-layout-contig)" +HOMEPAGE="https://www.broadinstitute.org/crd/wiki + http://genome.cshlp.org/content/12/1/177.abstract" +SRC_URI="ftp://ftp.broadinstitute.org/pub/crd/ARACHNE/latest_source_code/${P}.tar.gz" + +LICENSE="MIT" # not exactly MIT ... hence no KEYWORDS +SLOT="0" +KEYWORDS="" +IUSE="doc openmp" + +DEPEND="dev-libs/xerces-c + doc? ( virtual/latex-base app-text/dvipsk )" +RDEPEND="${DEPEND}" + +# needs >=g++-4.7 but does not compile with 5.3.0 + +# --disable-openmp to disable requirement for OpenMP-capable compiler +src_configure() { + local myconf=() + use openmp || myconf+=( --disable-openmp ) + econf ${myconf[@]} +} + +# set the following environment variables +# http://www.broadinstitute.org/crd/wiki/index.php/Setup +# +# ARACHNE_PRE +# ARACHNE_BIN_DIR +# ARACHNE_PRETTY_HELP + +pkg_postinst(){ + einfo "Please add these to your ~/.bashrc" + einfo "limit stacksize 100000" + einfo "limit datasize unlimited" +} diff --git a/sci-biology/arachne/metadata.xml b/sci-biology/arachne/metadata.xml new file mode 100644 index 000000000..f68a1b6fa --- /dev/null +++ b/sci-biology/arachne/metadata.xml @@ -0,0 +1,12 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>mmokrejs@fold.natur.cuni.cz</email> + <name>Martin Mokrejs</name> + </maintainer> + <maintainer type="project"> + <email>sci-biology@gentoo.org</email> + <name>Gentoo Biology Project</name> + </maintainer> +</pkgmetadata> |