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| author |   Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2016-07-29 22:47:12 +0200 |
|---|---|---|
| committer | Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2016-07-29 22:47:12 +0200 |
| commit | 3bdd3d1c35c9e23cbc13e86dcb8c4b2321fd2620 (patch) | |
| tree | 267570c9262cbd93b68fb41bd2e3019ecfe4a332 | |
| parent | dev-perl/Bio-DB-HTS: new package, needs more fixes (diff) | |
| download | sci-3bdd3d1c35c9e23cbc13e86dcb8c4b2321fd2620.tar.gz sci-3bdd3d1c35c9e23cbc13e86dcb8c4b2321fd2620.tar.bz2 sci-3bdd3d1c35c9e23cbc13e86dcb8c4b2321fd2620.zip | |
sci-biology/ensembl-tools: new package, needs more fixes, upstream contacted
Package-Manager: portage-2.3.0
| -rw-r--r-- | sci-biology/ensembl-tools/Manifest | 1 | ||||
| -rw-r--r-- | sci-biology/ensembl-tools/ensembl-tools-85.ebuild | 47 | ||||
| -rw-r--r-- | sci-biology/ensembl-tools/metadata.xml | 12 |
3 files changed, 60 insertions, 0 deletions
diff --git a/sci-biology/ensembl-tools/Manifest b/sci-biology/ensembl-tools/Manifest new file mode 100644 index 000000000..d10b2a2fa --- /dev/null +++ b/sci-biology/ensembl-tools/Manifest @@ -0,0 +1 @@ +DIST ensembl-tools-85.zip 192633 SHA256 0d7317e49cad7d293ec12805c5e76163e2d59e600fdb314d7d60427a5f59c5de SHA512 e67caaca28e36f59aa8d1f8ccc6b57f3df65ac9bf4ac6d20b44f0bf55245467dad7a9c710817b3e1e2c69f970b811d9e7f91b5cb6b6c4e8688ef34bc5f559f15 WHIRLPOOL 93236d2c9bc346c8ba2911b542b1ed6f339055279e63ea5fe9c8834ebe075912b85223a7b8f42a38c9fc0969ba47cf3f8642a7a8db39a11fce32ee834bcbe57b diff --git a/sci-biology/ensembl-tools/ensembl-tools-85.ebuild b/sci-biology/ensembl-tools/ensembl-tools-85.ebuild new file mode 100644 index 000000000..642caf8eb --- /dev/null +++ b/sci-biology/ensembl-tools/ensembl-tools-85.ebuild @@ -0,0 +1,47 @@ +# Copyright 1999-2016 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI=5 + +PERL_EXPORT_PHASE_FUNCTIONS=no +inherit perl-module + +DESCRIPTION="Bioinformatics tools incl. Variant Effect Predictor (VEP)" +HOMEPAGE="http://grch37.ensembl.org/info/docs/tools/vep/script/index.html" +SRC_URI="https://github.com/Ensembl/ensembl-tools/archive/release/${PV}.zip -> ${P}.zip" + +LICENSE="Apache-2.0" +SLOT="0" +KEYWORDS="" # BUG: needs Bio::EnsEMBL::Registry +IUSE="" + +DEPEND="" +#DEPEND="dev-perl/Perl-XS +# dev-perl/Bio-DB-HTS" +RDEPEND="${DEPEND}" + +S="${WORKDIR}/ensembl-tools-release-${PV}" + +src_install(){ + perl_set_version + insinto ${VENDOR_LIB}/${PN} + cd scripts/variant_effect_predictor || die + perl INSTALL.pl --DESTDIR="${EPREFIX}"/"${DESTDIR}" --AUTO ac + newdoc README.txt variant_effect_predictor.txt + cd ../../scripts/region_reporter || die + dobin *.pl + newdoc README.txt region_reporter.txt + cd ../../scripts/assembly_converter + dobin *.pl + insinto ${VENDOR_LIB}/${PN} + doins *.pm + newdoc README.txt assembly_converter.txt + insinto /usr/share/"${PN}"/examples + doins assemblymapper.in + cd ../../scripts/id_history_converter + dobin *.pl + newdoc README.txt id_history_converter.txt + insinto /usr/share/"${PN}"/examples + doins idmapper.in +} diff --git a/sci-biology/ensembl-tools/metadata.xml b/sci-biology/ensembl-tools/metadata.xml new file mode 100644 index 000000000..f68a1b6fa --- /dev/null +++ b/sci-biology/ensembl-tools/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> |