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Diffstat (limited to 'sci-biology/ensembl-tools/ensembl-tools-86.ebuild')
-rw-r--r-- | sci-biology/ensembl-tools/ensembl-tools-86.ebuild | 54 |
1 files changed, 54 insertions, 0 deletions
diff --git a/sci-biology/ensembl-tools/ensembl-tools-86.ebuild b/sci-biology/ensembl-tools/ensembl-tools-86.ebuild new file mode 100644 index 000000000..cee11494b --- /dev/null +++ b/sci-biology/ensembl-tools/ensembl-tools-86.ebuild @@ -0,0 +1,54 @@ +# 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://www.ensembl.org/info/docs/tools/vep/script + http://www.ensembl.org/info/docs/tools/vep/script/vep_plugins.html" +SRC_URI="https://github.com/Ensembl/ensembl-tools/archive/release/${PV}.zip -> ${P}.zip" + +LICENSE="Apache-2.0" +SLOT="0" +KEYWORDS="" # BUG: needs Bio::EnsEMBL::Registry +IUSE="" + +DEPEND="dev-perl/File-Copy-Recursive + dev-perl/Archive-Extract + dev-perl/Bio-DB-HTS" +# BUG: needs Bio::EnsEMBL::Registry from http://www.ensembl.org/info/docs/api/api_installation.html +# dev-perl/Bio-EnsEMBL" # +#DEPEND="dev-perl/Perl-XS +RDEPEND="${DEPEND}" + +S="${WORKDIR}/ensembl-tools-release-${PV}" + +src_install(){ + perl_set_version + insinto ${VENDOR_LIB}/${PN} + cd scripts/variant_effect_predictor || die + # FIXME: INSTALL.pl does not exit upon error + ./INSTALL.pl --DESTDIR="${DESTDIR}"/"${EPREFIX}" --AUTO=ac || die + 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 /usr/share/"${PN}"/examples + doins assemblymapper.in + #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 +} |