commit: 4215f67e0da1eb2a2600f0b30a9e6032ddea342c Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> AuthorDate: Wed Mar 30 16:30:41 2016 +0000 Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> CommitDate: Wed Mar 30 16:30:41 2016 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=4215f67e
sci-biology/exomiser-bin: improve ebuild, fix LICENSE, a 19GB files should be fetched manually but the ebuild should get access to it, unpack it and install as the files make grounding for a usable workspace Package-Manager: portage-2.2.28 sci-biology/exomiser-bin/exomiser-bin-7.0.0.ebuild | 23 ---------------- sci-biology/exomiser-bin/exomiser-bin-7.2.1.ebuild | 31 ++++++++++++++++++++++ 2 files changed, 31 insertions(+), 23 deletions(-) diff --git a/sci-biology/exomiser-bin/exomiser-bin-7.0.0.ebuild b/sci-biology/exomiser-bin/exomiser-bin-7.0.0.ebuild deleted file mode 100644 index c58cabf..0000000 --- a/sci-biology/exomiser-bin/exomiser-bin-7.0.0.ebuild +++ /dev/null @@ -1,23 +0,0 @@ -# Copyright 1999-2015 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Id$ - -EAPI=5 - -DESCRIPTION="Annotate VCF files from whole-exome sequencing (Jannovar, UCSC KnownGenes, hg19)" -HOMEPAGE="http://www.sanger.ac.uk/resources/software/exomiser"; -SRC_URI="ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/exomiser-cli-${PV}.BETA-distribution.zip"; -# 1.16GB ! - -LICENSE="GPL-3+" -SLOT="0" -KEYWORDS="" -IUSE="" - -DEPEND="sci-biology/Jannovar-bin" -RDEPEND="${DEPEND}" - -pkg_postinst(){ - einfo "Please download 3.7GB file from ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/h2_db_dumps/exomiser-${PV}.BETA.h2.db.gz"; - einfo "and follow README.md" -} diff --git a/sci-biology/exomiser-bin/exomiser-bin-7.2.1.ebuild b/sci-biology/exomiser-bin/exomiser-bin-7.2.1.ebuild new file mode 100644 index 0000000..1346fd2 --- /dev/null +++ b/sci-biology/exomiser-bin/exomiser-bin-7.2.1.ebuild @@ -0,0 +1,31 @@ +# Copyright 1999-2016 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI=5 + +DESCRIPTION="Annotate VCF files and prioritize genome/exome mutations (Jannovar, UCSC KnownGenes, hg19)" +HOMEPAGE="http://www.sanger.ac.uk/science/tools/exomiser"; +SRC_URI="ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/exomiser-cli-${PV}-distribution.zip + ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/GenomiserREADME -> ${PN}.README + ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/README.md -> ${PN}.README.md" +# 1.16GB ! + +LICENSE="AGPL-3+" +SLOT="0" +KEYWORDS="" +IUSE="" + +DEPEND="sci-biology/Jannovar-bin" +RDEPEND="${DEPEND}" + +src_install(){ + dodoc "${DISTDIR}"/${PN}.README "${DISTDIR}"/${PN}.README.md +} + +pkg_postinst(){ + einfo "Please download 3.7GB file from ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/h2_db_dumps/exomiser-${PV}.BETA.h2.db.gz"; + einfo "and follow README.md" + einfo "The is also 19GB file ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/exomiser-cli-7.2.1-data.zip"; + einfo "with test data" +}
