commit: f650ffd23911ac46a4d47d3a641200ec2df67a67 Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> AuthorDate: Sun Mar 23 22:42:41 2014 +0000 Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> CommitDate: Sun Mar 23 22:42:41 2014 +0000 URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=f650ffd2
sci-biology/consed2gap: new package, works Package-Manager: portage-2.2.7 --- sci-biology/consed2gap/ChangeLog | 9 ++++++ sci-biology/consed2gap/consed2gap-20050520.ebuild | 38 +++++++++++++++++++++++ sci-biology/consed2gap/metadata.xml | 9 ++++++ 3 files changed, 56 insertions(+) diff --git a/sci-biology/consed2gap/ChangeLog b/sci-biology/consed2gap/ChangeLog new file mode 100644 index 0000000..ee91ed4 --- /dev/null +++ b/sci-biology/consed2gap/ChangeLog @@ -0,0 +1,9 @@ +# ChangeLog for sci-biology/consed2gap +# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2 +# $Header: $ + +*consed2gap-20050520 (23 Mar 2014) + + 23 Mar 2014; Martin Mokrejs <[email protected]> + +consed2gap-20050520.ebuild, +metadata.xml: + sci-biology/consed2gap: new package, works diff --git a/sci-biology/consed2gap/consed2gap-20050520.ebuild b/sci-biology/consed2gap/consed2gap-20050520.ebuild new file mode 100644 index 0000000..9a0223f --- /dev/null +++ b/sci-biology/consed2gap/consed2gap-20050520.ebuild @@ -0,0 +1,38 @@ +# Copyright 1999-2014 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: $ + +EAPI=3 +inherit perl-module perl-app + +DESCRIPTION="convert whole CONSED dataset to a GAP4 project" +HOMEPAGE="http://genome.imb-jena.de/software/consed2gap/"; +SRC_URI="http://genome.imb-jena.de/software/consed2gap/consed2gap.tgz"; + +LICENSE="FLI-Jena" +SLOT="0" +KEYWORDS="~amd64 ~x86" +IUSE="" + +DEPEND="" +RDEPEND="${DEPEND} + dev-lang/perl + sci-libs/io_lib + sci-biology/caftools + sci-biology/align_to_scf" + +MY_P="consed2gap" +S="${WORKDIR}/${MY_P}" + +src_prepare(){ + sed -i 's#/usr/local/bin/perl#/usr/bin/env perl#' bin/phrap2caf || die + sed -i 's#/usr/local/bin/perl#/usr/bin/env perl#' bin/badgerGetOpt.pl || die +} + +src_install(){ + dobin bin/consed2gap bin/phrap2caf bin/badgerGetOpt.pl || die + mkdir -p "${D}"/usr/share/"${PN}" || die + cp -r example "${D}"/usr/share/"${PN}" || die + + cd bin && perl-module_src_install +} diff --git a/sci-biology/consed2gap/metadata.xml b/sci-biology/consed2gap/metadata.xml new file mode 100644 index 0000000..07b5255 --- /dev/null +++ b/sci-biology/consed2gap/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>[email protected]</email> + <name>Martin Mokrejs</name> + </maintainer> +</pkgmetadata>
