commit: 86160d6d6d042a10bd3b1a8b432eaf6db560b6d3 Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> AuthorDate: Wed Jan 7 22:24:19 2015 +0000 Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> CommitDate: Wed Jan 7 22:24:19 2015 +0000 URL: http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=86160d6d
Initial ebuild --- sci-biology/Atlas_GapFill/Atlas_GapFill-2.2.ebuild | 23 ++++++++++++++++++++++ sci-biology/Atlas_GapFill/ChangeLog | 10 ++++++++++ sci-biology/Atlas_GapFill/metadata.xml | 9 +++++++++ 3 files changed, 42 insertions(+) diff --git a/sci-biology/Atlas_GapFill/Atlas_GapFill-2.2.ebuild b/sci-biology/Atlas_GapFill/Atlas_GapFill-2.2.ebuild new file mode 100644 index 0000000..c658019 --- /dev/null +++ b/sci-biology/Atlas_GapFill/Atlas_GapFill-2.2.ebuild @@ -0,0 +1,23 @@ +# Copyright 1999-2015 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: $ + +EAPI=5 + +DESCRIPTION="Close gaps using BWA-identified reads and reassemble using Phrap, Newbler, Velvet, compare by cross_match" +HOMEPAGE="https://www.hgsc.bcm.edu/software/atlas-gapfill"; +SRC_URI="https://www.hgsc.bcm.edu/sites/default/files/software/ATLAS_GapFill_V2_2/ATLAS_GapFill_V2.2_release.tar.bz2 + https://www.hgsc.bcm.edu/sites/default/files/software/ATLAS_GapFill_V2_2/README -> ATLAS_GapFill_V2_2.README" + +LICENSE="" +SLOT="0" +KEYWORDS="" +IUSE="" + +# is there an ebuild for newbler so we could add it to DEPEND? +DEPEND="dev-lang/perl + sys-cluster/torque || ( sys-cluster/openpbs ) + sci-biology/phrap + sci-biology/bwa + sci-biology/velvet" +RDEPEND="${DEPEND}" diff --git a/sci-biology/Atlas_GapFill/ChangeLog b/sci-biology/Atlas_GapFill/ChangeLog new file mode 100644 index 0000000..74cc2d8 --- /dev/null +++ b/sci-biology/Atlas_GapFill/ChangeLog @@ -0,0 +1,10 @@ +# ChangeLog for sci-biology/Atlas_GapFill +# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2 +# $Header: $ + +*Atlas_GapFill-2.2 (07 Jan 2015) + + 07 Jan 2015; Martin Mokrejs <[email protected]> + +Atlas_GapFill-2.2.ebuild, +metadata.xml: + initial ebuild + diff --git a/sci-biology/Atlas_GapFill/metadata.xml b/sci-biology/Atlas_GapFill/metadata.xml new file mode 100644 index 0000000..2bc8930 --- /dev/null +++ b/sci-biology/Atlas_GapFill/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>
