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| author |   Martin Mokrejs <mmokrejs@gentoo.org> | 2011-01-04 00:25:12 +0100 |
|---|---|---|
| committer | Martin Mokrejs <mmokrejs@gentoo.org> | 2011-01-04 00:25:12 +0100 |
| commit | cd966c2c88984b41e9b7b669eff79f5f3e8b34a9 (patch) | |
| tree | da9ff856edb158adefe9b8c81d85453d269f71b0 | |
| parent | Merge branch 'master' of git+ssh://git.overlays.gentoo.org/proj/sci (diff) | |
| download | sci-cd966c2c88984b41e9b7b669eff79f5f3e8b34a9.tar.gz sci-cd966c2c88984b41e9b7b669eff79f5f3e8b34a9.tar.bz2 sci-cd966c2c88984b41e9b7b669eff79f5f3e8b34a9.zip | |
sci-biology/sff_dump: convert sff files into fasta/qual formats
| -rw-r--r-- | sci-biology/sff_dump/Manifest | 3 | ||||
| -rw-r--r-- | sci-biology/sff_dump/metadata.xml | 9 | ||||
| -rw-r--r-- | sci-biology/sff_dump/sff_dump-1.04.ebuild | 28 |
3 files changed, 40 insertions, 0 deletions
diff --git a/sci-biology/sff_dump/Manifest b/sci-biology/sff_dump/Manifest new file mode 100644 index 000000000..b0cb07b6a --- /dev/null +++ b/sci-biology/sff_dump/Manifest @@ -0,0 +1,3 @@ +DIST sff_dump-1.04.tgz 55640 RMD160 4a83c4dd8427e101d15e28987434638408a6eb83 SHA1 ad2854724029ad476fe1719d6953cc9a58338f5f SHA256 94bfeb55bc146f2e0183a0b85622e3fa19772d4d2fb324332d72f4cc5a4104ba +EBUILD sff_dump-1.04.ebuild 726 RMD160 38282c68b9ad8d2cee6a231ce2e1588c21821457 SHA1 b08fdad83744f79b57f42eed3c81284dcbe61866 SHA256 1284a3166910f60acb0b9632151b321335a6007e85e06359f9260b0e5c333e62 +MISC metadata.xml 261 RMD160 ce19afc5fdd536a9eadb35a705f09613e3774e32 SHA1 b95b491e808c8dd5a106edae7e48af4f8d61f58a SHA256 e3766426d46af16432093cd9fb8a2df3862c77ef313ad175ca2ef60af5cee6f5 diff --git a/sci-biology/sff_dump/metadata.xml b/sci-biology/sff_dump/metadata.xml new file mode 100644 index 000000000..d58c0ecd5 --- /dev/null +++ b/sci-biology/sff_dump/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>mmokrejs@gentoo.org</email> + <name>Martin Mokrejs</name> + </maintainer> +</pkgmetadata> diff --git a/sci-biology/sff_dump/sff_dump-1.04.ebuild b/sci-biology/sff_dump/sff_dump-1.04.ebuild new file mode 100644 index 000000000..136e7276b --- /dev/null +++ b/sci-biology/sff_dump/sff_dump-1.04.ebuild @@ -0,0 +1,28 @@ +# Copyright 1999-2010 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: $ + +EAPI=3 + +DESCRIPTION="Convert Roche SFF files to FASTA file format (alternative to sffdump from Roche and sff_extract from mira)" +HOMEPAGE="http://genome.imb-jena.de/software/roche454ace2caf" +SRC_URI="http://genome.imb-jena.de/software/roche454ace2caf/download/src/sff_dump-1.04.tgz" + +LICENSE="FLI-Jena" +SLOT="0" +KEYWORDS="~amd64 ~x86" +IUSE="" + +DEPEND="" +RDEPEND="${DEPEND}" + +src_prepare(){ + sed -i 's:^CC :#CC :' Makefile + sed -i 's:^LD :#LD :' Makefile + sed -i 's:^CFLAGS.*:CFLAGS+= -D__LINUX__ -Wcast-align:' Makefile + sed -i 's:^LDFLAGS=:#LDFLAGS=:' Makefile +} + +src_install(){ + dobin sff_dump || die +} |