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| author |   Martin Mokrejs <mmokrejs@gentoo.org> | 2010-12-06 16:15:27 +0100 |
|---|---|---|
| committer | Martin Mokrejs <mmokrejs@gentoo.org> | 2010-12-06 16:15:27 +0100 |
| commit | 75efd9d522771d769f6ade2807abfc41c642191e (patch) | |
| tree | 5f85a0a89e3a332d82ae4bd77943e18e5feed4d3 /sci-biology/zmsort | |
| parent | sci-biology/seqclean: TIGR tgi-tools package (diff) | |
| download | sci-75efd9d522771d769f6ade2807abfc41c642191e.tar.gz sci-75efd9d522771d769f6ade2807abfc41c642191e.tar.bz2 sci-75efd9d522771d769f6ade2807abfc41c642191e.zip | |
sci-biology/zmsort: TIGR tgi-tools package
(Portage version: 2.1.9.25/git/Linux i686, unsigned Manifest commit)
Diffstat (limited to 'sci-biology/zmsort')
| -rw-r--r-- | sci-biology/zmsort/Manifest | 4 | ||||
| -rw-r--r-- | sci-biology/zmsort/metadata.xml | 9 | ||||
| -rw-r--r-- | sci-biology/zmsort/zmsort-0.1.ebuild | 40 |
3 files changed, 53 insertions, 0 deletions
diff --git a/sci-biology/zmsort/Manifest b/sci-biology/zmsort/Manifest new file mode 100644 index 000000000..089898d99 --- /dev/null +++ b/sci-biology/zmsort/Manifest @@ -0,0 +1,4 @@ +DIST cdbfasta.tar.gz 59735 RMD160 c90e0ede03a01bf2da77f9beaa3c97fa7e46ff2a SHA1 2419421ab1d753d3bb8778c92236da74fee30526 SHA256 68767e8b2fb9de5a6d68ee16df73293f65e02f05cf2f747a9dd6b8854766722c +DIST zmsort.tar.gz 6192 RMD160 ccd1996ac194ee9b34044f585b3a82b94e07b7d5 SHA1 d0f0adca786f33329c5be93740ba9910c09c64d6 SHA256 8267592ec5ddb070a5feb07fcf475ce13ec28cdda33d685a218098bd6bc2962f +EBUILD zmsort-0.1.ebuild 1310 RMD160 f59ce932feb35dcc054fe86ce8c66b768967e1d5 SHA1 d5e6a043d362d22dfb2dea3c1c5e2bb2ae2c4dd3 SHA256 ce2fd5d34bc8a39285ce71308b646b469491b9efcf79404be0f2d18d6561ef47 +MISC metadata.xml 261 RMD160 ce19afc5fdd536a9eadb35a705f09613e3774e32 SHA1 b95b491e808c8dd5a106edae7e48af4f8d61f58a SHA256 e3766426d46af16432093cd9fb8a2df3862c77ef313ad175ca2ef60af5cee6f5 diff --git a/sci-biology/zmsort/metadata.xml b/sci-biology/zmsort/metadata.xml new file mode 100644 index 000000000..d58c0ecd5 --- /dev/null +++ b/sci-biology/zmsort/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/zmsort/zmsort-0.1.ebuild b/sci-biology/zmsort/zmsort-0.1.ebuild new file mode 100644 index 000000000..2cec398e8 --- /dev/null +++ b/sci-biology/zmsort/zmsort-0.1.ebuild @@ -0,0 +1,40 @@ +# Copyright 1999-2010 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: $ + +EAPI=3 + +DESCRIPTION="merge-sort utility for compressed alignment files, with multi-file output option from TIGR Gene Indices project tools" +HOMEPAGE="http://compbio.dfci.harvard.edu/tgi/software/" +SRC_URI="ftp://occams.dfci.harvard.edu/pub/bio/tgi/software/tgicl/${PN}.tar.gz + ftp://occams.dfci.harvard.edu/pub/bio/tgi/software/tgicl/cdbfasta.tar.gz" + +LICENSE="Artistic" +SLOT="0" +KEYWORDS="~amd64 ~x86" +IUSE="" + +DEPEND="" +RDEPEND="${DEPEND}" + +S=${WORKDIR} + +src_prepare() { + # we need gclib from cdbfasta.tar.gz bundle which has fewer files than tgi_cpp_library.tar.gz wbut has e.g. GStr.h + sed -i 's/CFLAGS[ ]*=/CFLAGS :=/; s/-D_REENTRANT/-D_REENTRANT \${CFLAGS}/; s/CFLAGS[ ]*:=[ ]*-O2$//' "${S}"/${PN}/Makefile || die "Failed to run sed" + sed -i 's#GCLDIR := ../gclib#GCLDIR := ../cdbfasta/gclib#' "${S}"/"${PN}"/Makefile || die + sed -i 's/-V\t\tverbose/-V\t\tverbose\\/' "${S}"/"${PN}"/zmsort.cpp || die + cd ${PN} || die + ln -s ../cdbfasta/gcl . || die "Cannot make a softlink" +} + +src_compile() { + cd ${PN} || die + emake || die "emake failed in "${S}"/${PN}" +} + +src_install() { + cd ${PN} || die + dobin ${PN} || die "Failed to install ${PN} binary" + newdoc README README.${PN} || die +} |