From 40b9f6abb3664b92a58a7769b946421a238a673b Mon Sep 17 00:00:00 2001 From: Olivier Fisette Date: Fri, 25 Jun 2004 03:42:08 +0000 Subject: Initial import for app-sci/transfac --- app-sci/transfac/ChangeLog | 11 ++++++++++ app-sci/transfac/Manifest | 4 ++++ app-sci/transfac/files/digest-transfac-3.2 | 1 + app-sci/transfac/metadata.xml | 17 +++++++++++++++ app-sci/transfac/transfac-3.2.ebuild | 35 ++++++++++++++++++++++++++++++ 5 files changed, 68 insertions(+) create mode 100644 app-sci/transfac/ChangeLog create mode 100644 app-sci/transfac/Manifest create mode 100644 app-sci/transfac/files/digest-transfac-3.2 create mode 100644 app-sci/transfac/metadata.xml create mode 100644 app-sci/transfac/transfac-3.2.ebuild (limited to 'app-sci/transfac') diff --git a/app-sci/transfac/ChangeLog b/app-sci/transfac/ChangeLog new file mode 100644 index 000000000000..8cea2e8d6578 --- /dev/null +++ b/app-sci/transfac/ChangeLog @@ -0,0 +1,11 @@ +# ChangeLog for app-sci/transfac +# Copyright 2000-2004 Gentoo Technologies, Inc.; Distributed under the GPL v2 +# $Header: /var/cvsroot/gentoo-x86/app-sci/transfac/ChangeLog,v 1.1 2004/06/25 03:42:08 ribosome Exp $ + +*transfac-3.2 (24 Jun 2004) + + 24 Jun 2004; Olivier Fisette + transfac-3.2.ebuild, metadata.xml : + Initial import. Ebuild submitted by Olivier Fisette . + Reference: Gentoo Bugzilla, bug #54327 + diff --git a/app-sci/transfac/Manifest b/app-sci/transfac/Manifest new file mode 100644 index 000000000000..ee9fd7f5ef3c --- /dev/null +++ b/app-sci/transfac/Manifest @@ -0,0 +1,4 @@ +MD5 c217856a1d0c3c80803449e7a64f9bba transfac-3.2.ebuild 961 +MD5 2666e678bc7bf8005ce71366d43f9d3f ChangeLog 365 +MD5 504b628559ecce77f74357602454a570 metadata.xml 689 +MD5 e3812a0e0572b70737cef505b921a8fc files/digest-transfac-3.2 62 diff --git a/app-sci/transfac/files/digest-transfac-3.2 b/app-sci/transfac/files/digest-transfac-3.2 new file mode 100644 index 000000000000..6317944480de --- /dev/null +++ b/app-sci/transfac/files/digest-transfac-3.2 @@ -0,0 +1 @@ +MD5 f65c3263ff45f1f69bc76caa0e0705ec transfac32.tar.Z 3346266 diff --git a/app-sci/transfac/metadata.xml b/app-sci/transfac/metadata.xml new file mode 100644 index 000000000000..870758f3ac92 --- /dev/null +++ b/app-sci/transfac/metadata.xml @@ -0,0 +1,17 @@ + + + + + ribosome@gentoo.org + Olivier Fisette + + sci + + TRANSFAC® is a database of eukaryotic transcription factors, of their + genomic binding sites and DNA-binding profiles. TRANSFAC 3.2 is an old + public version available at the European Bioinformatics Institute. + TRANSFAC® is currently maintained by the BIOBASE company. Altough they + offer public access to a more recent version of the database, they + offer no free downloadable version. + + diff --git a/app-sci/transfac/transfac-3.2.ebuild b/app-sci/transfac/transfac-3.2.ebuild new file mode 100644 index 000000000000..a44933551003 --- /dev/null +++ b/app-sci/transfac/transfac-3.2.ebuild @@ -0,0 +1,35 @@ +# Copyright 1999-2004 Gentoo Technologies, Inc. +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/app-sci/transfac/transfac-3.2.ebuild,v 1.1 2004/06/25 03:42:08 ribosome Exp $ + +DESCRIPTION="A database of eucaryotic transcription factors" +HOMEPAGE="http://www.gene-regulation.com/pub/databases.html" +SRC_URI="ftp://ftp.ebi.ac.uk/pub/databases/${PN}/${PN}32.tar.Z" +LICENSE="public-domain" + +SLOT="3" +KEYWORDS="~x86" +IUSE="no-emboss no-rawdb" + +S=${WORKDIR} + +src_compile() { + # Index the database for use with emboss if emboss is installed and + # the user did not explicitly request not to index the database. + if [ -e /usr/bin/tfextract ] && ! use no-emboss; then + einfo "Indexing TRANSFAC for usage with EMBOSS." + EMBOSS_DATA=. tfextract -auto -infile class.dat || die \ + "Indexing TRANSFAC failed." + fi +} + +src_install() { + if ! use no-rawdb; then + insinto /usr/share/${PN}-${SLOT} + doins *.dat + fi + if [ -e /usr/bin/tfextract ] && ! use no-emboss; then + insinto /usr/share/EMBOSS/data + doins tf* + fi +} -- cgit v1.2.3-65-gdbad