From a3acca48b3300227daa8d0655dad084714201f92 Mon Sep 17 00:00:00 2001
From: Olivier Fisette <ribosome@gentoo.org>
Date: Thu, 23 Dec 2004 21:28:10 +0000
Subject: [PATCH] Moved from app-sci/transfac to sci-biology/transfac.

---
 sci-biology/transfac/ChangeLog                | 23 ++++++++++++
 sci-biology/transfac/Manifest                 |  4 +++
 .../transfac/files/digest-transfac-3.2        |  1 +
 sci-biology/transfac/metadata.xml             | 17 +++++++++
 sci-biology/transfac/transfac-3.2.ebuild      | 35 +++++++++++++++++++
 5 files changed, 80 insertions(+)
 create mode 100644 sci-biology/transfac/ChangeLog
 create mode 100644 sci-biology/transfac/Manifest
 create mode 100644 sci-biology/transfac/files/digest-transfac-3.2
 create mode 100644 sci-biology/transfac/metadata.xml
 create mode 100644 sci-biology/transfac/transfac-3.2.ebuild

diff --git a/sci-biology/transfac/ChangeLog b/sci-biology/transfac/ChangeLog
new file mode 100644
index 000000000000..5bb06026faad
--- /dev/null
+++ b/sci-biology/transfac/ChangeLog
@@ -0,0 +1,23 @@
+# ChangeLog for app-sci/transfac
+# Copyright 2000-2004 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/transfac/ChangeLog,v 1.1 2004/12/23 21:28:10 ribosome Exp $
+
+*transfac-3.2 (23 Dec 2004)
+
+  23 Dec 2004; Olivier Fisette <ribosome@gentoo.org> +metadata.xml,
+  +transfac-3.2.ebuild:
+  Moved from app-sci/transfac to sci-biology/transfac.
+
+  10 Aug 2004; Olivier Fisette <ribosome@gentoo.org> transfac-3.2.ebuild:
+  Added to x86.
+
+  26 Jun 2004; David Holm <dholm@gentoo.org> transfac-3.2.ebuild:
+  Added to ~ppc.
+
+*transfac-3.2 (24 Jun 2004)
+
+  24 Jun 2004; Olivier Fisette <ribosome@gentoo.org>
+  transfac-3.2.ebuild, metadata.xml :
+  Initial import.  Ebuild submitted by Olivier Fisette <ribosome@gentoo.org>.
+  Reference: Gentoo Bugzilla, bug #54327
+
diff --git a/sci-biology/transfac/Manifest b/sci-biology/transfac/Manifest
new file mode 100644
index 000000000000..6e900a842052
--- /dev/null
+++ b/sci-biology/transfac/Manifest
@@ -0,0 +1,4 @@
+MD5 3c9b1ebb3d435b4a7c3f1c137f2dbf8c transfac-3.2.ebuild 1057
+MD5 7727d5d43b0f52c12b63ce5251a8ef3d ChangeLog 622
+MD5 504b628559ecce77f74357602454a570 metadata.xml 689
+MD5 e3812a0e0572b70737cef505b921a8fc files/digest-transfac-3.2 62
diff --git a/sci-biology/transfac/files/digest-transfac-3.2 b/sci-biology/transfac/files/digest-transfac-3.2
new file mode 100644
index 000000000000..6317944480de
--- /dev/null
+++ b/sci-biology/transfac/files/digest-transfac-3.2
@@ -0,0 +1 @@
+MD5 f65c3263ff45f1f69bc76caa0e0705ec transfac32.tar.Z 3346266
diff --git a/sci-biology/transfac/metadata.xml b/sci-biology/transfac/metadata.xml
new file mode 100644
index 000000000000..870758f3ac92
--- /dev/null
+++ b/sci-biology/transfac/metadata.xml
@@ -0,0 +1,17 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+	<maintainer>
+		<email>ribosome@gentoo.org</email>
+		<name>Olivier Fisette</name>
+	</maintainer>
+	<herd>sci</herd>
+	<longdescription>
+		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.
+	</longdescription>
+</pkgmetadata>
diff --git a/sci-biology/transfac/transfac-3.2.ebuild b/sci-biology/transfac/transfac-3.2.ebuild
new file mode 100644
index 000000000000..7379a01a5449
--- /dev/null
+++ b/sci-biology/transfac/transfac-3.2.ebuild
@@ -0,0 +1,35 @@
+# Copyright 1999-2004 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/transfac/transfac-3.2.ebuild,v 1.1 2004/12/23 21:28:10 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 ~ppc"
+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
+}
-- 
2.26.2