Initial import for app-sci/rebase

diff --git a/app-sci/rebase/ChangeLog b/app-sci/rebase/ChangeLog
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+++ b/app-sci/rebase/ChangeLog
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+# ChangeLog for app-sci/rebase
+# Copyright 2000-2004 Gentoo Technologies, Inc.; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/app-sci/rebase/ChangeLog,v 1.1 2004/06/25 03:39:37 ribosome Exp $
+
+*rebase-406 (24 Jun 2004)
+
+  24 Jun 2004; Olivier Fisette <ribosome@gentoo.org>
+  rebase-406.ebuild, metadata.xml :
+  Initial import.  Ebuild submitted by Olivier Fisette <ribosome@gentoo.org>.
+  Reference: Gentoo Bugzilla, bug #45945
+

diff --git a/app-sci/rebase/files/digest-rebase-406 b/app-sci/rebase/files/digest-rebase-406
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+++ b/app-sci/rebase/files/digest-rebase-406
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+MD5 6406212459e137bf99a00b808b995e97 withrefm.406 2243330
+MD5 35fa96bc864f50c458e0bebe8ed5bec4 proto.406 12443
+MD5 cd1733eeee660c2800f14ea82ebc8a4d REBASE.DOC 45518

diff --git a/app-sci/rebase/metadata.xml b/app-sci/rebase/metadata.xml
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+++ b/app-sci/rebase/metadata.xml
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+<?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>
+               The Restriction Enzyme data BASE is a collection of information about
+               restriction enzymes and related proteins. It is maintained by New
+               England Biolabs. It contains published and unpublished references,
+               recognition and cleavage sites, isoschizomers, commercial availability,
+               methylation sensitivity, crystal and sequence data. DNA
+               methyltransferases, homing endonucleases, nicking enzymes, specificity
+               subunits and control proteins are also included. More recently,
+               putative DNA methyltransferases and restriction enzymes, as predicted
+               from analysis of genomic sequences, are also listed.
+       </longdescription>
+</pkgmetadata>

diff --git a/app-sci/rebase/rebase-406.ebuild b/app-sci/rebase/rebase-406.ebuild
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+++ b/app-sci/rebase/rebase-406.ebuild
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+# Copyright 1999-2004 Gentoo Technologies, Inc.
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/app-sci/rebase/rebase-406.ebuild,v 1.1 2004/06/25 03:39:37 ribosome Exp $
+
+DESCRIPTION="A restriction enzyme database"
+HOMEPAGE="http://${PN}.neb.com"
+SRC_URI="ftp://ftp.neb.com/pub/${PN}/withrefm.${PV} \
+       ftp://ftp.neb.com/pub/${PN}/proto.${PV} \
+       ftp://ftp.neb.com/pub/${PN}/REBASE.DOC"
+LICENSE="public-domain"
+
+SLOT="0"
+KEYWORDS="~x86"
+IUSE="no-emboss no-rawdb"
+
+S=${WORKDIR}
+
+src_unpack() {
+       einfo "No archive to unpack."
+}
+
+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/rebaseextract ] && ! use no-emboss; then
+               einfo "Indexing ${PN} for usage with EMBOSS."
+               mkdir REBASE
+               EMBOSS_DATA=. rebaseextract -auto -infile ${DISTDIR}/withrefm.${PV} \
+                       -protofile ${DISTDIR}/proto.${PV} || die \
+                       "Indexing ${PN} failed."
+       fi
+}
+
+src_install() {
+       if ! use no-rawdb; then
+               insinto /usr/share/${PN}
+               doins ${DISTDIR}/withrefm.${PV} ${DISTDIR}/proto.${PV}
+       fi
+       newdoc ${DISTDIR}/REBASE.DOC README
+       if [ -e /usr/bin/rebaseextract ] && ! use no-emboss; then
+               insinto /usr/share/EMBOSS/data/REBASE
+               doins REBASE/{embossre.enz,embossre.ref,embossre.sup}
+       fi
+}

diff --git a/app-sci/transfac/Manifest b/app-sci/transfac/Manifest
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+++ b/app-sci/transfac/Manifest
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+MD5 69949f1422cd73a6d5884666518387da transfac-3.2.ebuild 1061
+MD5 b9cf1df85cbd74fce6d7659549b0be5f ChangeLog 455
+MD5 504b628559ecce77f74357602454a570 metadata.xml 689
+MD5 e3812a0e0572b70737cef505b921a8fc files/digest-transfac-3.2 62