proj/gentoo: Initial commit

This commit represents a new era for Gentoo:
Storing the gentoo-x86 tree in Git, as converted from CVS.

This commit is the start of the NEW history.
Any historical data is intended to be grafted onto this point.

Creation process:
1. Take final CVS checkout snapshot
2. Remove ALL ChangeLog* files
3. Transform all Manifests to thin
4. Remove empty Manifests
5. Convert all stale $Header$/$Id$ CVS keywords to non-expanded Git $Id$
5.1. Do not touch files with -kb/-ko keyword flags.

Signed-off-by: Robin H. Johnson <robbat2@gentoo.org>
X-Thanks: Alec Warner <antarus@gentoo.org> - did the GSoC 2006 migration tests
X-Thanks: Robin H. Johnson <robbat2@gentoo.org> - infra guy, herding this project
X-Thanks: Nguyen Thai Ngoc Duy <pclouds@gentoo.org> - Former Gentoo developer, wrote Git features for the migration
X-Thanks: Brian Harring <ferringb@gentoo.org> - wrote much python to improve cvs2svn
X-Thanks: Rich Freeman <rich0@gentoo.org> - validation scripts
X-Thanks: Patrick Lauer <patrick@gentoo.org> - Gentoo dev, running new 2014 work in migration
X-Thanks: Michał Górny <mgorny@gentoo.org> - scripts, QA, nagging
X-Thanks: All of other Gentoo developers - many ideas and lots of paint on the bikeshed

3 files changed, 60 insertions, 0 deletions

diff --git a/sci-biology/prints/Manifest b/sci-biology/prints/Manifest
new file mode 100644
index 000000000000..17763180d42d
--- /dev/null
+++ b/sci-biology/prints/Manifest
@@ -0,0 +1 @@
+DIST prints-39.0.tar.bz2 26277011 RMD160 15e50aadf48f55ea77eed159ac4892509b31e2d5 SHA1 27ebc398d2e2911aa50493cc4fb3354d1d258312 SHA256 671f870230424014d4b104b24adb13ad5a30f1d947d9565de4943f77dccb5187
diff --git a/sci-biology/prints/metadata.xml b/sci-biology/prints/metadata.xml
new file mode 100644
index 000000000000..7d2927f1d2fb
--- /dev/null
+++ b/sci-biology/prints/metadata.xml
@@ -0,0 +1,16 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+	<herd>sci-biology</herd>
+	<longdescription>
+		A protein motif fingerprint database maintained at the University of
+		Manchester. A fingerprint is a group of conserved motifs used to
+		characterise a protein family; its diagnostic power is refined by
+		iterative scanning of a SWISS-PROT/TrEMBL composite. Usually the motifs
+		do not overlap, but are separated along a sequence, though they may be
+		contiguous in 3D-space. Fingerprints can encode protein folds and
+		functionalities more flexibly and powerfully than can single motifs,
+		full diagnostic potency deriving from the mutual context provided by
+		motif neighbours.
+	</longdescription>
+</pkgmetadata>
diff --git a/sci-biology/prints/prints-39.0.ebuild b/sci-biology/prints/prints-39.0.ebuild
new file mode 100644
index 000000000000..c6dc22372252
--- /dev/null
+++ b/sci-biology/prints/prints-39.0.ebuild
@@ -0,0 +1,43 @@
+# Copyright 1999-2012 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+MY_PV="${PV/./_}"
+
+DESCRIPTION="A protein motif fingerprint database"
+HOMEPAGE="http://www.bioinf.man.ac.uk/dbbrowser/PRINTS/"
+SRC_URI="mirror://gentoo/${P}.tar.bz2"
+
+SLOT="0"
+LICENSE="public-domain"
+IUSE="emboss minimal"
+# Minimal build keeps only the indexed files (if applicable) and the
+# documentation. The non-indexed database is not installed.
+KEYWORDS="amd64 ppc x86 ~amd64-linux ~x86-linux ~ppc-macos ~sparc-solaris"
+
+DEPEND="emboss? ( sci-biology/emboss )"
+RDEPEND="${DEPEND}"
+
+src_compile() {
+	if use emboss; then
+		mkdir PRINTS || die
+		echo
+		einfo "Indexing PRINTS for usage with EMBOSS."
+		EMBOSS_DATA="." printsextract -auto -infile prints${MY_PV}.dat || die \
+			"Indexing PRINTS failed."
+		echo
+	fi
+}
+
+src_install() {
+	if ! use minimal; then
+		insinto /usr/share/${PN}
+		doins newpr.lis ${PN}${MY_PV}.{all.fasta,dat,kdat,lis,nam,vsn} || die \
+			"Installing raw database failed."
+	fi
+	if use emboss; then
+		insinto /usr/share/EMBOSS/data/PRINTS
+		doins PRINTS/* || die "Installing EMBOSS data files failed."
+	fi
+	dodoc README || die "Documentation installation failed."
+}