sci-chemistry/clashlist: Rename cluster to molprobity-cluster, #419999

(Portage version: 2.2.0_alpha110/cvs/Linux x86_64)

4 files changed, 53 insertions, 14 deletions

diff --git a/sci-chemistry/clashlist/ChangeLog b/sci-chemistry/clashlist/ChangeLog
index 0401d09f89a5..031c78cd709f 100644
--- a/sci-chemistry/clashlist/ChangeLog
+++ b/sci-chemistry/clashlist/ChangeLog
@@ -1,6 +1,12 @@
 # ChangeLog for sci-chemistry/clashlist
-# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/clashlist/ChangeLog,v 1.1 2010/07/19 06:43:59 jlec Exp $
+# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/clashlist/ChangeLog,v 1.2 2012/06/07 15:08:22 jlec Exp $
+
+*clashlist-3.17-r1 (07 Jun 2012)
+
+  07 Jun 2012; Justin Lecher <jlec@gentoo.org> clashlist-3.17.ebuild,
+  +clashlist-3.17-r1.ebuild, metadata.xml:
+  Rename cluster to molprobity-cluster, #419999
 
 *clashlist-3.17 (19 Jul 2010)
 
diff --git a/sci-chemistry/clashlist/clashlist-3.17-r1.ebuild b/sci-chemistry/clashlist/clashlist-3.17-r1.ebuild
new file mode 100644
index 000000000000..34c41971731b
--- /dev/null
+++ b/sci-chemistry/clashlist/clashlist-3.17-r1.ebuild
@@ -0,0 +1,31 @@
+# Copyright 1999-2012 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/clashlist/clashlist-3.17-r1.ebuild,v 1.1 2012/06/07 15:08:22 jlec Exp $
+
+EAPI=4
+
+DESCRIPTION="Build lists of van der Waals clashes from an input PDB file"
+HOMEPAGE="http://kinemage.biochem.duke.edu/software/index.php"
+SRC_URI="mirror://gentoo/molprobity-${PV}.tgz"
+
+SLOT="0"
+LICENSE="richardson"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE=""
+
+RDEPEND="
+	>=sci-chemistry/cluster-1.3.081231-r1
+	sci-chemistry/probe"
+DEPEND="${RDEPEND}"
+
+S="${WORKDIR}"
+
+src_prepare() {
+	sed \
+		-e 's: cluster : molprobity-cluster :g' \
+		-i molprobity3/bin/clashlist || die
+}
+
+src_install() {
+	dobin molprobity3/bin/clashlist
+}
diff --git a/sci-chemistry/clashlist/clashlist-3.17.ebuild b/sci-chemistry/clashlist/clashlist-3.17.ebuild
index bab469623b8e..8e99b455dd4b 100644
--- a/sci-chemistry/clashlist/clashlist-3.17.ebuild
+++ b/sci-chemistry/clashlist/clashlist-3.17.ebuild
@@ -1,23 +1,25 @@
-# Copyright 1999-2010 Gentoo Foundation
+# Copyright 1999-2012 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/clashlist/clashlist-3.17.ebuild,v 1.1 2010/07/19 06:43:59 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/clashlist/clashlist-3.17.ebuild,v 1.2 2012/06/07 15:08:22 jlec Exp $
 
-# inherit
+EAPI=4
 
 DESCRIPTION="Build lists of van der Waals clashes from an input PDB file"
 HOMEPAGE="http://kinemage.biochem.duke.edu/software/index.php"
 SRC_URI="mirror://gentoo/molprobity-${PV}.tgz"
 
 SLOT="0"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
 LICENSE="richardson"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
 IUSE=""
 
 RDEPEND="
-	sci-chemistry/cluster
+	<=sci-chemistry/cluster-1.3.081231
 	sci-chemistry/probe"
 DEPEND="${RDEPEND}"
 
+S="${WORKDIR}"
+
 src_install() {
-	dobin molprobity3/bin/clashlist || die
+	dobin molprobity3/bin/clashlist
 }
diff --git a/sci-chemistry/clashlist/metadata.xml b/sci-chemistry/clashlist/metadata.xml
index d02b9eb95dce..c96b852229d5 100644
--- a/sci-chemistry/clashlist/metadata.xml
+++ b/sci-chemistry/clashlist/metadata.xml
@@ -1,16 +1,16 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
-<herd>sci-chemistry</herd>
-<maintainer>
-  <email>jlec@gentoo.org</email>
-</maintainer>
-<longdescription>
+	<herd>sci-chemistry</herd>
+	<maintainer>
+		<email>jlec@gentoo.org</email>
+	</maintainer>
+	<longdescription>
 Clashlist is a simple UNIX script which uses the awk facility along with
 the programs Probe and Cluster to build lists of van der Waals clashes
 from an input PDB-format molecular data file (with H atoms). These lists
 are organized such that collections of interacting residues are grouped
 together, sorted by the worst clash. For the purposes of this analysis,
-a clash is defined as a van der Waals overlap >= 0.4 A.
+a clash is defined as a van der Waals overlap &gt;= 0.4 A.
 </longdescription>
 </pkgmetadata>