New Addition

(Portage version: 2.2_rc67/cvs/Linux x86_64)

4 files changed, 162 insertions, 0 deletions

diff --git a/sci-chemistry/procheck/ChangeLog b/sci-chemistry/procheck/ChangeLog
new file mode 100644
index 000000000000..57e0e2ff68b2
--- /dev/null
+++ b/sci-chemistry/procheck/ChangeLog
@@ -0,0 +1,10 @@
+# ChangeLog for sci-chemistry/procheck
+# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/procheck/ChangeLog,v 1.1 2010/07/18 18:16:27 jlec Exp $
+
+*procheck-3.5.4 (18 Jul 2010)
+
+  18 Jul 2010; Justin Lecher <jlec@gentoo.org> +files/3.5.4-ldflags.patch,
+  +procheck-3.5.4.ebuild, +metadata.xml:
+  New Addition
+
diff --git a/sci-chemistry/procheck/files/3.5.4-ldflags.patch b/sci-chemistry/procheck/files/3.5.4-ldflags.patch
new file mode 100644
index 000000000000..453aebe3211f
--- /dev/null
+++ b/sci-chemistry/procheck/files/3.5.4-ldflags.patch
@@ -0,0 +1,49 @@
+diff --git a/Makefile b/Makefile
+index c5bb58f..0394b0a 100644
+--- a/Makefile
++++ b/Makefile
+@@ -35,31 +35,31 @@ distrib :
+ # Individual executables
+ # ----------------------
+ anglen : anglen.o
+-	$(F77) $(FOPTS) -o $@ anglen.o
++	$(F77) $(FOPTS) $(LDFLAGS) -o $@ anglen.o
+ clean : clean.o
+-	$(F77) $(FOPTS) -o $@ clean.o
++	$(F77) $(FOPTS) $(LDFLAGS) -o $@ clean.o
+ rmsdev : rmsdev.o
+-	$(F77) $(FOPTS) -o $@ rmsdev.o
++	$(F77) $(FOPTS) $(LDFLAGS) -o $@ rmsdev.o
+ secstr : secstr.o
+-	$(F77) $(FOPTS) -o $@ secstr.o
++	$(F77) $(FOPTS) $(LDFLAGS) -o $@ secstr.o
+ gfac2pdb : gfac2pdb.o ps.o
+-	$(F77) $(FOPTS) -o $@ gfac2pdb.o ps.o
++	$(F77) $(FOPTS) $(LDFLAGS) -o $@ gfac2pdb.o ps.o
+ pplot : pplot.o ps.o
+-	$(F77) $(FOPTS) -o $@ pplot.o ps.o
++	$(F77) $(FOPTS) $(LDFLAGS) -o $@ pplot.o ps.o
+ bplot : bplot.o ps.o
+-	$(F77) $(FOPTS) -o $@ bplot.o ps.o
++	$(F77) $(FOPTS) $(LDFLAGS) -o $@ bplot.o ps.o
+ tplot : tplot.o ps.o
+-	$(F77) $(FOPTS) -o $@ tplot.o ps.o
++	$(F77) $(FOPTS) $(LDFLAGS) -o $@ tplot.o ps.o
+ mplot : mplot.o ps.o
+-	$(F77) $(FOPTS) -o $@ mplot.o ps.o
++	$(F77) $(FOPTS) $(LDFLAGS) -o $@ mplot.o ps.o
+ vplot : vplot.o ps.o
+-	$(F77) $(FOPTS) -o $@ vplot.o ps.o
++	$(F77) $(FOPTS) $(LDFLAGS) -o $@ vplot.o ps.o
+ viol2pdb : viol2pdb.o ps.o
+-	$(F77) $(FOPTS) -o $@ viol2pdb.o ps.o
++	$(F77) $(FOPTS) $(LDFLAGS) -o $@ viol2pdb.o ps.o
+ wirplot : wirplot.o ps.o
+-	$(F77) $(FOPTS) -o $@ wirplot.o ps.o
++	$(F77) $(FOPTS) $(LDFLAGS) -o $@ wirplot.o ps.o
+ nb : nb.c
+-	$(CC) $(COPTS) -o nb nb.c $(CLIBS)
++	$(CC) $(COPTS) $(LDFLAGS) -o nb nb.c $(CLIBS)
+ 
+ # Individual rules for FORTRAN files with .inc files
+ # --------------------------------------------------
diff --git a/sci-chemistry/procheck/metadata.xml b/sci-chemistry/procheck/metadata.xml
new file mode 100644
index 000000000000..8487320ca2a0
--- /dev/null
+++ b/sci-chemistry/procheck/metadata.xml
@@ -0,0 +1,10 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+	<herd>sci</herd>
+	<maintainer>
+		<email>jlec@gentoo.org</email>
+		<name>Justin Lecher</name>
+	</maintainer>
+</pkgmetadata>
+
diff --git a/sci-chemistry/procheck/procheck-3.5.4.ebuild b/sci-chemistry/procheck/procheck-3.5.4.ebuild
new file mode 100644
index 000000000000..303bbb70768b
--- /dev/null
+++ b/sci-chemistry/procheck/procheck-3.5.4.ebuild
@@ -0,0 +1,93 @@
+# Copyright 1999-2010 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/procheck/procheck-3.5.4.ebuild,v 1.1 2010/07/18 18:16:27 jlec Exp $
+
+EAPI="3"
+
+inherit eutils fortran toolchain-funcs versionator
+
+DESCRIPTION="Checks the stereochemical quality of a protein structure"
+HOMEPAGE="http://www.biochem.ucl.ac.uk/~roman/procheck/procheck.html"
+SRC_URI="
+	http://www.ebi.ac.uk/systems-srv/mp/file-exchange/${PN}.tar.gz?fno=2874 -> ${P}.tar.gz
+	http://www.ebi.ac.uk/systems-srv/mp/file-exchange/README?fno=2566 -> ${P}-README
+	doc? (
+		http://www.ebi.ac.uk/systems-srv/mp/file-exchange/manual.tar.gz?fno=2568 -> ${P}-manual.tar.gz )"
+
+LICENSE="procheck"
+SLOT="0"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="doc"
+
+RDEPEND="app-shells/tcsh"
+DEPEND="${RDEPEND}"
+
+RESTRICT="fetch"
+
+S="${WORKDIR}/${PN}"
+
+FORTRAN="gfortran g77"
+
+pkg_nofetch() {
+	elog "Please visit http://www.ebi.ac.uk/thornton-srv/software/PROCHECK/download.html"
+	elog "And follow the instruction for downloading."
+	elog "Files should be stored in following way"
+	elog "${PN}.tar.gz  ->  ${DISTDIR}/${P}.tar.gz"
+	elog "README  ->  ${DISTDIR}/${P}-README"
+	if use doc; then
+		elog "manual.tar.gz  ->  ${DISTDIR}/${P}-manual.tar.gz"
+	fi
+}
+
+src_prepare() {
+	epatch "${FILESDIR}"/${PV}-ldflags.patch
+}
+
+src_compile() {
+	emake \
+		F77=${FORTRANC} \
+		CC=$(tc-getCC) \
+		COPTS="${CFLAGS}" \
+		FOPTS="${FFLAGS}" \
+		|| die "emake failed"
+}
+
+src_install() {
+	for i in *.scr; do
+		newbin ${i} ${i%.scr} || die
+	done
+
+	exeinto /usr/$(get_libdir)/${PN}/
+	doexe \
+		anglen \
+		clean \
+		rmsdev \
+		secstr \
+		gfac2pdb \
+		pplot \
+		bplot \
+		tplot \
+		mplot \
+		vplot \
+		viol2pdb \
+		wirplot \
+		nb || die
+	dodoc "${DISTDIR}"/${P}-README || die
+
+	insinto /usr/$(get_libdir)/${PN}/
+	doins *.dat *.prm || die
+	newins resdefs.dat resdefs.data || die
+
+	cat >> "${T}"/30${PN} <<- EOF
+	prodir="${EPREFIX}/usr/$(get_libdir)/${PN}/"
+	EOF
+
+	insinto /etx/profile.d/
+	doins "${T}"/30${PN} || die
+
+	if use doc; then
+		pushd "${WORKDIR}"
+			dohtml -r manual || die
+		popd
+	fi
+}