From aef3e04dc5379c3f15ca184982a73b74fb5d24b3 Mon Sep 17 00:00:00 2001 From: Justin Lecher Date: Sun, 18 Jul 2010 18:16:27 +0000 Subject: [PATCH] New Addition Package-Manager: portage-2.2_rc67/cvs/Linux x86_64 --- sci-chemistry/procheck/ChangeLog | 10 ++ sci-chemistry/procheck/Manifest | 17 ++++ .../procheck/files/3.5.4-ldflags.patch | 49 ++++++++++ sci-chemistry/procheck/metadata.xml | 10 ++ sci-chemistry/procheck/procheck-3.5.4.ebuild | 93 +++++++++++++++++++ 5 files changed, 179 insertions(+) create mode 100644 sci-chemistry/procheck/ChangeLog create mode 100644 sci-chemistry/procheck/Manifest create mode 100644 sci-chemistry/procheck/files/3.5.4-ldflags.patch create mode 100644 sci-chemistry/procheck/metadata.xml create mode 100644 sci-chemistry/procheck/procheck-3.5.4.ebuild 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 +files/3.5.4-ldflags.patch, + +procheck-3.5.4.ebuild, +metadata.xml: + New Addition + diff --git a/sci-chemistry/procheck/Manifest b/sci-chemistry/procheck/Manifest new file mode 100644 index 000000000000..7f7e59400ac4 --- /dev/null +++ b/sci-chemistry/procheck/Manifest @@ -0,0 +1,17 @@ +-----BEGIN PGP SIGNED MESSAGE----- +Hash: SHA1 + +AUX 3.5.4-ldflags.patch 1649 RMD160 c47aa744cd81ce4601e105712c9fd2735161944d SHA1 02d967425cd85785c66f379270c9e70f2cba1581 SHA256 d46c5f8fbb6d7f6f1fedc522f311ae4c5baa12b9ff47e6d3970312e1b2b34e57 +DIST procheck-3.5.4-README 6585 RMD160 9b813fabdaef8f257b2ef8af6e6ef5a9f3ea1bac SHA1 d9712c404a5e712c37cf449628370fece47c8bd4 SHA256 202d5b4d9ffaebdad19c368e6e6fd8ab54744c511609b1c609ef46c21fa0ffa0 +DIST procheck-3.5.4-manual.tar.gz 517840 RMD160 0c4d79655bfa034b496675dfef20efd6953f4b75 SHA1 adc639d0e7dde0fcd34ee4eddb1fa1004aa2e8d4 SHA256 3c2faa505be05102ccbe23473abdddc1cd4dc87c6b5e74222b7ea5c27b18db5a +DIST procheck-3.5.4.tar.gz 522013 RMD160 6737d6af80b9a4b5008a80558a0993a8689cd238 SHA1 f4c6ec36689064efe1f1eaa8303decbb3bd0993a SHA256 4923fe5a7b86d5369fd639d0c77cfb866e574f076ec8c52424d746e843a404f4 +EBUILD procheck-3.5.4.ebuild 2109 RMD160 0b7cfd764ee9cf9e4bd0d2200d11657394508fd0 SHA1 7c8161ded35f7cdb93c8d936984d0c6694574f30 SHA256 7ea523ce1c2700665fd5e837034e143e6dccabfab00c395efe237e37fbb492f6 +MISC ChangeLog 378 RMD160 fb658ccaf0c7c2739a39e8f82986bb1e52b330a4 SHA1 18e7df71d02a01eec6e32ceabc0f8527a336b7d0 SHA256 6d5c4c275fda009b646e8922da320b10b9707e51fb9c701e10b98ebfb24a6c0a +MISC metadata.xml 249 RMD160 789eca813b850a4619f671586826b824098ec47b SHA1 554c0cc8335f6d6410f6f504bf032a7c6de36c89 SHA256 c3f71fe107b700acc3c21923ed360604cfd47ac3181d9ed7605a0472250a8064 +-----BEGIN PGP SIGNATURE----- +Version: GnuPG v2.0.15 (GNU/Linux) + +iEYEARECAAYFAkxDRQAACgkQgAnW8HDreRYYOQCfQG4JCfBRDv6eZRexkF/OLDzw +j9wAoM6VXpI0fjFcvmBhxkc5BURnV9P2 +=bB/2 +-----END PGP SIGNATURE----- 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 @@ + + + + sci + + jlec@gentoo.org + Justin Lecher + + + 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 +} -- 2.26.2