* [gentoo-commits] gentoo-x86 commit in sci-chemistry/refmac: refmac-5.6.0102-r1.ebuild ChangeLog refmac-5.5.0110-r3.ebuild
@ 2011-01-31 21:14 Donnie Berkholz (dberkholz)
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From: Donnie Berkholz (dberkholz) @ 2011-01-31 21:14 UTC (permalink / raw
To: gentoo-commits
dberkholz 11/01/31 21:14:39
Modified: ChangeLog
Added: refmac-5.6.0102-r1.ebuild refmac-5.5.0110-r3.ebuild
Log:
Fix for ARP/wARP. It looked for Refmac in a location where we didn't have it, so make another symlink.
(Portage version: 2.1.9.35/cvs/Linux x86_64)
Revision Changes Path
1.42 sci-chemistry/refmac/ChangeLog
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-chemistry/refmac/ChangeLog?rev=1.42&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-chemistry/refmac/ChangeLog?rev=1.42&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-chemistry/refmac/ChangeLog?r1=1.41&r2=1.42
Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-chemistry/refmac/ChangeLog,v
retrieving revision 1.41
retrieving revision 1.42
diff -u -r1.41 -r1.42
--- ChangeLog 28 Jan 2011 15:39:11 -0000 1.41
+++ ChangeLog 31 Jan 2011 21:14:39 -0000 1.42
@@ -1,6 +1,14 @@
# ChangeLog for sci-chemistry/refmac
# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/refmac/ChangeLog,v 1.41 2011/01/28 15:39:11 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/refmac/ChangeLog,v 1.42 2011/01/31 21:14:39 dberkholz Exp $
+
+*refmac-5.6.0102-r1 (31 Jan 2011)
+*refmac-5.5.0110-r3 (31 Jan 2011)
+
+ 31 Jan 2011; Donnie Berkholz <dberkholz@gentoo.org>;
+ +refmac-5.5.0110-r3.ebuild, +refmac-5.6.0102-r1.ebuild:
+ Fix for ARP/wARP. It looked for Refmac in a location where we didn't have it,
+ so make another symlink.
*refmac-5.6.0102 (28 Jan 2011)
1.1 sci-chemistry/refmac/refmac-5.6.0102-r1.ebuild
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-chemistry/refmac/refmac-5.6.0102-r1.ebuild?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-chemistry/refmac/refmac-5.6.0102-r1.ebuild?rev=1.1&content-type=text/plain
Index: refmac-5.6.0102-r1.ebuild
===================================================================
# Copyright 1999-2011 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/refmac/refmac-5.6.0102-r1.ebuild,v 1.1 2011/01/31 21:14:39 dberkholz Exp $
EAPI="2"
inherit base toolchain-funcs versionator
MY_PV="$(get_version_component_range 1-2)_source_v${PV}"
DESCRIPTION="Macromolecular crystallographic refinement program"
HOMEPAGE="http://www.ysbl.york.ac.uk/~garib/refmac"
SRC_URI="
${HOMEPAGE}/data/refmac_experimental/${PN}${MY_PV}.tar.gz
test? ( http://dev.gentooexperimental.org/~jlec/distfiles/test-framework.tar.gz )"
SLOT="0"
LICENSE="ccp4"
KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux"
IUSE="test"
RDEPEND="
>=sci-libs/ccp4-libs-6.1.3-r7
sci-libs/mmdb
>sci-libs/monomer-db-1
virtual/blas
virtual/lapack"
DEPEND="${RDEPEND}"
S="${WORKDIR}"
PATCHES=(
"${FILESDIR}"/${PV}-allow-dynamic-linking.patch
)
src_prepare() {
base_src_prepare
use test && epatch "${FILESDIR}"/5.5-test.log.patch
}
src_compile() {
emake \
FC=$(tc-getFC) \
CC=$(tc-getCC) \
CXX=$(tc-getCXX) \
COPTIM="${CFLAGS}" \
FOPTIM="${FFLAGS:- -O2}" \
VERSION="" \
XFFLAGS="-fno-second-underscore" \
LLIBCCP="-lccp4f -lccp4c -lccif -lmmdb -lstdc++" \
LLIBLAPACK="$(pkg-config --libs lapack blas)" \
|| die
}
src_test() {
einfo "Starting tests ..."
source "${EPREFIX}/etc/profile.d/40ccp4.setup.sh"
export PATH="${WORKDIR}/test-framework/scripts:${S}:${PATH}"
export CCP4_TEST="${WORKDIR}"/test-framework
export CCP4_SCR="${T}"
ln -sf refmac "${S}"/refmac5
sed '/^ANISOU/d' -i ${CCP4_TEST}/data/pdb/1vr7.pdb
ccp4-run-thorough-tests -v test_refmac5 || die
}
src_install() {
for i in refmac libcheck FreeTwin header2matr; do
exeinto /usr/libexec/ccp4/bin/
doexe ${i} || die
dosym ../libexec/ccp4/bin/${i} /usr/bin/${i}
done
dosym refmac /usr/bin/refmac5 || die
dosym refmac /usr/libexec/ccp4/bin/refmac5 || die
}
1.1 sci-chemistry/refmac/refmac-5.5.0110-r3.ebuild
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-chemistry/refmac/refmac-5.5.0110-r3.ebuild?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-chemistry/refmac/refmac-5.5.0110-r3.ebuild?rev=1.1&content-type=text/plain
Index: refmac-5.5.0110-r3.ebuild
===================================================================
# Copyright 1999-2011 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/refmac/refmac-5.5.0110-r3.ebuild,v 1.1 2011/01/31 21:14:39 dberkholz Exp $
EAPI="2"
inherit base toolchain-funcs versionator
DESCRIPTION="Macromolecular crystallographic refinement program"
HOMEPAGE="http://www.ysbl.york.ac.uk/~garib/refmac"
SRC_URI="
${HOMEPAGE}/data/refmac_stable/refmac_${PV}.tar.gz
test? ( http://dev.gentooexperimental.org/~jlec/distfiles/test-framework.tar.gz )"
SLOT="0"
LICENSE="ccp4"
KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux"
IUSE="test"
RDEPEND="
sci-chemistry/makecif
>=sci-libs/ccp4-libs-6.1.3-r7
sci-libs/mmdb
<sci-libs/monomer-db-1
virtual/blas
virtual/lapack"
DEPEND="${RDEPEND}"
S="${WORKDIR}"
PATCHES=(
"${FILESDIR}"/${PV}-allow-dynamic-linking.patch
)
src_prepare() {
base_src_prepare
use test && epatch "${FILESDIR}"/$(get_version_component_range 1-2 ${PV})-test.log.patch
}
src_compile() {
emake \
FC=$(tc-getFC) \
CC=$(tc-getCC) \
CXX=$(tc-getCXX) \
COPTIM="${CFLAGS}" \
FOPTIM="${FFLAGS:- -O2}" \
VERSION="" \
XFFLAGS="-fno-second-underscore" \
LLIBCCP="-lccp4f -lccp4c -lccif -lmmdb -lstdc++" \
LLIBLAPACK="$(pkg-config --libs lapack blas)" \
${PN} libcheck || die
}
src_test() {
einfo "Starting tests ..."
source "${EPREFIX}/etc/profile.d/40ccp4.setup.sh"
export PATH="${WORKDIR}/test-framework/scripts:${S}:${PATH}"
export CCP4_TEST="${WORKDIR}"/test-framework
export CCP4_SCR="${T}"
ln -sf refmac "${S}"/refmac5
sed '/^ANISOU/d' -i ${CCP4_TEST}/data/pdb/1vr7.pdb
ccp4-run-thorough-tests -v test_refmac5 || die
}
src_install() {
exeinto /usr/libexec/ccp4/bin/
doexe ${PN} || die
dosym refmac /usr/libexec/ccp4/bin/refmac5 || die
dosym ../libexec/ccp4/bin/${PN} /usr/bin/${PN} || die
dosym refmac /usr/bin/refmac5 || die
dodoc refmac_keywords.pdf bugs_and_features.pdf || die
}
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2011-01-31 21:14 [gentoo-commits] gentoo-x86 commit in sci-chemistry/refmac: refmac-5.6.0102-r1.ebuild ChangeLog refmac-5.5.0110-r3.ebuild Donnie Berkholz (dberkholz)
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