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