diff options
Diffstat (limited to 'sci-biology')
| -rw-r--r-- | sci-biology/primer3/ChangeLog | 6 | ||||
| -rw-r--r-- | sci-biology/primer3/metadata.xml | 4 | ||||
| -rw-r--r-- | sci-biology/primer3/primer3-2.3.1.ebuild | 19 | ||||
| -rw-r--r-- | sci-biology/primer3/primer3-2.3.4.ebuild | 5 |
4 files changed, 19 insertions, 15 deletions
diff --git a/sci-biology/primer3/ChangeLog b/sci-biology/primer3/ChangeLog index ecdf98c67cab..8448af12eed4 100644 --- a/sci-biology/primer3/ChangeLog +++ b/sci-biology/primer3/ChangeLog @@ -1,6 +1,10 @@ # ChangeLog for sci-biology/primer3 # Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/primer3/ChangeLog,v 1.33 2012/12/12 12:27:49 jlec Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/primer3/ChangeLog,v 1.34 2012/12/12 13:10:00 jlec Exp $ + + 12 Dec 2012; Justin Lecher <jlec@gentoo.org> primer3-2.3.1.ebuild, + primer3-2.3.4.ebuild, metadata.xml: + Fix test *primer3-2.3.4 (12 Dec 2012) diff --git a/sci-biology/primer3/metadata.xml b/sci-biology/primer3/metadata.xml index ab4edb62b7b6..a72b3a5d05f6 100644 --- a/sci-biology/primer3/metadata.xml +++ b/sci-biology/primer3/metadata.xml @@ -1,8 +1,8 @@ <?xml version="1.0" encoding="UTF-8"?> <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> <pkgmetadata> - <herd>sci-biology</herd> - <longdescription> + <herd>sci-biology</herd> + <longdescription> Primer3 picks primers for PCR reactions, considering: oligonucleotide melting temperature, size, GC content, and primer-dimer possibilities; PCR product size; positional constraints within the source sequence; diff --git a/sci-biology/primer3/primer3-2.3.1.ebuild b/sci-biology/primer3/primer3-2.3.1.ebuild index c42182fb1bbe..590d4105ac07 100644 --- a/sci-biology/primer3/primer3-2.3.1.ebuild +++ b/sci-biology/primer3/primer3-2.3.1.ebuild @@ -1,14 +1,14 @@ # Copyright 1999-2012 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/primer3/primer3-2.3.1.ebuild,v 1.1 2012/07/19 12:21:52 jlec Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/primer3/primer3-2.3.1.ebuild,v 1.2 2012/12/12 13:10:00 jlec Exp $ EAPI=4 -inherit toolchain-funcs +inherit eutils toolchain-funcs DESCRIPTION="Primer Design for PCR reactions" HOMEPAGE="http://primer3.sourceforge.net/" -SRC_URI="mirror://sourceforge/${PN}/${P}.tar.gz" +SRC_URI="mirror://sourceforge/${PN}/${PV}/${P}.tar.gz" SLOT="0" LICENSE="GPL-2" @@ -19,15 +19,13 @@ DEPEND="dev-lang/perl" RDEPEND="" src_prepare() { + epatch "${FILESDIR}"/${PN}-2.3.4-buildsystem.patch + if [[ ${CHOST} == *-darwin* ]]; then sed -e "s:LIBOPTS ='-static':LIBOPTS =:" -i Makefile || die fi - perl -i -ne 's/\$\(CPP\)/'$(tc-getCXX)'/; print unless /^(CC|CPP|CFLAGS|LDFLAGS)\s*=/' src/Makefile || die - sed \ - -e '/oligotm/s:-o $@:$(LDFLAGS) -o $@:g' \ - -e '/long_seq_tm_test/s:-o $@:$(LDFLAGS) -o $@:g' \ - -e 's:CFLAGS:CXXFLAGS:g' \ - -i src/Makefile || die + + tc-export CC CXX AR RANLIB } src_compile() { @@ -35,7 +33,8 @@ src_compile() { } src_test () { - emake -C test + emake -C test | tee "${T}"/test.log + grep -q "\[FAILED\]" && die "test failed. See "${T}"/test.log" } src_install () { diff --git a/sci-biology/primer3/primer3-2.3.4.ebuild b/sci-biology/primer3/primer3-2.3.4.ebuild index 86815c57eaee..628c567c378d 100644 --- a/sci-biology/primer3/primer3-2.3.4.ebuild +++ b/sci-biology/primer3/primer3-2.3.4.ebuild @@ -1,6 +1,6 @@ # Copyright 1999-2012 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/primer3/primer3-2.3.4.ebuild,v 1.1 2012/12/12 12:27:49 jlec Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/primer3/primer3-2.3.4.ebuild,v 1.2 2012/12/12 13:10:00 jlec Exp $ EAPI=4 @@ -33,7 +33,8 @@ src_compile() { } src_test () { - emake -C test + emake -C test | tee "${T}"/test.log + grep -q "\[FAILED\]" && die "test failed. See "${T}"/test.log" } src_install () { |