diff options
| author |   Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2015-05-23 23:25:13 +0200 |
|---|---|---|
| committer | Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2015-05-23 23:25:13 +0200 |
| commit | 8a1a5bf1ebdff1e93246e54e4d922bd2d5fdd18e (patch) | |
| tree | ad6281dd459ab7635a73f04c6e284bcd08977a1c /sci-biology | |
| parent | Merge pull request #426 from Fat-Zer/master (diff) | |
| download | sci-8a1a5bf1ebdff1e93246e54e4d922bd2d5fdd18e.tar.gz sci-8a1a5bf1ebdff1e93246e54e4d922bd2d5fdd18e.tar.bz2 sci-8a1a5bf1ebdff1e93246e54e4d922bd2d5fdd18e.zip | |
sci-biology/amos: add qt3support requirement so that we actually compile hawkeye, add mpi to IUSE, drop mis-placed *.pm files, cleanup deps
Package-Manager: portage-2.2.18
Diffstat (limited to 'sci-biology')
| -rw-r--r-- | sci-biology/amos/amos-3.1.0-r2.ebuild | 24 | ||||
| -rw-r--r-- | sci-biology/amos/amos-9999.ebuild | 5 |
2 files changed, 12 insertions, 17 deletions
diff --git a/sci-biology/amos/amos-3.1.0-r2.ebuild b/sci-biology/amos/amos-3.1.0-r2.ebuild index eadcc4328..fd81df623 100644 --- a/sci-biology/amos/amos-3.1.0-r2.ebuild +++ b/sci-biology/amos/amos-3.1.0-r2.ebuild @@ -17,16 +17,18 @@ SRC_URI="mirror://sourceforge/${PN}/${P}.tar.gz" LICENSE="Artistic" SLOT="0" KEYWORDS="~amd64 ~x86" -IUSE="qt4" +IUSE="mpi qt4" DEPEND=" + mpi? ( virtual/mpi ) dev-libs/boost - qt4? ( dev-qt/qtcore:4 )" + qt4? ( dev-qt/qtcore:4[qt3support] ) + sci-biology/blat + sci-biology/jellyfish" RDEPEND="${DEPEND} dev-lang/perl dev-perl/DBI dev-perl/Statistics-Descriptive - sci-biology/blat sci-biology/mummer" MAKEOPTS+=" -j1" @@ -37,19 +39,6 @@ src_prepare() { "${FILESDIR}"/${P}-goBambus2.py-indent-and-cleanup.patch } -# amos-3.1.0-r2/work/amos-3.1.0/src/Bambus/Untangler/DotLib.pm -# amos-3.1.0-r2/work/amos-3.1.0/src/Bambus/Untangler/AsmLib.pm -# amos-3.1.0-r2/work/amos-3.1.0/src/PerlModules/FASTAreader.pm -# amos-3.1.0-r2/work/amos-3.1.0/src/PerlModules/AmosFoundation.pm -# amos-3.1.0-r2/work/amos-3.1.0/src/PerlModules/Foundation.pm -# amos-3.1.0-r2/work/amos-3.1.0/src/PerlModules/AmosLib.pm -# amos-3.1.0-r2/work/amos-3.1.0/src/PerlModules/FASTArecord.pm -# amos-3.1.0-r2/work/amos-3.1.0/src/PerlModules/ParseFasta.pm -# amos-3.1.0-r2/work/amos-3.1.0/src/PerlModules/xfig.pm -# amos-3.1.0-r2/work/amos-3.1.0/src/PerlModules/FASTAwriter.pm -# amos-3.1.0-r2/work/amos-3.1.0/src/PerlModules/FASTAgrammar.pm -# amos-3.1.0-r2/work/amos-3.1.0/src/PerlModules/FASTAiterator.pm - # --with-jellyfish location of Jellyfish headers src_install() { @@ -64,4 +53,7 @@ src_install() { doins "${D}"/usr/lib64/TIGR/*.pm # move also /usr/lib64/AMOS/AMOS.py to /usr/bin mv "${D}"/usr/lib64/AMOS/*.py "${D}"/usr/bin || die + # zap the mis-placed files ('make install' is at fault) + rm -f "${D}"/usr/lib64/AMOS/*.pm + rm -rf "${D}"/usr/lib64/TIGR } diff --git a/sci-biology/amos/amos-9999.ebuild b/sci-biology/amos/amos-9999.ebuild index 110e7c798..c47a5b6f8 100644 --- a/sci-biology/amos/amos-9999.ebuild +++ b/sci-biology/amos/amos-9999.ebuild @@ -23,7 +23,7 @@ IUSE="mpi qt4" DEPEND=" mpi? ( virtual/mpi ) dev-libs/boost - qt4? ( dev-qt/qtcore:4 ) + qt4? ( dev-qt/qtcore:4[qt3support] ) sci-biology/blat sci-biology/jellyfish" RDEPEND="${DEPEND} @@ -45,4 +45,7 @@ src_install() { doins "${D}"/usr/lib64/TIGR/*.pm # move also /usr/lib64/AMOS/AMOS.py to /usr/bin mv "${D}"/usr/lib64/AMOS/*.py "${D}"/usr/bin || die + # zap the mis-placed files ('make install' is at fault) + rm -f "${D}"/usr/lib64/AMOS/*.pm + rm -rf "${D}"/usr/lib64/TIGR } |