diff options
Diffstat (limited to 'PKGBUILD')
-rw-r--r-- | PKGBUILD | 16 |
1 files changed, 12 insertions, 4 deletions
@@ -2,9 +2,9 @@ pkgname=proovread pkgver=2.12 -pkgrel=1 +pkgrel=2 pkgdesc="large-scale high accuracy PacBio correction through iterative short read consensus" -arch=('any') +arch=('i686' 'x86_64') url="https://github.com/BioInf-Wuerzburg/proovread" license=('PerlArtistic') depends=('blasr-git' 'perl-log-log4perl' 'blast+>=2.2.24' 'samtools>=1.1' 'shrimp') @@ -16,6 +16,11 @@ prepare() { git submodule init git submodule update + + sed -e "s|'bwa-path' => \$RealBin.'/../util/bwa/'|'bwa-path' => ''|" \ + -e "s|'shrimp-path' => \$RealBin.'/../util/shrimp-2.2.3/'|'shrimp-path' => ''|" \ + -e "s|'blasr-path' => \$RealBin.'/../util/blasr-1.3.1/'|'blasr-path' => ''|" \ + -i proovread.cfg } build() { @@ -28,11 +33,14 @@ package() { cd $srcdir/$pkgname mkdir -p $pkgdir/usr/bin \ - $pkgdir/usr/lib/perl5/vendor_perl + $pkgdir/usr/lib/perl5/vendor_perl \ + $pkgdir/usr/share/proovread - for file in bin/* util/SeqChunker/bin/* ; do + for file in bin/* util/SeqChunker/bin/* util/bwa/bwa-proovread ; do install -Dm755 $file $pkgdir/usr/bin/$(basename $file .pl) done cp -r lib/* $pkgdir/usr/lib/perl5/vendor_perl + + install -Dm644 proovread.cfg $pkgdir/usr/share/proovread/proovread.cfg } |