diff options
Diffstat (limited to 'PKGBUILD')
| -rw-r--r-- | PKGBUILD | 29 |
1 files changed, 22 insertions, 7 deletions
@@ -1,6 +1,6 @@ pkgname=kallisto pkgver=0.46.2 -pkgrel=1 +pkgrel=2 pkgdesc='Quantify abundances of transcripts from RNA-Seq data' url="http://pachterlab.github.io/$pkgname/" license=(BSD) @@ -10,19 +10,34 @@ makedepends=(cmake autoconf automake) source=("https://github.com/pachterlab/$pkgname/archive/v$pkgver.tar.gz") sha256sums=('c447ca8ddc40fcbd7d877d7c868bc8b72807aa8823a8a8d659e19bdd515baaf2') +prepare() { + cd "$srcdir/$pkgname-$pkgver" + + # https://github.com/pachterlab/kallisto/issues/303#issuecomment-884612169 + pushd ext/htslib + sed -i '/AC_PROG_CC/a \ +AC_CANONICAL_HOST \ +AC_PROG_INSTALL \ +' configure.ac + autoreconf -i + autoheader + autoconf + popd + + # add missing header + sed -i '/#include <algorithm>/a #include <limits>' src/MinCollector.cpp +} + build() { - ( - cd "$srcdir/$pkgname-$pkgver/ext/htslib" - autoreconf - ) + cd "$srcdir/$pkgname-$pkgver" rm -rf build mkdir -p build cd build - cmake -DCMAKE_INSTALL_PREFIX:PATH="$pkgdir/usr" "$srcdir/$pkgname-$pkgver" + cmake -DCMAKE_INSTALL_PREFIX:PATH="$pkgdir/usr" .. make } package() { - cd build + cd "$srcdir/$pkgname-$pkgver/build" make install } |