diff options
Diffstat (limited to 'PKGBUILD')
| -rw-r--r-- | PKGBUILD | 47 |
1 files changed, 47 insertions, 0 deletions
diff --git a/PKGBUILD b/PKGBUILD new file mode 100644 index 000000000000..1050f28a1bcf --- /dev/null +++ b/PKGBUILD @@ -0,0 +1,47 @@ +# Maintianer: Bipin Kumar <bipin@ccmb.res.in> + +pkgname=amrfinderplus +pkgver=3.11.20 +pkgrel=1 +pkgdesc="Identify Antimicrobial resistance genes in assembled bacterial nucleotide and protein sequence. https://doi.org/10.1038/s41598-021-91456-0" +arch=('x86_64' 'i686') +url="https://www.ncbi.nlm.nih.gov/pathogens/antimicrobial-resistance/AMRFinder/" +license=('custom: Public Domain') +depends=( + 'glibc' + 'gcc-libs' + 'curl' + 'blast+' + 'hmmer' + ) +source=("${pkgname}-${pkgver}.tar.gz::https://github.com/ncbi/amr/archive/refs/tags/amrfinder_v${pkgver}.tar.gz" + "destdir.patch") +sha256sums=('698462c4fa688a91130b72e44756d21faf406e186a02da914982044332419ef6' + '1364d6dedb96c9a5aa2353e9abe7f766d721f55cb0811dd0aece43639f0f2152') + +prepare() { + cp *.patch amr-amrfinder_v${pkgver} + cd amr-amrfinder_v${pkgver} + # patch Makefile to use gnu make's destdir variable + patch -p1 < destdir.patch +} + +build() { + cd amr-amrfinder_v${pkgver} + make PREFIX=/usr DEFAULT_DB_DIR=/usr/share/amrfinderplus/data +} + +package() { + cd amr-amrfinder_v${pkgver} + install -d ${pkgdir}/usr/bin + make DESTDIR=${pkgdir} install + install -Dm644 LICENSE -t "$pkgdir"/usr/share/licenses/"${pkgname}" + install -d ${pkgdir}/usr/share/amrfinderplus/data + cd ${pkgdir}/usr/share/amrfinderplus/data + curl -O https://raw.githubusercontent.com/ncbi/amr/master/test_dna.fa \ + -O https://raw.githubusercontent.com/ncbi/amr/master/test_prot.fa \ + -O https://raw.githubusercontent.com/ncbi/amr/master/test_prot.gff \ + -O https://raw.githubusercontent.com/ncbi/amr/master/test_both.expected \ + -O https://raw.githubusercontent.com/ncbi/amr/master/test_dna.expected \ + -O https://raw.githubusercontent.com/ncbi/amr/master/test_prot.expected +} |