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author | clintval | 2018-02-03 20:26:43 -0800 |
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committer | clintval | 2018-02-03 20:26:43 -0800 |
commit | 019ef5eb9e1100b2bf9c7dce933bfc54657023d2 (patch) | |
tree | 1f85af1a65ed7e8fc8ba1e2ec29209db6fc2bde7 /PKGBUILD | |
parent | 70cd9a12348b48aadea48d45351c9da79b696f21 (diff) | |
download | aur-019ef5eb9e1100b2bf9c7dce933bfc54657023d2.tar.gz |
qualimap to sha256sums
Diffstat (limited to 'PKGBUILD')
-rw-r--r-- | PKGBUILD | 51 |
1 files changed, 22 insertions, 29 deletions
@@ -1,40 +1,33 @@ # Maintainer: Clint Valentine <valentine.clint@gmail.com> pkgname=qualimap pkgver=2.2.1 -pkgrel=1 -pkgdesc="Evaluating next generation sequencing data" -arch=('i686' 'x86_64') -url="http://qualimap.bioinfo.cipf.es/" +pkgrel=2 +pkgdesc="Utility to evaluate the quality of next-generation sequencing data" +arch=('any') +url=https://qualimap.bioinfo.cipf.es license=('GPL2') -depends=('r>=3.1 java-runtime>=6 java-runtime-openjdk>=6') -provides=('qualimap') -conflicts=('qualimap') +depends=('r' 'java-runtime>=6' 'java-runtime-openjdk>=6') install="${pkgname}".install -source=("https://bitbucket.org/kokonech/${pkgname}/downloads/${pkgname}_v${pkgver}.zip") -md5sums=('a13afe4325ec2f9a065f48a7f0880280') +source=(http://bitbucket.org/kokonech/"${pkgname}"/downloads/"${pkgname}"_"v${pkgver}".zip) +sha256sums=('08f1d66e49c83c76c56c4225c53aee44f41e0592c8bdc84b8c4ecd975700e045') -package() { - mkdir -p "${pkgdir}/usr/bin/" - mkdir -p "${pkgdir}/usr/share/${pkgname}_v${pkgver}" - mkdir -p "${pkgdir}/usr/share/licenses/${pkgname}_v${pkgver}/" - - cd "$srcdir/${pkgname}_v${pkgver}" - - ## Set qualimap home environmental default - sed -i s#'QUALIMAP_HOME=.*'#'QUALIMAP_HOME=/usr/share/'"${pkgname}"'_v'"${pkgver}"# qualimap - install -D -m 775 qualimap "${pkgdir}/usr/bin/qualimap" +prepare() { + cd "${srcdir}"/"${pkgname}"_v"${pkgver}" + sed -i s#'QUALIMAP_HOME=.*'#QUALIMAP_HOME=/usr/share/"${pkgname}"_v"${pkgver}"# "${pkgname}" +} - # Install license and history - install -D -m644 LICENSE "${pkgdir}/usr/share/licenses/${pkgname}_v${pkgver}/LICENSE" - install -D -m644 HISTORY "${pkgdir}/usr/share/licenses/${pkgname}_v${pkgver}/HISTORY" +package() { + cd "${srcdir}"/"${pkgname}"_v"${pkgver}" - # Copy .jar library dependencies and .R scripts - cp -rf 'lib/' "${pkgdir}/usr/share/${pkgname}_v${pkgver}/lib" - cp -rf 'scripts/' "${pkgdir}/usr/share/${pkgname}_v${pkgver}/scripts" + install -Dm644 LICENSE "${pkgdir}"/usr/share/licenses/"${pkgname}"/LICENSE + install -Dm644 HISTORY "${pkgdir}"/usr/share/licenses/"${pkgname}"/HISTORY - # Copy species data files - cp -rf 'species/' "${pkgdir}/usr/share/${pkgname}_v${pkgver}/species" + # Install .jar dependencies, .R scripts, and packaged data. + mkdir -p "${pkgdir}"/usr/share/"${pkgname}" + cp -rf lib/ "${pkgdir}"/usr/share/"${pkgname}"/lib + cp -rf scripts/ "${pkgdir}"/usr/share/"${pkgname}"/scripts + cp -rf species/ "${pkgdir}"/usr/share/"${pkgname}"/species - # Copy the main .jar class - cp -f qualimap.jar "${pkgdir}/usr/share/${pkgname}_v${pkgver}/qualimap.jar" + install -Dm775 "${pkgname}" "${pkgdir}"/usr/bin/"${pkgname}" + install -Dm644 "${pkgname}".jar "${pkgdir}"/usr/share/"${pkgname}"/"${pkgname}".jar } |