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https://github.com/BioArchLinux/Packages.git
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artemis: build from source as pre-build not work
This commit is contained in:
Kuoi
parent
8c22908925
commit
d058732f46
10 changed files with 92 additions and 96 deletions
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@ -1,31 +1,75 @@
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# Maintainer: Clint Valentine <valentine.clint@gmail.com>
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# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
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# Contributor: Clint Valentine <valentine.clint@gmail.com>
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pkgname='artemis'
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pkgname=artemis
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_pkgname=Artemis
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pkgver=18.2.0
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pkgrel=5
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pkgdesc='A genome viewer and annotation tool that visualizes biological sequence features'
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arch=('x86_64')
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url=https://www.sanger.ac.uk/science/tools/"${pkgname}"
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license=('GPL2')
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depends=('java-runtime>=1.6')
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source=("${pkgname}"-"${pkgver}".tar.gz::https://github.com/sanger-pathogens/Artemis/releases/download/v${pkgver}/artemis-unix-release-${pkgver}.tar.gz)
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sha256sums=('06441e1abab139cb0a09d5844cb1b84ae727ace53a6c0efdd1eea8d8cfab8382')
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package() {
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cd "${srcdir}"/"${pkgname}"
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sed -i 's#ARTEMIS_HOME=`dirname "$PRG"`/.#ARTEMIS_HOME=/opt/artemis/#' art
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sed -i 's#ACT_HOME=`dirname "$PRG"`/.#ACT_HOME=/opt/artemis/#' act
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sed -i 's#ARTEMIS_HOME=`dirname "$PRG"`/.#ARTEMIS_HOME=/opt/artemis/#' dnaplotter
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mkdir -p "${pkgdir}"/opt/"${pkgname}"/
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cp -a * "${pkgdir}"/opt/"${pkgname}"/
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scripts=('act' 'art' 'dnaplotter')
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for script in "${scripts[@]}"; do
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install -Dm775 "${script}" "${pkgdir}"/usr/bin/"${script}"
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rm "${pkgdir}"/opt/"${pkgname}"/"${script}"
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done
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install -Dm644 README.md "${pkgdir}"/usr/share/doc/"${pkgname}"/README.md
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depends=('java-runtime')
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makedepends=('java-environment' 'maven')
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source=($pkgname-$pkgver.tar.gz::https://github.com/sanger-pathogens/Artemis/archive/refs/tags/v${pkgver}.tar.gz
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act.desktop
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artemis.desktop
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bamview.desktop
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dnaplotter.desktop)
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sha256sums=('842c055f5cce021adbaea4f076b2ea80335ab1e44fbaa34b2ab608df6314a18e'
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'a7dda77f6518c98af6df88ba5d725f1b89d86aca125240f63a9c6e08afeb2a24'
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'dea9a1cc47b110c4f6ebe17c1b698866082997ffd9e6008d89847ddf745a0789'
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'3ca519b00ffac02d635a62884996ad5b8c4580d8ffe8fcd427ee4edee1562f00'
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'ef584b45f9c92da15511779f20a1a1449915315066662e4c142ea4cd92dd717c')
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#prepare() {
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#scripts=('act' 'art' 'bamview' 'dnaplotter')
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# cd $srcdir/$_pkgname-$pkgver
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# patch -N -i $srcdir/fix_bin.patch
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#}
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build() {
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cd $srcdir/$_pkgname-$pkgver
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mvn validate
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mvn package
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}
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package() {
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bina=('act' 'art' 'bamview' 'dnaplotter')
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scripts=('act' 'artemis' 'bamview' 'dnaplotter')
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# desktop
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cd $srcdir/
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for des in ${scripts[@]}
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do
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install -Dm 755 $des.desktop $pkgdir/usr/share/applications/$des.desktop
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done
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# bin
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cd $srcdir/$_pkgname-$pkgver
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for bin in ${bina[@]}
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do
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install -Dm 775 $bin $pkgdir/usr/share/$pkgname/$bin
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done
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# jar
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cd $srcdir/$_pkgname-$pkgver/target/jars
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for jar in $(ls *.jar)
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do
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install -Dm 755 $jar $pkgdir/usr/share/$pkgname/target/jars/$jar
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done
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# icons
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cd $srcdir/$_pkgname-$pkgver/target/classes/images
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for icn in ${scripts[@]}
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do
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mv ${icn}_icon.png ${icn}.png
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install -Dm 644 ${icn}.png $pkgdir/usr/share/pixmaps/${icn}.png
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done
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# link bin
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cd $srcdir/$_pkgname-$pkgver
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mkdir -p $pkgdir/usr/bin
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for bin in ${bina[@]}
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do
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ln -s /usr/share/$pkgname/$bin $pkgdir/usr/bin/$bin
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done
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}
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@ -1,11 +0,0 @@
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#!/usr/bin/env python3
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from lilaclib import *
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def pre_build():
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update_pkgver_and_pkgrel(_G.newver.lstrip('v'))
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run_cmd(['updpkgsums'])
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def post_build():
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git_add_files('PKGBUILD')
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git_commit()
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update_aur_repo()
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@ -2,6 +2,13 @@ build_prefix: extra-x86_64
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maintainers:
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- github: starsareintherose
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email: kuoi@bioarchlinux.org
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pre_build_script: |
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update_pkgver_and_pkgrel(_G.newver.lstrip('v'))
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run_cmd(['updpkgsums'])
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post_build_script: |
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git_add_files('PKGBUILD')
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git_commit()
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update_aur_repo()
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update_on:
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- source: github
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github: sanger-pathogens/Artemis
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@ -1,75 +1,31 @@
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# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
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# Contributor: Clint Valentine <valentine.clint@gmail.com>
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# Maintainer: Clint Valentine <valentine.clint@gmail.com>
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pkgname=artemis
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_pkgname=Artemis
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pkgname='artemis'
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pkgver=18.2.0
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pkgrel=5
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pkgdesc='A genome viewer and annotation tool that visualizes biological sequence features'
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arch=('x86_64')
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url=https://www.sanger.ac.uk/science/tools/"${pkgname}"
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license=('GPL2')
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depends=('java-runtime')
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makedepends=('java-environment' 'maven')
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source=($pkgname-$pkgver.tar.gz::https://github.com/sanger-pathogens/Artemis/archive/refs/tags/v${pkgver}.tar.gz
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act.desktop
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artemis.desktop
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bamview.desktop
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dnaplotter.desktop)
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sha256sums=('842c055f5cce021adbaea4f076b2ea80335ab1e44fbaa34b2ab608df6314a18e'
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'a7dda77f6518c98af6df88ba5d725f1b89d86aca125240f63a9c6e08afeb2a24'
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'dea9a1cc47b110c4f6ebe17c1b698866082997ffd9e6008d89847ddf745a0789'
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'3ca519b00ffac02d635a62884996ad5b8c4580d8ffe8fcd427ee4edee1562f00'
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'ef584b45f9c92da15511779f20a1a1449915315066662e4c142ea4cd92dd717c')
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#prepare() {
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#scripts=('act' 'art' 'bamview' 'dnaplotter')
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# cd $srcdir/$_pkgname-$pkgver
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# patch -N -i $srcdir/fix_bin.patch
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#}
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build() {
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cd $srcdir/$_pkgname-$pkgver
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mvn validate
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mvn package
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}
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depends=('java-runtime>=1.6')
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source=("${pkgname}"-"${pkgver}".tar.gz::https://github.com/sanger-pathogens/Artemis/releases/download/v${pkgver}/artemis-unix-release-${pkgver}.tar.gz)
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sha256sums=('06441e1abab139cb0a09d5844cb1b84ae727ace53a6c0efdd1eea8d8cfab8382')
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package() {
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bina=('act' 'art' 'bamview' 'dnaplotter')
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scripts=('act' 'artemis' 'bamview' 'dnaplotter')
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cd "${srcdir}"/"${pkgname}"
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# desktop
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cd $srcdir/
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for des in ${scripts[@]}
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do
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install -Dm 755 $des.desktop $pkgdir/usr/share/applications/$des.desktop
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done
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sed -i 's#ARTEMIS_HOME=`dirname "$PRG"`/.#ARTEMIS_HOME=/opt/artemis/#' art
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sed -i 's#ACT_HOME=`dirname "$PRG"`/.#ACT_HOME=/opt/artemis/#' act
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sed -i 's#ARTEMIS_HOME=`dirname "$PRG"`/.#ARTEMIS_HOME=/opt/artemis/#' dnaplotter
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# bin
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cd $srcdir/$_pkgname-$pkgver
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for bin in ${bina[@]}
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do
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install -Dm 775 $bin $pkgdir/usr/share/$pkgname/$bin
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done
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mkdir -p "${pkgdir}"/opt/"${pkgname}"/
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cp -a * "${pkgdir}"/opt/"${pkgname}"/
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# jar
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cd $srcdir/$_pkgname-$pkgver/target/jars
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for jar in $(ls *.jar)
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do
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install -Dm 755 $jar $pkgdir/usr/share/$pkgname/target/jars/$jar
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done
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# icons
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cd $srcdir/$_pkgname-$pkgver/target/classes/images
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for icn in ${scripts[@]}
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do
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mv ${icn}_icon.png ${icn}.png
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install -Dm 644 ${icn}.png $pkgdir/usr/share/pixmaps/${icn}.png
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done
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# link bin
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cd $srcdir/$_pkgname-$pkgver
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mkdir -p $pkgdir/usr/bin
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for bin in ${bina[@]}
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do
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ln -s /usr/share/$pkgname/$bin $pkgdir/usr/bin/$bin
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done
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scripts=('act' 'art' 'dnaplotter')
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for script in "${scripts[@]}"; do
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install -Dm775 "${script}" "${pkgdir}"/usr/bin/"${script}"
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rm "${pkgdir}"/opt/"${pkgname}"/"${script}"
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done
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install -Dm644 README.md "${pkgdir}"/usr/share/doc/"${pkgname}"/README.md
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}
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