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trimmomatic: follow java guidelines

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This commit is contained in:
sukanka 2022-07-07 23:54:09 +08:00
parent ee8f9fbb68
commit e82860483a
2 changed files with 7 additions and 9 deletions
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14
BioArchLinux/trimmomatic/PKGBUILD
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@ -1,23 +1,21 @@
# Maintainer: ZJLIN <zjin841126@gmail.com>
pkgname=trimmomatic
pkgver=0.39
pkgrel=3
pkgrel=4
pkgdesc='Trimmomatic: A flexible read trimming tool for Illumina NGS data'
arch=('any')
url="http://www.usadellab.org/cms/?page=trimmomatic"
license=('GPL3')
depends=('java-environment>=6')
depends=('java-runtime>=6')
source=("http://www.usadellab.org/cms/uploads/supplementary/Trimmomatic/Trimmomatic-$pkgver.zip"
"trimmomatic"
)
md5sums=('271ed9dca91132eee0c960e0ae487bcd'
'f48f380f206cb5f85bc25b8cf2c35d99')
'acd57c8656a1a398b42b50677a79df9c')
package() {
mkdir $pkgdir/opt/
mv $srcdir/Trimmomatic-$pkgver $srcdir/Trimmomatic
cp -r $srcdir/Trimmomatic/ $pkgdir/opt/
mkdir -p $pkgdir/usr/share/java/${pkgname}
cp -rf $srcdir/Trimmomatic-$pkgver/* $pkgdir/usr/share/java/${pkgname}
mkdir -p "${pkgdir}/usr/bin/"
install $srcdir/trimmomatic $pkgdir/usr/bin
install -Dm755 $srcdir/trimmomatic -t $pkgdir/usr/bin
}

2
BioArchLinux/trimmomatic/trimmomatic
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@ -1,2 +1,2 @@
#!/usr/bin/bash
exec java -jar /opt/Trimmomatic/trimmomatic-0.39.jar "$@"
exec /usr/bin/java -jar /usr/share/java/trimmomatic/trimmomatic-0.39.jar "$@"