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# Maintainer: Jens Staal <staal1978@gmail.com>
pkgname=meta-ugene-external_tools
pkgver=20181009
pkgrel=2
pkgdesc='Metapackage for External Tools in the UGENE bioinformatics suite'
arch=('any')
license=('none')
depends=(
'ugene-bin'
'java-runtime>=8'
'bedtools'
'blast+'
'bowtie'
'bowtie2'
'bwa'
#cap3
'clustal-omega'
'clustalw'
'mafft'
'tcoffee'
'mrbayes'
'phyml-git'
'kraken'
#Conduct GO
#mdseqpos
#conservation plot
#peak2gene
#MACS
#CEAS
'cufflinks-bin' #source-based cufflinks does not build
'samtools'
'tophat'
'python'
'python2'
'perl'
'vcftools'
'vcfanno-bin'
'snpeff'
'fastqc'
'python-cutadapt'
'hmmer'
'hmmer2'
'primer3'
)
#commented out deps are not yet in AUR
replaces=('ugene-external-tools')
url="http://ugene.net/external.html"
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