Commit 0171a891 authored by Holger Brandl's avatar Holger Brandl

started migration of cluster tools to github

parent 6bdc735a
mmFastqc(){
outputDir="fastqc_reports"
# filePattern="fastq.gz"
# outputDir=$1
# filePattern=$2
mkdir $outputDir
for fastqFile in *fastq *fastq.gz ; do
if [ ! -f $fastqFile ]; then
continue;
fi
echo processing $fastqFile
# bsub -q medium --J fastqc_$(basename $fastqFile) "fastqc -j /sw/bin/java -o $outputDir -f fastq $fastqFile" | joblist .fastqc_jobs
mysub "fastqc__$(basename $fastqFile)" "fastqc -j /sw/bin/java -o $outputDir -f fastq $fastqFile" -q medium | joblist .fastqc_jobs
done
wait4jobs .fastqc_jobs
}
export -f mmFastqc
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