Commit 96fcf395 authored by EC2 Default User's avatar EC2 Default User
Browse files

force bam merge

parent b76b83ec

mergeBAM.sh

+1 −1
Original line number Diff line number Diff line
@@ -12,7 +12,7 @@ outdir=$5 
yaml=$6



ls $tmpMerge/$project.*.filtered.tagged.bam > $tmpMerge/$project.bamlist.txt

samtools merge -@ $nthreads -b $tmpMerge/$project.bamlist.txt $outdir/$project.filtered.tagged.bam

samtools merge -f -@ $nthreads -b $tmpMerge/$project.bamlist.txt $outdir/$project.filtered.tagged.bam



cat $tmpMerge/$project.*.BCstats.txt > $outdir/$project.BCstats.txt

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