diff --git a/falcon_unzip/run_quiver.py b/falcon_unzip/run_quiver.py index f5d7e8e..881fb51 100644 --- a/falcon_unzip/run_quiver.py +++ b/falcon_unzip/run_quiver.py @@ -90,7 +90,7 @@ def task_run_quiver(self): --minAnchorSize=12 --maxDivergence=30 --concordant --algorithm=blasr\ --algorithmOptions=--useQuality --maxHits=1 --hitPolicy=random --seed=1\ {read_bam} {ref_fasta} aln-{ctg_id}.bam -({variantCaller} -x 5 -X 120 -q 20 -j 24 -r {ref_fasta} aln-{ctg_id}.bam\ +({variantCaller} --algorithm=arrow -x 5 -X 120 -q 20 -j 24 -r {ref_fasta} aln-{ctg_id}.bam\ -o {cns_fasta} -o {cns_fastq}) || echo quvier failed date touch {job_done}