更新 'tasks/arriba.wdl'

--chimMultimapNmax 50 > ./output/${sample_id}.Aligned.out.bam

tasks/arriba.wdl

@@ -37,8 +37,10 @@ task arriba{
             --chimScoreJunctionNonGTAG 0 \
             --chimScoreSeparation 1 \
             --chimSegmentReadGapMax 3 \
-            --chimMultimapNmax 50 |tee ./output/${sample_id}.Aligned.out.bam |/arriba_v2.1.0/arriba \
-            -x /dev/stdin \
+            --chimMultimapNmax 50 > ./output/${sample_id}.Aligned.out.bam
+
+        /arriba_v2.1.0/arriba \
+            -x ./output/${sample_id}.Aligned.out.bam \
             -o ./output/${sample_id}_fusions.tsv -O ./output/${sample_id}_fusions.discarded.tsv \
             -a ${ASSEMBLY_FA} \
             -g ${ANNOTATION_GTF} \