更新 'tasks/arriba.wdl'

24

tasks/arriba.wdl

@@ -17,7 +17,7 @@ task arriba{
 
         mkdir ./output/
         STAR \
-            --runThreadN 32 \
+            --runThreadN 24 \
             --genomeDir ${STAR_INDEX_DIR} \
             --genomeLoad NoSharedMemory \
             --readFilesIn ${fastq1} ${fastq2} \
@@ -50,7 +50,7 @@ task arriba{
             -t /arriba_v2.1.0/database/known_fusions_hg38_GRCh38_v2.1.0.tsv.gz \
             -p /arriba_v2.1.0/database/protein_domains_hg38_GRCh38_v2.1.0.gff3
          
-         samtools index -@ 32 ./output/${sample_id}.Aligned.sortedByCoord.out.bam ./output/${sample_id}.Aligned.sortedByCoord.out.bam.bai
+         samtools index -@ 24 ./output/${sample_id}.Aligned.sortedByCoord.out.bam ./output/${sample_id}.Aligned.sortedByCoord.out.bam.bai
          
          Rscript /arriba_v2.1.0/draw_fusions.R \
             --fusions=./output/${sample_id}_fusions.tsv \