更新 'tasks/featureCounts.wdl'

tasks/featureCounts.wdl

@@ -1,7 +1,5 @@
 task featureCounts {
     File bam_file
-    File lnc_gtf_file = "lncRNAKB_hg38_v7.gtf"
-    String gtf_dir = "oss://pgx-reference-data/reference/subread/"
     String sample_id
     String docker
     String cluster
@@ -9,7 +7,7 @@ task featureCounts {
 
     
     command <<<
-        featureCounts -T 4 -t exon -g gene_id -a $gtf_dir/$lnc_gtf_file -s 0 -p -o $sample_id.genefeaturecount.txt $bam_file
+        featureCounts -T 4 -t exon -g gene_id -a oss://pgx-reference-data/reference/subread/lncRNAKB_hg38_v7.gtf -s 0 -p -o $sample_id.genefeaturecount.txt $bam_file
     >>>
 
     runtime {