更新 'tasks/featureCounts.wdl'

tasks/featureCounts.wdl

 task featureCounts {
     File bam_file
     File lnc_gtf_file
-    String gtf_dir
     String sample_id
     String docker
     String cluster
 
     
     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 ${lnc_gtf_file} -s 0 -p -o ${sample_id}.genefeaturecount.txt ${bam_file}
     >>>
 
     runtime {
 
     output {
         File out_profile = "${sample_id}.genefeaturecount.txt"
-        File out_summary = "${sample_id}.summary"
+        File out_summary = "${sample_id}.genefeaturecount.txt.summary"
     }
 }