revise-cufflinks

tasks/cufflinks.wdl

@@ -5,7 +5,7 @@ task cufflinks {
     String cluster
 
     command {
-    cufflinks -p 8 -o ${baseout} ${bam}
+      cufflinks -p 8 -o ${baseout} ${bam}
     }
 
     runtime {

workflow.wdl

@@ -23,7 +23,7 @@ workflow {{ project_name }} {
 	call tophat2.tophat2 as tophat2 {
 		input: baseout=baseout, read1=read1, read2=read2, gtf=gtf, genome_directory=genome_directory, idx_prefix=idx_prefix
 	}
-
+	
 	call cufflinks.cufflinks as cufflinks {
 		input: baseout=baseout, bam=tophat2.accepted_hits
 	}