revised-bedtools-task

workflow.wdl

@@ -4,8 +4,7 @@ workflow {{ project_name }} {
 
 	File input_samples_file
 	File bed_file
-	Array[Array[File]] input_samples = read_tsv(input_samples_file)
-	Array[File] bam = input_samples[0]
+	Array[File] bam = read_lines(input_samples_file)
 	call bedtools.bedtools as bedtools {
 			input:
 			bam=bam,