test workflow

inputs

@@ -1,5 +1,5 @@
 {
-  "{{ project_name }}.sample_id": {{ sample_id | tojson }},
+  "{{ project_name }}.sample_id": "{{ sample_id }}",
   "{{ project_name }}.fastq1": {{ fastq1 | tojson }},
   "{{ project_name }}.fastq2": {{ fastq2 | tojson }},
   "{{ project_name }}.subsampling_rate": "{{ subsampling_rate }}",

tasks/ngscheckmate_fastq.wdl

@@ -1,7 +1,8 @@
 task ngscheckmate_fastq {
-  String output_id
+  
   File fq1
   File fq2
+  String basename(fq1, "_R1.fastq.gz")
   String subsampling_rate
   String docker
   String cluster_config

workflow.wdl

@@ -2,7 +2,7 @@ import "./tasks/ngscheckmate_fastq.wdl" as ngscheckmate_fastq
 
 workflow {{ project_name }} {
   
-  Array[String] sample_id
+  String sample_id
   Array[File] fastq1
   Array[File] fastq2
   String subsampling_rate
@@ -10,10 +10,9 @@ workflow {{ project_name }} {
   String cluster_config
   String disk_size
 
-  scatter (idx in range(length(sample_id))) {
+  scatter (idx in range(length(fastq1))) {
     call ngscheckmate_fastq.ngscheckmate_fastq as ngscheckmate_fastq {
       input:
-      output_id=sample_id[idx],
       fq1=fastq1[idx],
       fq2=fastq2[idx],
       subsampling_rate=subsampling_rate,