......

workflow.wdl

@@ -36,36 +36,4 @@ workflow {{ project_name }} {
 	String samtools_docker
 	String samtools_cluster
 	String stringtie_docker
-	String stringtie_cluster
-	String multiqc_cluster_config
-	String multiqc_docker
-	Int multiqc_disk_size
-	Int trim_front1 
-	Int trim_tail1 
-	Int max_len1 
-	Int trim_front2 
-	Int trim_tail2  
-	Int max_len2 
-	Int disable_adapter_trimming
-	Int length_required
-	Int umi_len
-	Int UMI
-	Int qualified_quality_phred
-	Int length_required1
-	Int disable_quality_filtering
-	Int pen_cansplice
-	Int pen_noncansplice
-	Int min_intronlen
-	Int max_intronlen
-	Int maxins
-	Int minins
-	Int fastqc_disk_size
-	Int fastqscreen_disk_size
-	Int qualimapBAMqc_disk_size
-	Int qualimapRNAseq_disk_size
-	Int insert_size
-	Int minimum_length_allowed_for_the_predicted_transcripts
-    	Int Junctions_no_spliced_reads
-   	Float minimum_isoform_abundance
-    	Float maximum_fraction_of_muliplelocationmapped_reads
-}
+	}