Remove modules and queues from nf

workflow/main.nf

@@ -36,7 +36,6 @@ references = params.references
 process checkDesignFile {
 
   tag "${name}"
-  module 'python/3.6.1-2-anaconda'
 
   input:
     file designLocation
@@ -62,7 +61,6 @@ process checkDesignFile {
 process untarBCL {
 
   tag "${tar}"
-  module 'pigz/2.4'
 
   input:
     file tar from tarList
@@ -83,9 +81,7 @@ process untarBCL {
 process mkfastq {
 
   tag "${bcl.baseName}"
-  queue '128GB,256GB,256GBv1,384GB'
   publishDir "${outDir}/${task.process}", mode: 'copy', pattern: "{*/outs/**/*.fastq.gz}"
-  module 'cellranger/3.1.0:bcl2fastq/2.19.1'
 
   input:
     each bcl from bclPaths.collect()
@@ -134,8 +130,6 @@ if (bclCount.value == 1) {
 process fastqc {
 
   tag "${bclName}"
-  queue 'super'
-  module 'fastqc/0.11.5:parallel'
 
   input:
     file fastqPaths
@@ -158,7 +152,6 @@ process fastqc {
 process versions {
 
   tag "${name}"
-  module 'python/3.6.1-2-anaconda:cellranger/3.1.0:bcl2fastq/2.19.1:fastqc/0.11.5:pandoc/2.7'
 
   input:
 
@@ -182,9 +175,7 @@ process versions {
 process multiqc {
 
   tag "${name}"
-  queue 'super'
   publishDir "${outDir}/${task.process}/${name}", mode: 'copy', pattern: "{multiqc*}"
-  module 'multiqc/1.7'
 
   input:
     file bqc name "bqc/?/*" from bqcPaths.collect()