Prettier

assets/multiqc_config.yml

@@ -21,6 +21,7 @@ run_modules:
   - bowtie2
   - kraken
   - malt
+  - custom_content
 
 #extra_fn_clean_exts:
 #    - '_fastp'

conf/modules.config

@@ -241,7 +241,8 @@ process {
     withName: PRINSEQPLUSPLUS {
         ext.args =  [
                 params.shortread_complexityfilter_prinseqplusplus_mode == 'dust' ? "-lc_dust=${params.shortread_complexityfilter_prinseqplusplus_dustscore}" : "-lc_entropy=${params.shortread_complexityfilter_entropy}",
-                "-trim_qual_left=0 -trim_qual_left=0 -trim_qual_window=0 -trim_qual_step=0"
+                "-trim_qual_left=0 -trim_qual_left=0 -trim_qual_window=0 -trim_qual_step=0",
+                "-VERBOSE 2"
             ].join(' ').trim()
         ext.prefix = { "${meta.id}-${meta.run_accession}" }
         publishDir = [