Additional optional output to homer/annotatepeaks (nf-core#3667)

* add optional stats output for use with the -annStats parameter (to be provided with ext.args)

* Update meta.yml

* add additional stats output to annotatepeaks test

---------

Co-authored-by: Edmund Miller <edmund.a.miller@gmail.com>

modules/nf-core/homer/annotatepeaks/main.nf

@@ -15,6 +15,7 @@ process HOMER_ANNOTATEPEAKS {
 
     output:
     tuple val(meta), path("*annotatePeaks.txt"), emit: txt
+    tuple val(meta), path("*annStats.txt"), emit: stats, optional: true
     path  "versions.yml"                       , emit: versions
 
     when:

modules/nf-core/homer/annotatepeaks/meta.yml

@@ -39,6 +39,10 @@ output:
       type: file
       description: The annotated peaks
       pattern: "*annotatePeaks.txt"
+  - annotation_stats:
+      type: file
+      description: the annStats file output from -annStats parameter
+      pattern: "*annStats.txt"
   - versions:
       type: file
       description: File containing software versions

tests/modules/nf-core/homer/annotatepeaks/nextflow.config

@@ -1,5 +1,6 @@
 process {
 
     publishDir = { "${params.outdir}/${task.process.tokenize(':')[-1].tokenize('_')[0].toLowerCase()}" }
+    ext.args = {"-annStats ${meta.id}.annStats.txt"}
 
 }

tests/modules/nf-core/homer/annotatepeaks/test.yml

@@ -5,3 +5,4 @@
     - homer/annotatepeaks
   files:
     - path: output/homer/test.annotatePeaks.txt
+    - path: output/homer/test.annStats.txt