Update versions key in meta.yml for all modules (#787)

modules/abacas/meta.yml

@@ -48,9 +48,9 @@ output:
         'test.abacas.MULTIFASTA.fa' ]
       pattern: "*.{abacas}*"
 
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 
 authors:

modules/adapterremoval/meta.yml

@@ -41,9 +41,9 @@ output:
         type: file
         description: AdapterRemoval log file
         pattern: "*.log"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 
 authors:

modules/agrvate/meta.yml

@@ -38,9 +38,9 @@ output:
       type: directory
       description: Results of the agrvate assessement
       pattern: "*-results"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 authors:
   - "@abhi18av"

modules/allelecounter/meta.yml

@@ -39,9 +39,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - alleleCount:
       type: file

modules/amps/meta.yml

@@ -41,9 +41,9 @@ input:
       pattern: "def_anc|default|scan|ancient|crawl"
 
 output:
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - json:
       type: file

modules/arriba/meta.yml

@@ -37,9 +37,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - fusions:
       type: file

modules/artic/guppyplex/meta.yml

@@ -34,9 +34,9 @@ output:
       type: file
       description: Aggregated FastQ files
       pattern: "*.{fastq.gz}"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 
 authors:

modules/artic/minion/meta.yml

@@ -103,9 +103,9 @@ output:
       type: file
       description: JSON file for MultiQC
       pattern: "*.json"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 
 authors:

modules/bamaligncleaner/meta.yml

@@ -27,9 +27,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - bam:
       type: file

modules/bandage/image/meta.yml

@@ -35,9 +35,9 @@ output:
         type: file
         description: Bandage image in SVG format
         pattern: "*.svg"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@heuermh"

modules/bbmap/align/meta.yml

@@ -39,9 +39,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - bam:
       type: file

modules/bbmap/bbduk/meta.yml

@@ -39,9 +39,9 @@ output:
       type: file
       description: The trimmed/modified fastq reads
       pattern: "*fastq.gz"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - log:
       type: file

modules/bbmap/bbsplit/meta.yml

@@ -49,9 +49,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - index:
       type: directory

modules/bbmap/index/meta.yml

@@ -20,9 +20,9 @@ input:
       pattern: "*.{fna,fa,fasta}"
 
 output:
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - db:
       type: directory

modules/bcftools/concat/meta.yml

@@ -34,9 +34,9 @@ output:
         type: file
         description: VCF concatenated output file
         pattern: "*.{vcf.gz}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
   - "@abhi18av"

modules/bcftools/consensus/meta.yml

@@ -39,9 +39,9 @@ output:
         type: file
         description: FASTA reference consensus file
         pattern: "*.{fasta,fa}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@joseespinosa"

modules/bcftools/filter/meta.yml

@@ -31,9 +31,9 @@ output:
         type: file
         description: VCF filtered output file
         pattern: "*.{vcf}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@joseespinosa"

modules/bcftools/isec/meta.yml

@@ -39,9 +39,9 @@ output:
         type: directory
         description: Folder containing the set operations results perform on the vcf files
         pattern: "${prefix}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@joseespinosa"

modules/bcftools/merge/meta.yml

@@ -37,9 +37,9 @@ output:
         type: file
         description: VCF merged output file
         pattern: "*.{vcf.gz}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@joseespinosa"

modules/bcftools/mpileup/meta.yml

@@ -43,9 +43,9 @@ output:
         type: file
         description: Text output file containing stats
         pattern: "*{stats.txt}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@joseespinosa"

modules/bcftools/norm/meta.yml

@@ -37,9 +37,9 @@ output:
         type: file
         description: VCF normalized output file
         pattern: "*.{vcf.gz}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@abhi18av"

modules/bcftools/query/meta.yml

@@ -53,9 +53,9 @@ output:
         type: file
         description: VCF query output file
         pattern: "*.{vcf.gz}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
   - "@abhi18av"

modules/bcftools/reheader/meta.yml

@@ -38,9 +38,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - vcf:
       type: file

modules/bcftools/stats/meta.yml

@@ -32,9 +32,9 @@ output:
         type: file
         description: Text output file containing stats
         pattern: "*_{stats.txt}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@joseespinosa"

modules/bcftools/view/meta.yml

@@ -54,9 +54,9 @@ output:
         type: file
         description: VCF normalized output file
         pattern: "*.{vcf.gz}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@abhi18av"

modules/bedtools/bamtobed/meta.yml

@@ -28,9 +28,9 @@ output:
         type: file
         description: Bed file containing genomic intervals.
         pattern: "*.{bed}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@yuukiiwa"

modules/bedtools/complement/meta.yml

@@ -32,9 +32,9 @@ output:
         type: file
         description: Bed file with all genomic intervals that are not covered by at least one record from the input file.
         pattern: "*.{bed}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@Emiller88"

modules/bedtools/genomecov/meta.yml

@@ -35,9 +35,9 @@ output:
         type: file
         description: Computed genome coverage file
         pattern: "*.${extension}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@Emiller88"

modules/bedtools/getfasta/meta.yml

@@ -24,9 +24,9 @@ output:
         type: file
         description: Output fasta file with extracted sequences
         pattern: "*.{fa}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@joseespinosa"

modules/bedtools/intersect/meta.yml

@@ -35,9 +35,9 @@ output:
         type: file
         description: File containing the description of overlaps found between the two features
         pattern: "*.${extension}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@Emiller88"

modules/bedtools/makewindows/meta.yml

@@ -31,9 +31,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - tab:
       type: file

modules/bedtools/maskfasta/meta.yml

@@ -34,9 +34,9 @@ output:
         type: file
         description: Output masked fasta file
         pattern: "*.{fa}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@joseespinosa"

modules/bedtools/merge/meta.yml

@@ -28,9 +28,9 @@ output:
         type: file
         description: Overlapped bed file with combined features
         pattern: "*.{bed}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@Emiller88"

modules/bedtools/slop/meta.yml

@@ -28,9 +28,9 @@ output:
         type: file
         description: Slopped BED file
         pattern: "*.{bed}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@Emiller88"

modules/bedtools/sort/meta.yml

@@ -28,9 +28,9 @@ output:
         type: file
         description: Sorted BED file
         pattern: "*.{bed}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@Emiller88"

modules/bedtools/subtract/meta.yml

@@ -36,9 +36,9 @@ output:
       type: file
       description: File containing the difference between the two sets of features
       patters: "*.bed"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 
 authors:

modules/bismark/align/meta.yml

@@ -50,9 +50,9 @@ output:
         type: file
         description: Bismark alignment reports
         pattern: "*{report.txt}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@phue"

modules/bismark/deduplicate/meta.yml

@@ -43,9 +43,9 @@ output:
         type: file
         description: Bismark deduplication reports
         pattern: "*.{deduplication_report.txt}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@phue"

modules/bismark/genomepreparation/meta.yml

@@ -28,9 +28,9 @@ output:
         type: dir
         description: Bismark genome index directory
         pattern: "BismarkIndex"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@phue"

modules/bismark/methylationextractor/meta.yml

@@ -58,9 +58,9 @@ output:
         type: file
         description: Text file containing methylation bias information
         pattern: "*.{M-bias.txt}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@phue"

modules/bismark/report/meta.yml

@@ -51,9 +51,9 @@ output:
         type: file
         description: Bismark reports
         pattern: "*.{html,txt}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@phue"

modules/bismark/summary/meta.yml

@@ -45,9 +45,9 @@ output:
         type: file
         description: Bismark summary
         pattern: "*.{html,txt}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@phue"

modules/blast/blastn/meta.yml

@@ -31,9 +31,9 @@ output:
         type: file
         description: File containing blastn hits
         pattern: "*.{blastn.txt}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@joseespinosa"

modules/blast/makeblastdb/meta.yml

@@ -21,9 +21,9 @@ output:
           type: directory
           description: Output directory containing blast database files
           pattern: "*"
-    - version:
+    - versions:
           type: file
-          description: File containing software version
+          description: File containing software versions
           pattern: "versions.yml"
 authors:
     - "@joseespinosa"

modules/bowtie/align/meta.yml

@@ -33,9 +33,9 @@ output:
           type: file
           description: Output BAM file containing read alignments
           pattern: "*.{bam}"
-    - version:
+    - versions:
           type: file
-          description: File containing software version
+          description: File containing software versions
           pattern: "versions.yml"
     - fastq:
           type: file

modules/bowtie/build/meta.yml

@@ -22,9 +22,9 @@ output:
           type: file
           description: Bowtie genome index files
           pattern: "*.ebwt"
-    - version:
+    - versions:
           type: file
-          description: File containing software version
+          description: File containing software versions
           pattern: "versions.yml"
 authors:
     - "@kevinmenden"

modules/bowtie2/align/meta.yml

@@ -33,9 +33,9 @@ output:
           type: file
           description: Output BAM file containing read alignments
           pattern: "*.{bam}"
-    - version:
+    - versions:
           type: file
-          description: File containing software version
+          description: File containing software versions
           pattern: "versions.yml"
     - fastq:
           type: file

modules/bowtie2/build/meta.yml

@@ -23,9 +23,9 @@ output:
           type: file
           description: Bowtie2 genome index files
           pattern: "*.bt2"
-    - version:
+    - versions:
           type: file
-          description: File containing software version
+          description: File containing software versions
           pattern: "versions.yml"
 authors:
     - "@joseespinosa"

modules/bwa/aln/meta.yml

@@ -41,9 +41,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - sai:
       type: file

modules/bwa/index/meta.yml

@@ -22,9 +22,9 @@ output:
         type: file
         description: BWA genome index files
         pattern: "*.{amb,ann,bwt,pac,sa}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@drpatelh"

modules/bwa/mem/meta.yml

@@ -36,9 +36,9 @@ output:
         type: file
         description: Output BAM file containing read alignments
         pattern: "*.{bam}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@drpatelh"

modules/bwa/sampe/meta.yml

@@ -45,9 +45,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - bam:
       type: file

modules/bwa/samse/meta.yml

@@ -46,9 +46,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - bam:
       type: file

modules/bwamem2/index/meta.yml

@@ -21,9 +21,9 @@ output:
         type: file
         description: BWA genome index files
         pattern: "*.{0132,amb,ann,bwt.2bit.64,pac}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@maxulysse"

modules/bwamem2/mem/meta.yml

@@ -36,9 +36,9 @@ output:
         type: file
         description: Output BAM file containing read alignments
         pattern: "*.{bam}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@maxulysse"

modules/bwameth/align/meta.yml

@@ -43,9 +43,9 @@ output:
         type: file
         description: Output BAM file containing read alignments
         pattern: "*.{bam}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@phue"

modules/bwameth/index/meta.yml

@@ -24,9 +24,9 @@ output:
         type: dir
         description: Directory containing bwameth genome index
         pattern: "index"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@phue"

modules/cat/cat/meta.yml

@@ -21,9 +21,9 @@ input:
       description: Full name of output file with or without .gz extension
 
 output:
-  - version:
+  - versions:
       type: file
-      description: File containing version of the pigz software
+      description: File containing software versions
       pattern: "versions.yml"
   - file_out:
       type: file

modules/cat/fastq/meta.yml

@@ -28,6 +28,11 @@ output:
         type: file
         description: Merged fastq file
         pattern: "*.{merged.fastq.gz}"
+    - versions:
+        type: file
+        description: File containing software versions
+        pattern: "versions.yml"
+
 authors:
     - "@joseespinosa"
     - "@drpatelh"

modules/chromap/chromap/meta.yml

@@ -63,9 +63,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - bed:
       type: file

modules/chromap/index/meta.yml

@@ -20,9 +20,9 @@ input:
       description: Fasta reference file.
 
 output:
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - index:
       type: file

modules/cnvkit/meta.yml

@@ -75,9 +75,9 @@ output:
       type: file
       description: File containing copy number segment information
       pattern: "*.{cns}"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 authors:
     - "@kaurravneet4123"

modules/cooler/digest/meta.yml

@@ -26,9 +26,9 @@ input:
       documentation: http://biopython.org/DIST/docs/cookbook/Restriction.html
 
 output:
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - bed:
       type: file

modules/cooler/dump/meta.yml

@@ -28,9 +28,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - bedpe:
       type: file

modules/custom/dumpsoftwareversions/meta.yml

@@ -24,9 +24,9 @@ output:
       type: file
       description: MultiQC custom content YML file containing software versions
       pattern: "software_versions_mqc.yml"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 
 authors:

modules/cutadapt/meta.yml

@@ -36,9 +36,9 @@ output:
       type: file
       description: cuatadapt log file
       pattern: "*cutadapt.log"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 authors:
   - "@drpatelh"

modules/damageprofiler/meta.yml

@@ -40,9 +40,9 @@ input:
       pattern: "*.{fai}"
 
 output:
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - results:
       type: dir

modules/deeptools/computematrix/meta.yml

@@ -46,9 +46,9 @@ output:
       description: |
         tabular file containing the scores of the generated matrix
       pattern: "*.{computeMatrix.vals.mat.tab}"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 
 authors:

modules/deeptools/plotfingerprint/meta.yml

@@ -50,9 +50,9 @@ output:
       description: |
         file containing BAM file quality metrics
       pattern: "*.{qcmetrics.txt}"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 
 authors:

modules/deeptools/plotheatmap/meta.yml

@@ -44,9 +44,9 @@ output:
         File containing the matrix of values
         used to generate the heatmap
       pattern: "*.{plotHeatmap.mat.tab}"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 
 authors:

modules/deeptools/plotprofile/meta.yml

@@ -44,9 +44,9 @@ output:
         File containing the matrix of values
         used to generate the profile
       pattern: "*.{plotProfile.mat.tab}"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 
 authors:

modules/delly/call/meta.yml

@@ -38,9 +38,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - bcf:
       type: file

modules/diamond/blastp/meta.yml

@@ -34,9 +34,9 @@ output:
         type: file
         description: File containing blastp hits
         pattern: "*.{blastp.txt}"
-  - version:
+  - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 
 authors:

modules/diamond/blastx/meta.yml

@@ -34,9 +34,9 @@ output:
         type: file
         description: File containing blastx hits
         pattern: "*.{blastx.txt}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 
 authors:

modules/diamond/makedb/meta.yml

@@ -25,9 +25,9 @@ output:
       type: file
       description: File of the indexed DIAMOND database
       pattern: "*.{dmnd}"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 
 authors:

modules/dragonflye/meta.yml

@@ -28,9 +28,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - contigs:
       type: file

modules/dshbio/exportsegments/meta.yml

@@ -32,9 +32,9 @@ output:
         type: file
         description: Assembly segment sequences in FASTA format
         pattern: "*.{fa}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@heuermh"

modules/dshbio/filterbed/meta.yml

@@ -30,9 +30,9 @@ output:
         type: file
         description: Features in gzipped BED format
         pattern: "*.{bed.gz}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@heuermh"

modules/dshbio/filtergff3/meta.yml

@@ -30,9 +30,9 @@ output:
         type: file
         description: Features in gzipped GFF3 format
         pattern: "*.{gff3.gz}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@heuermh"

modules/dshbio/splitbed/meta.yml

@@ -30,9 +30,9 @@ output:
         type: file
         description: Features in split gzipped BED formatted files
         pattern: "*.{bed.gz}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@heuermh"

modules/dshbio/splitgff3/meta.yml

@@ -30,9 +30,9 @@ output:
         type: file
         description: Features in split gzipped GFF3 formatted files
         pattern: "*.{gff3.gz}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@heuermh"

modules/ensemblvep/meta.yml

@@ -56,9 +56,9 @@ output:
         type: file
         description: VEP report file
         pattern: "*.html"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@maxulysse"

modules/expansionhunter/meta.yml

@@ -37,9 +37,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', gender:'female' ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - vcf:
       type: file

modules/fastani/meta.yml

@@ -35,9 +35,9 @@ output:
       type: file
       description: Results of the query
       pattern: "*.ani.txt"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 authors:
   - "@abhi18av"

modules/fastp/meta.yml

@@ -44,9 +44,9 @@ output:
       type: file
       description: fastq log file
       pattern: "*.log"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - reads_fail:
       type: file

modules/fastqc/meta.yml

@@ -40,9 +40,9 @@ output:
         type: file
         description: FastQC report archive
         pattern: "*_{fastqc.zip}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@drpatelh"

modules/fasttree/meta.yml

@@ -19,9 +19,9 @@ input:
       pattern: "*.{fasta,fas,fa,mfa}"
 
 output:
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - phylogeny:
       type: file

modules/fgbio/callmolecularconsensusreads/meta.yml

@@ -36,9 +36,9 @@ output:
         description: |
           Output SAM or BAM file to write consensus reads.
         pattern: "*.{bam,sam}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 
 authors:

modules/fgbio/sortbam/meta.yml

@@ -34,9 +34,9 @@ output:
         description: |
           Output SAM or BAM file.
         pattern: "*.{bam,sam}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 
 authors:

modules/flash/meta.yml

@@ -35,9 +35,9 @@ output:
       type: file
       description: The merged fastq reads
       pattern: "*fastq.gz"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 
 authors:

modules/gatk4/applybqsr/meta.yml

@@ -45,9 +45,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - bam:
       type: file

modules/gatk4/baserecalibrator/meta.yml

@@ -45,9 +45,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - table:
       type: file

modules/gatk4/bedtointervallist/meta.yml

@@ -31,9 +31,9 @@ output:
       type: file
       description: gatk interval list file
       pattern: "*.interval_list"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 authors:
   - "@kevinmenden"

modules/gatk4/createsequencedictionary/meta.yml

@@ -22,9 +22,9 @@ output:
         type: file
         description: gatk dictionary file
         pattern: "*.{dict}"
-    - version:
+    - versions:
         type: file
-        description: File containing software version
+        description: File containing software versions
         pattern: "versions.yml"
 authors:
     - "@maxulysse"

modules/gatk4/fastqtosam/meta.yml

@@ -34,9 +34,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - bam:
       type: file

modules/gatk4/getpileupsummaries/meta.yml

@@ -48,9 +48,9 @@ output:
       type: file
       description: File containing the pileup summary table.
       pattern: "*.pileups.table"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 
 authors:

modules/gatk4/haplotypecaller/meta.yml

@@ -46,9 +46,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - vcf:
       type: file

modules/gatk4/intervallisttools/meta.yml

@@ -33,9 +33,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - interval_list:
       type: file

modules/gatk4/markduplicates/meta.yml

@@ -32,9 +32,9 @@ output:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
   - bam:
       type: file

modules/gatk4/mergebamalignment/meta.yml

@@ -37,9 +37,9 @@ output:
       type: file
       description: The merged bam file
       pattern: "*.bam"
-  - version:
+  - versions:
       type: file
-      description: File containing software version
+      description: File containing software versions
       pattern: "versions.yml"
 authors:
   - "@kevinmenden"