diff options
Diffstat (limited to 'workflows/pangenome-generate/seqkit-rmdup.cwl')
| -rw-r--r-- | workflows/pangenome-generate/seqkit-rmdup.cwl | 7 |
1 files changed, 6 insertions, 1 deletions
diff --git a/workflows/pangenome-generate/seqkit-rmdup.cwl b/workflows/pangenome-generate/seqkit-rmdup.cwl index d3626f5..071fa66 100644 --- a/workflows/pangenome-generate/seqkit-rmdup.cwl +++ b/workflows/pangenome-generate/seqkit-rmdup.cwl @@ -1,12 +1,16 @@ cwlVersion: v1.1 class: CommandLineTool inputs: - readsFA: File[] + readsFA: File outputs: readsMergeDedup: type: File outputBinding: glob: readsMergeDedup.fasta + dups: + type: File? + outputBinding: + glob: dups.txt requirements: InlineJavascriptRequirement: {} hints: @@ -28,5 +32,6 @@ baseCommand: seqkit arguments: [rmdup, --by-seq, --ignore-case, + --dup-num-file, dups.txt, -o, readsMergeDedup.fasta, $(inputs.readsFA)] |