diff options
| author | Peter Amstutz | 2020-04-20 13:41:56 -0400 |
|---|---|---|
| committer | Peter Amstutz | 2020-04-20 13:41:56 -0400 |
| commit | d29dfd593233541b85c1cefb239650279d57d59f (patch) | |
| tree | 51fa615a05a2606021bdf8c537ad8b36ae4e0a8c /workflows/pangenome-generate/pangenome-generate.cwl | |
| parent | d781e42c9adac07253cb928ae66e9b7314710267 (diff) | |
| download | bh20-seq-resource-d29dfd593233541b85c1cefb239650279d57d59f.tar.gz bh20-seq-resource-d29dfd593233541b85c1cefb239650279d57d59f.tar.lz bh20-seq-resource-d29dfd593233541b85c1cefb239650279d57d59f.zip | |
Relabel sequences to match metadata subjects.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Diffstat (limited to 'workflows/pangenome-generate/pangenome-generate.cwl')
| -rw-r--r-- | workflows/pangenome-generate/pangenome-generate.cwl | 12 |
1 files changed, 11 insertions, 1 deletions
diff --git a/workflows/pangenome-generate/pangenome-generate.cwl b/workflows/pangenome-generate/pangenome-generate.cwl index 2710743..896f936 100644 --- a/workflows/pangenome-generate/pangenome-generate.cwl +++ b/workflows/pangenome-generate/pangenome-generate.cwl @@ -22,8 +22,18 @@ outputs: type: File outputSource: mergeMetadata/merged steps: + relabel: + in: + readsFA: inputReads + subjects: subjects + out: [relabeledSeqs] + run: relabel-seqs.cwl + common: + in: {readsFA: relabel/relabeledSeqs} + out: [duplicatedReads] + run: seqkit-common.cwl dedup: - in: {readsFA: inputReads} + in: {readsFA: relabel/relabeledSeqs} out: [readsMergeDedup] run: seqkit-rmdup.cwl overlapReads: |