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| author | Peter Amstutz | 2020-04-20 14:57:25 -0400 |
|---|---|---|
| committer | Peter Amstutz | 2020-04-20 14:57:25 -0400 |
| commit | 9ddcfeacb3191638f42b08af999889d867f0f81c (patch) | |
| tree | 4cfe4c2b1df38bf6e5c79f5f8c0700407f76a472 /workflows/pangenome-generate/relabel-seqs.cwl | |
| parent | d29dfd593233541b85c1cefb239650279d57d59f (diff) | |
| download | bh20-seq-resource-9ddcfeacb3191638f42b08af999889d867f0f81c.tar.gz bh20-seq-resource-9ddcfeacb3191638f42b08af999889d867f0f81c.tar.lz bh20-seq-resource-9ddcfeacb3191638f42b08af999889d867f0f81c.zip | |
Better handling of duplicate sequences
Also save original fasta label in metadata
Diffstat (limited to 'workflows/pangenome-generate/relabel-seqs.cwl')
| -rw-r--r-- | workflows/pangenome-generate/relabel-seqs.cwl | 10 |
1 files changed, 8 insertions, 2 deletions
diff --git a/workflows/pangenome-generate/relabel-seqs.cwl b/workflows/pangenome-generate/relabel-seqs.cwl index b5b7231..2b780d4 100644 --- a/workflows/pangenome-generate/relabel-seqs.cwl +++ b/workflows/pangenome-generate/relabel-seqs.cwl @@ -5,7 +5,13 @@ inputs: subjects: string[] outputs: relabeledSeqs: - type: stdout + type: File + outputBinding: + glob: relabeledSeqs.fasta + originalLabels: + type: File + outputBinding: + glob: originalLabels.ttl requirements: InlineJavascriptRequirement: {} InitialWorkDirRequirement: @@ -15,5 +21,5 @@ requirements: hints: DockerRequirement: dockerPull: commonworkflowlanguage/cwltool_module -stdout: relabeledSeqs.fasta +stdout: baseCommand: [python, relabel-seqs.py] |