diff options
| -rw-r--r-- | scripts/import.cwl | 8 | ||||
| -rw-r--r-- | scripts/import_to_arvados.py | 1 |
2 files changed, 8 insertions, 1 deletions
diff --git a/scripts/import.cwl b/scripts/import.cwl index 81752c8..d84516b 100644 --- a/scripts/import.cwl +++ b/scripts/import.cwl @@ -14,6 +14,12 @@ inputs: class: File location: from_genbank_to_fasta_and_yaml.py inputBinding: {position: 2} + dict: + type: Directory + default: + class: Directory + location: dict_ontology_standardization + inputBinding: {position: 3} outputs: [] requirements: DockerRequirement: @@ -21,4 +27,4 @@ requirements: NetworkAccess: networkAccess: true WorkReuse: - workReuse: false + enableReuse: false diff --git a/scripts/import_to_arvados.py b/scripts/import_to_arvados.py index 07b7d71..78cd13d 100644 --- a/scripts/import_to_arvados.py +++ b/scripts/import_to_arvados.py @@ -4,6 +4,7 @@ import glob import sys os.chdir(os.environ["TMPDIR"]) +os.symlink(sys.argv[2], "dict_ontology_standardization") subprocess.run(sys.argv[1]) os.chdir("fasta_and_yaml") |