https://github.com/mr-c/hive-cwl-examples
https://github.com/mr-c/hive-cwl-examples
biocompute-objects commonwl
Last synced: 4 months ago
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- Host: GitHub
- URL: https://github.com/mr-c/hive-cwl-examples
- Owner: mr-c
- License: apache-2.0
- Created: 2016-12-19T12:50:29.000Z (over 9 years ago)
- Default Branch: main
- Last Pushed: 2020-07-02T10:29:07.000Z (almost 6 years ago)
- Last Synced: 2025-07-19T16:47:40.303Z (11 months ago)
- Topics: biocompute-objects, commonwl
- Size: 15.6 KB
- Stars: 2
- Watchers: 3
- Forks: 3
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
Awesome Lists containing this project
README
Manual translation of
https://hive.biochemistry.gwu.edu/cgi-bin/prd/htscsrs//servlet.cgi?pageid=bcoexample_1
into CWL
Notes:
Not tested due to lack of source code
Things not translated, but could be added without breaking CWL compatibility
- usability_domain, could go in documentation or as a HIVE/biocompute specific
extension
- xref
- keywords
- publication_status
- modification_date, creation_date
- "verification"
- that this is a subtype of the "antiviral_resistance_detection[ICD:B17]",
could have been done via a Workflow that contains the other Workflow and
sets different defaults.
Questions about biocompute: what's the relationship between "pipeline" and the
"type" field in the biocompute object?
How does BioCompute model the flow of data between steps? (Or is that implicit
in the "script": "obj.123123"?)
What is the priority for defaults amongst the antiviral_resistance_detection typedef,
the biocompute object itself, and the referenced pipeline?
What is the meaning of the verfication_kit?