Register workflows in nextstrain-pathogen.yaml #41
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Depends on merge and release of nextstrain/cli#472
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Tested with Nextstrain CLI 10.3.0 $ nextstrain setup mumps@nextstrain-run-workflows
Setting up mumps@nextstrain-run-workflows…
Extracted 137 files and directories to '/Users/joverlee/.nextstrain/pathogens/mumps/nextstrain-run-workflows=NZSXQ5DTORZGC2LOFVZHK3RNO5XXE23GNRXXO4Y='.
Checking setup…
✔ yes: downloaded
✔ yes: contains nextstrain-pathogen.yaml
✔ yes: nextstrain-pathogen.yaml declares `nextstrain run` compatibility
✔ yes: `nextstrain run` workflow 'ingest' exists
✔ yes: `nextstrain run` workflow 'phylogenetic' exists
✔ yes: `nextstrain run` workflow 'nextclade' exists
Warning: No pathogen default version is configured and no implicit default is intuitable.
You can use mumps@nextstrain-run-workflows on an ad-hoc basis by specifying it
explicitly, e.g.:
nextstrain run mumps@nextstrain-run-workflows …
If you want to use mumps@nextstrain-run-workflows by default instead, re-run
this command with the --set-default option, e.g.:
nextstrain setup --set-default mumps@nextstrain-run-workflows
All good! Set up of mumps@nextstrain-run-workflows complete. |
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Description of proposed changes
Depends on merge and release of nextstrain/cli#472Requires Nextstrain CLI 10.3.0
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