Collision error when passing input as the output in toil-cwl-runner

DataBiosphere / toil

A scalable, efficient, cross-platform (Linux/macOS) and easy-to-use workflow engine in pure Python.

http://toil.ucsc-cgl.org/.

Apache License 2.0

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Closed stxue1 closed 3 weeks ago

stxue1 commented 1 month ago

See https://github.com/DataBiosphere/toil/issues/5099#issuecomment-2401780214 for a working example, omit --outdir when running with toil-cwl-runner

┆Issue is synchronized with this Jira Story ┆Issue Number: TOIL-1662