Rule parameter depends on checkpoint but checkpoint output is not defined as input file for the rule

harvardinformatics / snpArcher

Snakemake workflow for highly parallel variant calling designed for ease-of-use in non-model organisms.

MIT License

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Rule parameter depends on checkpoint but checkpoint output is not defined as input file for the rule #66

Closed cademirch closed 1 year ago

cademirch commented 1 year ago

Getting this error running the ecoli test using Snakemake 7.3.6. Not sure why the github actions are not hitting this. Will push a fix to dev

WorkflowError:
Rule parameter depends on checkpoint but checkpoint output is not defined as input file for the rule. Please add the output of the respective checkpoint to the rule inputs.

cademirch commented 1 year ago

fixed in 9e3931523c2a1c96ab63549577c62a5db08a78f3