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Describe the bug When running ngs_data_qc only with fastqc then pydantic throws an error which is related to Picard settings.
To Reproduce Steps to reproduce the behavior:
step_config: ngs_data_qc: tools: [fastqc] fastqc: {}
snappy-snake -nrp
Expected behavior No error should be thrown and fastqc should be able to run.
Additional context In init.py Picard needs to be defined independent of the configuration file. A quick workaround is a change in the config:
ngs_data_qc: tools: [fastqc] picard: programs: - CollectAlignmentSummaryMetrics fastqc: {}
The text was updated successfully, but these errors were encountered:
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Describe the bug
When running ngs_data_qc only with fastqc then pydantic throws an error which is related to Picard settings.
To Reproduce
Steps to reproduce the behavior:
snappy-snake -nrp
Expected behavior
No error should be thrown and fastqc should be able to run.
Additional context
In init.py Picard needs to be defined independent of the configuration file. A quick workaround is a change in the config:
The text was updated successfully, but these errors were encountered: