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theiagen / public_health_bioinformatics

Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health concern.
GNU General Public License v3.0
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Freyja_FASTQ_PHB doesn't allow additional arguments #350

Closed michellescribner closed 3 months ago

michellescribner commented 4 months ago

:cool:

:pushpin: Explain the Request

The Freyja_FASTQ_PHB workflow doesn't have an optional input attribute that could be used to add additional input parameters.

:books: Context

This was noted when I needed to use the --depthcutoff flag to resolve a error that was preventing successful analysis of a sample. For more details, see this issue: https://github.com/andersen-lab/Freyja/issues/208

:chart_with_upwards_trend: Desired Behavior

Either add the --depthcutoff input explicitly or a generic optional inputs input

:information_source: Additional Information