broadinstitute / viral-ngs

Viral genomics analysis pipelines
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WDL workflow: ensure numeric segment ordering for genbank feature tables in multi-segment genomes #885

Open tomkinsc opened 6 years ago

tomkinsc commented 6 years ago

kjsiddle reports an issue with the feature table annotation transfer in the WDL-based GenBank preparation workflow: "tbl files for multiple segment genomes are taken in numerical order which can cause an issue when genbank IDs for each segment are not ordered in a way that is numerically consistent with the canonical way of numbering segments. Example is from lassa where genbank ID for L segment (traditionally 1) was a higher number than S segment (traditionally 2)."