Validate read files against sample input file

AusARG / pipesnake

ausarg/pipesnake is a bioinformatics best-practice analysis pipeline for phylogenomic reconstruction starting from short-read 'second-generation' sequencing data.

MIT License

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Validate read files against sample input file #2

Closed IanGBrennan closed 8 months ago

IanGBrennan commented 10 months ago

Description of feature

An initial step that would check that all the files specified in the sample input sheet are in the input directory. This would save time by exiting runs that aren't properly configured.

IanGBrennan commented 8 months ago

double check that there are no duplicates in the 'lineage' designation of the sample input sheet, as this causes problems downstream.

ziadbkh commented 8 months ago

make sure the lineage column has unique values

ziadbkh commented 8 months ago

fixed with #bfa144b