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parseDarwinSamplesheets script should scan the GAVIN folder for variants too #19

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RoanKanninga opened this issue Sep 8, 2021 · 0 comments

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RoanKanninga commented Sep 8, 2021 •

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it now only checks whether there is data in this folder: results/variants.

solution:
check also in results/variants/GAVIN/

Possible problems:
ConcordanceCheck script is cutting of .final.vcf.gz to come to a sampleID, GAVIN files are having a GAVIN.rlv.vcf.gz extension

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