workspace.haplotype_database_b37

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Oliver Ruebenacker

• April 06, 2022 19:23

Hello,

I'm trying to run a clone of this workflow configuration:
https://app.terra.bio/#workspaces/help-gatk/GATK4-Germline-Preprocessing-VariantCalling-JointCalling/workflows/help-gatk/2-4-JointGenotyping-B37

but it complains that input workspace.haplotype_database_b37 (for variable haplotype_database) evaluates to an empty set.

I already imported reference data b37Human, but it does not include anything called haplotype_database_b37 or similar. What should I do?

This is GATK 4.2.4.0

Thanks!

Best, Oliver

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  Pamela Bretscher

  • April 07, 2022 18:24

  Hi Oliver Ruebenacker,

  It looks like the "haplotype_database_b37 file that you're looking for is present on the "Workspace Data" tab of this workspace rather than within the b37Human reference data (see screenshot). I believe you will need to also import this file to your cloned workspace. Please let me know if this is helpful.

  Kind regards,

  Pamela

  

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