Former User of DNAx Community_98

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• How can I verify that a WDL workflow previously compiled with dxCompiler was compiled with the -streamFiles flag?

  I don't see any indication of streaming when I run `dx describe --verbose --json ` or `dx describe --verbose --json `, and I want to make sure that this worked. I was expecting to see something, p...

  • 14 March 2023 00:00
  • 2 followers
  • 3 comments
  • 0 votes

• How do I call the table_exporter applet from my WDL?

  I've tried running dxcomplier dxni as described here dxCompiler/ExpertOptions.md at develop · dnanexus/dxCompiler (github.com) but table-exporter isn't in my project (it's vended by DNAnexus) and I...

  • 19 January 2023 00:00
  • 1 follower
  • 2 comments
  • 0 votes

• I would like to access phenotype data from within a WDL task using a python script. How do I localize the database file as an input to the task? I'm getting a wrong type error.

  I'd like to do something similar to this jupyter notebook https://github.com/dnanexus/OpenBio/blob/master/UKB_notebooks/ukb-rap-pheno-basic.ipynb , but in a python script that is executed in a WDL ...

  • 17 January 2023 00:00
  • 3 followers
  • 3 comments
  • 0 votes