Parameter for outside calls in pharmcat_pipeline

[MarioCazalla]

• Do you want to request a feature or report a bug?

Which is the parameter for add outside calls if I using the pharmcat_pipeline?

• What is the current behavior?

• If the current behavior is a bug, please provide the steps to reproduce and, if possible, your example input data via a Gist or similar.

• What is the expected behavior?

• What is the motivation / use case for changing the behavior?

• Please tell us about your environment:

  • PharmCAT Version: 2.7.0
  • JDK Version: 17
  • Environment: Ubuntu

• Other information (e.g. detailed explanation, stacktraces, related issues, suggestions how to fix, links for us to have context, e.g. stackoverflow, gitter, etc.)

[markwoon]

See the "Outside Calls" section in the docs: https://pharmcat.org/using/Running-PharmCAT-Pipeline/#outside-calls

There is no parameter. You just name the file correctly and it will be used.