🔧 return pipefail

[dmiller15]

Description

My attempt to clean up this tool and re-add the pipefail.

Type of change

Please delete options that are not relevant.

• New feature (non-breaking change which adds functionality)

How Has This Been Tested?

Please describe the tests that you ran to verify your changes. Provide instructions so we can reproduce. Please also list any relevant details for your test configuration

• https://cavatica.sbgenomics.com/u/kfdrc-harmonization/kf-reference-pipeline/tasks/9f1527b9-32d9-49c1-a9c4-d39ac0fb09e3
• https://cavatica.sbgenomics.com/u/kfdrc-harmonization/kf-reference-pipeline/tasks/c6b93ba2-54e7-486c-900a-e93ef735b7c9

Test Configuration:

• Environment:
• Test files:

Checklist:

• My code follows the style guidelines of this project
• I have performed a self-review of my own code
• I have commented my code, particularly in hard-to-understand areas
• I have made corresponding changes to the documentation
• My changes generate no new warnings
• I have added tests that prove my fix is effective or that my feature works
• New and existing unit tests pass locally with my changes
• Any dependent changes have been merged and published in downstream modules
• I have checked my code and corrected any misspellings
• I have committed any related changes to the PR

[migbro]

Much appreciated! Seems top be a hybrid of going back to having the single quote done within the js and putting the code in a shell script so that pipefail works properly. Thanks for helping to make this a more robust tool!