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test config: taking too long to run the tests #75

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projectoriented opened this issue Jan 10, 2022 · 0 comments
Closed

test config: taking too long to run the tests #75

projectoriented opened this issue Jan 10, 2022 · 0 comments
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@ramprasadn
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enhancement Improvement for existing functionality
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raredisease

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@projectoriented
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projectoriented commented Jan 10, 2022 •
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Description of feature

As shown in the screenshot, it takes roughly 19 minutes to finish the test. I propose that we use the incubating stub feature: https://www.nextflow.io/docs/latest/process.html#stub for workflows that take a while e.g. call_snv_deepvariant.nf.

If we implement, it would involve adding the stub command in each of the processes in the above ^ subworkflow:

  1. deepvariant
  2. glnexus

image
@projectoriented projectoriented added the enhancement Improvement for existing functionality label Jan 10, 2022
@projectoriented projectoriented added this to To do for subworkflow/pipeline in raredisease via automation Jan 10, 2022
@projectoriented projectoriented moved this from To do for subworkflow/pipeline to Improve development/collab in raredisease Mar 10, 2022
@ramprasadn ramprasadn self-assigned this Apr 1, 2022
@ramprasadn ramprasadn moved this from Improve development/collab to In progress in raredisease Apr 1, 2022
@ramprasadn ramprasadn moved this from In progress to Done in raredisease Apr 1, 2022
@jemten jemten closed this as completed Apr 4, 2022
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raredisease
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