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Add CI tests to test running a pipeline when it's created from a template #2334

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Merged
mirpedrol merged 28 commits into from
Jun 26, 2023
Merged

Add CI tests to test running a pipeline when it's created from a template #2334

mirpedrol merged 28 commits into from
Jun 26, 2023

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@mirpedrol
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@mirpedrol mirpedrol commented Jun 21, 2023

This is a test to see if it's viable to add CI tests for all possible templates:

  • unbranded pipelines
  • skip ci + github_badges + igenomes + nf_core_configs (github can't be skipped as it's run in GHA)
  • skip ci
  • skip github_badges
  • skip igenomes
  • skip nf_core_configs

➕ We could also add the same for linting.
👁️ This will make sure that bugs as the ones found recently (#2332 and #2333) are not repeated.
⚠️ It will take considerably more time and Github runners, so needs to be discussed before merging.

PR checklist

  • This comment contains a description of changes (with reason)
  • CHANGELOG.md is updated
  • If you've fixed a bug or added code that should be tested, add tests!
  • Documentation in docs is updated

mashehu
mashehu reviewed Jun 21, 2023
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What speaks against adding this test to create-test-wf.yml instead of having it in a separate file?

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mirpedrol commented Jun 21, 2023

What speaks against adding this test to create-test-wf.yml instead of having it in a separate file?

Can do both, I just found it more organized in a different file

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codecov bot commented Jun 21, 2023 •
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Codecov Report

Merging #2334 (18a76e8) into dev (4f32c07) will increase coverage by 0.00%.
The diff coverage is 83.33%.

@@           Coverage Diff           @@
##              dev    #2334   +/-   ##
=======================================
  Coverage   73.08%   73.08%           
=======================================
  Files          78       78           
  Lines        8779     8784    +5     
=======================================
+ Hits         6416     6420    +4     
- Misses       2363     2364    +1
Impacted Files Coverage Δ
nf_core/create.py 83.27% <83.33%> (-0.07%) ⬇️

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mirpedrol commented Jun 21, 2023

Actually, because these pipelines created from a template are unbranded, the pipeline prefix is different, so I think it's easier to have two separate files

@mirpedrol mirpedrol changed the title Add CI tests to test running a pipeline whe it's created from a templ… Add CI tests to test running a pipeline when it's created from a template Jun 22, 2023
mashehu
mashehu reviewed Jun 22, 2023
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should also only run if the pipeline template was actually changed:

on:
  push:
    paths:
      - nf_core/pipeline-template/**

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mirpedrol commented Jun 23, 2023

Everything working now! 🥳

@mirpedrol mirpedrol merged commit b5eb200 into nf-core:dev Jun 26, 2023
@mirpedrol mirpedrol deleted the different-template-tests branch June 26, 2023 07:08
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@mirpedrol @mashehu @drpatelh