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GUDMAP_RBK
RNA-seq
Merge requests
!35

Ci

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Merged Ci

ci into develop

Overview 1
Commits 35
Pipelines 1
Changes 4

Merged Gervaise Henry requested to merge ci into develop 4 years ago

Overview 1
Commits 35
Pipelines 1
Changes 4

Add and improve CI

PR checklist

This comment contains a description of changes (with reason)
If you've fixed a bug or added code that should be tested, add tests!
Documentation in docs is updated
Replace dag.png with the most recent CI pipleine integrated_pe artifact
CHANGELOG.md is updated
README.md is updated
LICENSE.md is updated with new contributors
Docker images moved to production release and changed in pipeline
Docker images used in the CI unit tests match those used in pipleine

Close issue
Closes #27 (closed) Closes #48 (closed) Closes #54 (closed)

/cc @ghenry @venkat.malladi

Edited 4 years ago by Gervaise Henry

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2

2 Participants

Jul 31, 2020
- Fix consistency module #27 · 4539dba1
  Gervaise Henry authored 4 years ago
  
  4539dba1
- Move expected assigned into ci.yml #27 · b247d7e4
  Gervaise Henry authored 4 years ago
  
  b247d7e4
- Add consistency tests #27 · 3f55fde3
  Gervaise Henry authored 4 years ago
  
  3f55fde3
- Add -q nextflow flag in ci to test (needs to run code after nextflow) · a0c9fde5
  Gervaise Henry authored 4 years ago
  
  a0c9fde5
- Remove -bg nextflow flag in ci to test · b272565d
  Gervaise Henry authored 4 years ago
  
  b272565d
Jul 30, 2020
- Remove cache dependencies #27 · e76f7aff
  Gervaise Henry authored 4 years ago
  
  e76f7aff
- Fix cache dependencies #27 · b1e53c7d
  Gervaise Henry authored 4 years ago
  
  b1e53c7d
- Setup dummy se conssistency test with cache dependencies · ecc08451
  Gervaise Henry authored 4 years ago
  
  ecc08451
- Add qc outputs from integration tests for consistency tests #27 · 33fd5b4c
  Gervaise Henry authored 4 years ago
  
  33fd5b4c
- Test for pytest for parseMetadata: remove unnecessary print #54 · d7b38e88
  Gervaise Henry authored 4 years ago
  
  d7b38e88
- Test for pytest for parseMetadata: pass+fail test worked... #54 · ea7ca4ad
  Gervaise Henry authored 4 years ago
  
  ea7ca4ad
- Test for pytest for parseMetadata: supposed to fail #54 · f57f9950
  Gervaise Henry authored 4 years ago
  
  f57f9950
- Test for pytest for parseMetadata: supposed to pass #54 · 6fe96e00
  Gervaise Henry authored 4 years ago
  
  6fe96e00
- Test for pytest for parseMetadata: supposed to pass #54 · 22fbaf52
  Gervaise Henry authored 4 years ago
  
  22fbaf52
- Test for pytest for parseMetadata: force pass #54 · 729ee825
  Gervaise Henry authored 4 years ago
  
  729ee825
- Test for pytest for parseMetadata: force pass #54 · 50df04d1
  Gervaise Henry authored 4 years ago
  
  50df04d1
- Test for pytest for parseMetadata: supposed to pass #54 · 32f281b4
  Gervaise Henry authored 4 years ago
  
  32f281b4
- Test for pytest for parseMetadata: supposed to pass #54 · 7179e4ed
  Gervaise Henry authored 4 years ago
  
  7179e4ed
- Edit dataQC pytest: should fail #48 · e8780f74
  Gervaise Henry authored 4 years ago
  
  e8780f74
- Edit dataQC pytest: should pass #48 · 979e6af4
  Gervaise Henry authored 4 years ago
  
  979e6af4
- Test for pytest for parseMetadata: supposed to pass #54 · 042e9177
  Gervaise Henry authored 4 years ago
  
  042e9177
- Print output of parseMetadata pytest read · fe544976
  Gervaise Henry authored 4 years ago
  
  fe544976
- Print output of parseMetadata pytest read · 95aa209b
  Gervaise Henry authored 4 years ago
  
  95aa209b
- Test for pytest for parseMetadata: supposed to pass #54 · 58415f1c
  Gervaise Henry authored 4 years ago
  
  58415f1c
- Test for pytest for parseMetadata: supposed to pass #54 · dbb02aae
  Gervaise Henry authored 4 years ago
  
  dbb02aae
- Test for pytest for parseMetadata: supposed to pass #54 · 390a9b5d
  Gervaise Henry authored 4 years ago
  
  390a9b5d
- Test for pytest for parseMetadata: supposed to pass #54 · e4b4d6f5
  Gervaise Henry authored 4 years ago
  
  e4b4d6f5
- Test for pytest for parseMetadata: supposed to pass #54 · b7cceb94
  Gervaise Henry authored 4 years ago
  
  b7cceb94
- Test for pytest for parseMetadata: supposed to pass #54 · 0ab26d0d
  Gervaise Henry authored 4 years ago
  
  0ab26d0d
- Fail test for pytest for parseMetadata passed, test pass #54 · 2630f906
  Gervaise Henry authored 4 years ago
  
  2630f906
- Fix pytest for parseMetadata: expect fail #54 · eddf3c14
  Gervaise Henry authored 4 years ago
  
  eddf3c14
- Add pytest for parseMetadata: expect fail #54 · 5c4e2529
  Gervaise Henry authored 4 years ago
  
  5c4e2529
- Fix dataQC unit test: addition worked #48 · b702f897
  Gervaise Henry authored 4 years ago
  
  b702f897
- Test unit test addition for #48 · 419fa8c6
  Gervaise Henry authored 4 years ago
  
  419fa8c6
- Add initial trial for dataQC unit improvement #48 · 6ed76f56
  Gervaise Henry authored 4 years ago
  
  6ed76f56