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Clinical-Genomics / cg / 15907280448
86%

Build:
DEFAULT BRANCH: master
Ran 26 Jun 2025 04:28PM UTC
Jobs 1
Files 870
Run time 2min
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26 Jun 2025 04:25PM UTC coverage: 85.7% (+0.007%) from 85.693%
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fix completed at before started at in analysis table (#4455)(major)

## Description
Part of #4454 
### Summary of changes
1. Makes the fetching of Housekeeper versions for each analysis (in upload and generation of delivery reports) dependent on the version entry id instead of the equality between `analysis.completed_at` date and version date. 
2. Makes the analysis `completed_at` date be `datetime.now()` when called through the `cg workflow store` command, and not dependent on the deliverables file timestamp.

### Added

- Main method to get versions in the `HousekeeperAPI` gets version entry id as parameter, not bundle name and date
- Remove optional parameter `analysis_completed_at` from `generate_delivery_report` CLI command

### Changed

- Make the `AnalysisAPI.create_housekeeper_bundle` method return a tuple of Housekeeper bundle and version (instead of returning None)
- Make several delivery report API methods receive for parameter an Analysis object instead of the `analysis.completed_at date`

### Fixed

- Cleans unused functions and tests

54 of 60 new or added lines in 14 files covered. (90.0%)

27675 of 32293 relevant lines covered (85.7%)

0.86 hits per line

New Missed Lines in Diff

Lines Coverage ∆ File
1
91.74
0.03% cg/store/models.py
2
52.63
0.0% cg/cli/upload/coverage.py
3
86.59
-1.07% cg/meta/observations/observations_api.py
Jobs
ID Job ID Ran Files Coverage
1 15907280448.1 26 Jun 2025 04:28PM UTC 870
85.7
GitHub Action Run
Source Files on build 15907280448
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  • List 870
  • Changed 16
  • Source Changed 0
  • Coverage Changed 16
Coverage ∆ File Lines Relevant Covered Missed Hits/Line
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