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Clinical-Genomics / cg / 16194438980
86%

Build:
DEFAULT BRANCH: master
Ran 10 Jul 2025 12:00PM UTC
Jobs 1
Files 873
Run time 4min
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10 Jul 2025 11:56AM UTC coverage: 85.723% (+11.2%) from 74.499%
16194438980

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Add RNAFusion to Pipeline Implementation (#4483)(minor)

### Added

- dev-run CLI command
- dev-start CLI command
- dev-start-available CLI command
- dev-config-case CLI command
- RNAFusionSampleSheetCreator
- RNAFusionParamsFileCreator

- 

### Changed

- Refactored the SampleSheetCreator parent class to have more functionality

Co-authored-by: Isak Ohlsson Ångnell <40887124+islean@users.noreply.github.com>
Co-authored-by: Sebastian Diaz <juan.sebastian.diaz.boada@scilifelab.se>

194 of 203 new or added lines in 17 files covered. (95.57%)

9 existing lines in 4 files now uncovered.

27734 of 32353 relevant lines covered (85.72%)

0.86 hits per line

New Missed Lines in Diff

Lines Coverage ∆ File
1
84.21
6.43% cg/services/analysis_starter/configurator/configurator.py
1
98.08
0.08% cg/services/analysis_starter/configurator/implementations/nextflow.py
1
94.67
-1.28% cg/services/analysis_starter/tracker/tracker.py
2
96.3
cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/creator.py
4
93.65
-6.35% cg/cli/workflow/rnafusion/base.py

Uncovered Existing Lines

Lines Coverage ∆ File
2
81.82
-18.18% cg/services/analysis_starter/configurator/extensions/raredisease.py
2
93.22
-3.55% cg/services/analysis_starter/configurator/file_creators/nextflow/params_file/raredisease.py
2
94.98
-0.33% cg/store/crud/read.py
3
84.21
-15.79% cg/services/analysis_starter/configurator/file_creators/nextflow/managed_variants.py
Jobs
ID Job ID Ran Files Coverage
1 16194438980.1 10 Jul 2025 12:00PM UTC 873
85.72
GitHub Action Run
Source Files on build 16194438980
  • Tree
  • List 873
  • Changed 22
  • Source Changed 0
  • Coverage Changed 22
Coverage ∆ File Lines Relevant Covered Missed Hits/Line
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