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Ran 17 Jul 2025 09:42AM UTC

Files 872

Run time 24s

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Committed 17 Jul 2025 09:39AM UTC coverage: 85.716% (-0.02%) from 85.738%

Job # 16341662980.1

Build Type

push

github

Committed by

web-flow

Commit Message

Replace RNAFUSION start, run and case config dev commands (#4503)(major)

## Description

Closes https://github.com/Clinical-Genomics/pipeline-integration/issues/2

Rename the RNAFUSION dev commands (`config-case`, `run`, `start` and `start-available`) to replace production CLI commands.

### Changed
- Removes `revision` as a CLI option for RNAFUSION and raredisease
- Removes `stub_run` from the analysis starting flow

### Fixed

- Remove tests for deprecated commands and unused RNAFUSION fixtures

Run Details

27737 of 32359 relevant lines covered (85.72%)

0.86 hits per line

Clinical-Genomics / cg / 16341662980 / 1
77%
master: 77%

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Clinical-Genomics / cg / 16341662980 / 1 77% master: 77%

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Markdown

Textile

RDoc

HTML

Rst

Source Files on job 16341662980.1

Clinical-Genomics / cg / 16341662980 / 1
77%
master: 77%

README BADGES
x