Clinical-Genomics / cg / 16341662980

77%

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

25 of 25 new or added lines in 7 files covered. (100.0%)

7 existing lines in 2 files now uncovered.

27737 of 32359 relevant lines covered (85.72%)

0.86 hits per line