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Ran 31 Jul 2025 08:49AM UTC

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Committed 31 Jul 2025 08:46AM UTC coverage: 85.809% (+0.05%) from 85.764%

Job # 16644338343.1

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push

github

Committed by

web-flow

Commit Message

DEV - Start Taxprofiler analyses using pipeline integration flow (#4509)(patch)

## Description
Development branch for integrating Taxprofiler to the new AnalysisStarter flow
To be merged with https://github.com/Clinical-Genomics/servers/pull/1676

### Added

- Class TaxprofilerParamsFileCreator
- Base model TaxprofilerParameters inheriting from WorkflowParameters (empty as no extra parameters are needed)
- Taxprofiler to configurator factory and to analysis starter factory
- Dev cli commands:
  - dev_config_case
  - dev_run
  - dev_start
  - dev_start_available
- Tests for new cli commands

### Changed

- Move the constructor from the child classes to the parent ParamsFileCreator. This constructor receives only the servers params file path. Override only in raredisease as it needs store and LIMS

### Fixed

- Enhance tests and fixtures of analysis start workflow

Co-authored-by: Linnéa Löfdahl <linnea.lofdahl@scilifelab.se>

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