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Ran 17 Jun 2024 02:43PM UTC

Files 564

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Committed 17 Jun 2024 02:41PM UTC coverage: 84.635% (-0.03%) from 84.665%

Job # 9549735473.1

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push

github

Committed by

web-flow

Commit Message

add storage to housekeeper function in Illumina service (#3325)(patch)

## Description
Closes https://github.com/Clinical-Genomics/add-new-tech/issues/24.
Implement storage of Illumina demultiplexing files (fastq files, demux logs, and run parameters files) in the Illumina post-processing service.

The function from the old post-processing was copied and pasted to the new flow, considering that the old function will be removed. The intermediate functions used to handle the HK API defined in `cg/meta/demultiplex/housekeeper_storage_functions.py` were not moved to a new utils module, this is left for another PR where a better refactoring is done to these methods.


### Added

- Method `store_illumina_data_in_housekeeper` in `IlluminaPostProcessingService`.

### Changed

- Renamed method `store_illumina_flow_cell_data` to ` store_illumina_data_in_status_db` for clarity

Run Details

20551 of 24282 relevant lines covered (84.63%)

0.85 hits per line

Clinical-Genomics / cg / 9549735473 / 1
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master: 86%

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master: 86%

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