Clinical-Genomics / cg / 9549735473

86%

Build Type

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

114 of 150 new or added lines in 4 files covered. (76.0%)

1 existing line in 1 file now uncovered.

20551 of 24282 relevant lines covered (84.63%)

0.85 hits per line