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NationalGenomicsInfrastructure / TACA

Tool for the Automation of Cleanup and Analyses: tools for projects and data management at NGI Stockholm
MIT License
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Organising flowcell data on Miarka #444

Open ssjunnebo opened 3 days ago

ssjunnebo commented 3 days ago

Organising flowcell data in incoming on Miarka. Running taca organise -p PID FC1,FC2... should:

  1. recognise flowcell type (illumina/nanopore/element)
  2. create the destination project folder if it does not exist (DATA/PID or ONT_TAR/PID)
  3. For ONT: tarball the data into the dest folder and calculate md5sum
  4. For Illumina/element: symlink files in the required structure into the dest folder
codecov-commenter commented 3 days ago

Codecov Report

Attention: Patch coverage is 0% with 59 lines in your changes missing coverage. Please review.

Please upload report for BASE (master@43b763b). Learn more about missing BASE report.

Files with missing lines Patch % Lines
taca/organise/flowcells.py 0.00% 32 Missing :warning:
taca/organise/organise.py 0.00% 18 Missing :warning:
taca/organise/cli.py 0.00% 9 Missing :warning:
Additional details and impacted files ```diff @@ Coverage Diff @@ ## master #444 +/- ## ========================================= Coverage ? 28.42% ========================================= Files ? 34 Lines ? 5017 Branches ? 0 ========================================= Hits ? 1426 Misses ? 3591 Partials ? 0 ```

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