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CIDC-1507 tweak upload folder re Len #555

Merged
merged 2 commits into from
Oct 26, 2022
Merged

CIDC-1507 tweak upload folder re Len #555

merged 2 commits into from
Oct 26, 2022

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scvannost
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What

Change folder used for generating WES analysis upload templates

Why

Hi Stephen,
One thing I just saw about the ingestion sheets is that the Folder field is set to /mnt/ssd/wes/analysis, which would be correct if we were ingesting files locally. But with wes monitor we'll be ingesting wes data from the repro buckets. Could you change the script to autofill that field to: gs://repro_{trial}/WES_v3/{CIMAC ID for tmr}/analysis ?
That will help us out alot!
Regards,
Len

How

  • Convert str to function returning string
  • update test

Checklist

Please include and complete the following checklist. You can mark an item as complete with the - [x] prefix:

  • Tests - Added unit tests for new code, regression tests for bugs and updated the integration tests if required
  • Formatting & Linting - black and flake8 have been used to ensure styling guidelines are met
  • Type Annotations - All new code has been type annotated in the function signatures using type hints
  • Docstrings - Docstrings have been provided for functions
  • Documentation - Documentation in docs/ has be regenerated and README and CHANGELOG have been updated to explain major changes & new features
  • Package version - Manually bumped the Schemas package version in cidc_schemas/__init__.py

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codeclimate bot commented Oct 26, 2022

Code Climate has analyzed commit 72e9449 and detected 0 issues on this pull request.

The test coverage on the diff in this pull request is 100.0% (50% is the threshold).

This pull request will bring the total coverage in the repository to 94.4% (0.0% change).

View more on Code Climate.

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2 participants