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Develop a semi-automated project configuration pipeline #55

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Bankso opened this issue Feb 26, 2024 · 0 comments
Open

Develop a semi-automated project configuration pipeline #55

Bankso opened this issue Feb 26, 2024 · 0 comments

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@Bankso
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Bankso commented Feb 26, 2024

Relative to issue #54

Following intake meetings or other situations where contributors provide plans for data to be uploaded to Synapse, it would be helpful to have a programmatic way to create the assay-specific folders. For example, if someone says they want to upload GeoMX spatial transcription data, I would like to have a script where I type something like:
python assay_folders.py -dt geomx
To create all the required folders

Additional helpful features:

  • allow folders for multiple data types to be created at once
  • check to see if required folders exist, prior to creating
  • automatically trigger folder creation when a data sharing plan is uploaded/updated
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