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Replace PHASE__ and STAGE__ column schema with pipeline_step column #157

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7 of 8 tasks
alyssadai opened this issue Sep 20, 2024 · 0 comments · May be fixed by #166
Open
7 of 8 tasks

Replace PHASE__ and STAGE__ column schema with pipeline_step column #157

alyssadai opened this issue Sep 20, 2024 · 0 comments · May be fixed by #166
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schema Updating input schema for improved generalizability or usability
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Input schema refa...

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@alyssadai
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alyssadai commented Sep 20, 2024 •
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Change allows input imaging bagels to be fully long format

  • step column should be required and have no missing values (?)
  • remove HAS_DATATYPE__ and HAS_IMAGE__ columns for now (this info will probably be part of a different file in Nipoppy, or added back with different column names in future)
  • remove MissingValue, IsPrefixedColumn column properties
  • remove the has_mri_data column
  • use pipeline-version-step instead of pipeline-version for tracking completion
  • update plot of records x pipeline status so every pipeline-version-step combination has a separate bar
  • update READMEs
  • double check status descriptions
@alyssadai alyssadai added the schema Updating input schema for improved generalizability or usability label Sep 20, 2024
@alyssadai alyssadai added this to the Input schema refactor milestone Sep 20, 2024
@alyssadai alyssadai self-assigned this Dec 9, 2024
@alyssadai alyssadai changed the title Replace PHASE__ and STAGE__ column schema with STEP column Replace PHASE__ and STAGE__ column schema with step column Dec 9, 2024
@alyssadai alyssadai linked a pull request Dec 13, 2024 that will close this issue
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@alyssadai alyssadai changed the title Replace PHASE__ and STAGE__ column schema with step column Replace PHASE__ and STAGE__ column schema with pipeline_step column Dec 13, 2024
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schema Updating input schema for improved generalizability or usability
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Neurobagel
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Input schema refactor
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[ENH] Update digest to support latest Nipoppy processing status files neurobagel/digest
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