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add support for reorganizing into BIDS standard post-processing

Open shen4brains opened this issue 5 years ago • 2 comments

will require dataset-specific customization of the code here: https://github.com/McIntosh-Lab-RRI/tvb-ukbb/blob/master/bb_pipeline_tools/bb_UKBB_to_BIDS_converter.py

shen4brains avatar Feb 09 '21 19:02 shen4brains

BIDS specification found here: https://bids-specification.readthedocs.io/en/stable/

shen4brains avatar Feb 09 '21 19:02 shen4brains

add BIDS-ification:

  • option before running pipeline to automatically BIDS-ify the current sub
  • option before running batches to automatically BIDS-ify the entire batch
  • option to BIDS-ify a subject after running the pipeline
  • option to batch BIDS-ify several subjects after running the pipeline

This may require the creation of a temporary BIDS structure with symlinks pointing to the subject's files while the pipeline is running. When the pipeline is done running, a script can be run to copy-paste each sub into a new BIDs structure and delete the old structure & temp symlink BID structure (instead of the relatively riskier mv command).

justinliuyuwang avatar Apr 20 '21 21:04 justinliuyuwang