Description

We need to restructure the functions for NII2BIDS import of JSON to make it easy to be called externally for the purpose of correcting JSONs for OASIS.

Requirements

• For OASIS: Go through all directories and check all JSON files and modify them in the following way:

  • For structural files. Correct JSONs using the following: 👍
    • jsonAnat = xASL_bids_JsonBIDSifyAnat(jsonAnat); Note this additional function now with different name
    • jsonAnat = xASL_bids_VendorFieldCheck(jsonAnat);
    • jsonAnat = xASL_bids_JsonCheck(jsonAnat,'');
  • For ASL files: 👍
    • Complete insides of xASL_imp_NII2BIDS_SubjectSessionRun have to be used, copy pasted to the OASIS script, and called for each session and filenames changed in the code - but only in the code, not in the subfunctions.

• To prepare for this

  • Fix issue ExploreASL version in Legacy data #603 to have ExploreASL version used for import 👍
  • Put the RepetitionTime extra field check inside a new function xASL_bids_JsonBIDSify and add an 'anat' option there 👍
  • Put all the JSON checking and manipulation to a subfunction for ASL and M0 👍
  • Make sure that the IntendedFor and other parameters are correctly assigned 👍

How to test

• Run the Flavors import+check 👍
• Use this to correct OASIS data - continue in Convert OASIS & DDI to BIDS #619

Release notes

Restructured JSON handling during NiFTI to BIDS import