Update the digest to work with the latest imaging processing status file

[michellewang]

nipoppy track now produces files like this

participant_id	bids_participant_id	session_id	bids_session_id	pipeline_name	pipeline_version	pipeline_step	status
001	sub-001	A	ses-A	pipeline1	0.1.0	step1	FAIL
001	sub-001	A	ses-A	pipeline1	0.1.0	step2	INCOMPLETE
001	sub-001	A	ses-A	pipeline1	0.2.0	default	SUCCESS
001	sub-001	A	ses-A	pipeline2	1.0.0	default	SUCCESS
001	sub-001	B	ses-B	pipeline2	1.0.0	default	UNAVAILABLE
002	sub-002	A	ses-A	pipeline1	0.2.0	default	SUCCESS
002	sub-002	A	ses-A	pipeline2	1.0.0	default	SUCCESS
002	sub-002	B	ses-B	pipeline2	1.0.0	default	SUCCESS

which is no longer compatible with the format expected by the digest.

Not sure how much work it would be to do the update but it would be nice to have it working with the latest Nipoppy format. Though I guess that will break things for NIMHANS if they are using the digest right now @nikhil153?

[surchs]

On hold while Alyssa is away

[alyssadai]

Note: This issue (PR #166) also requires regenerating and updating the internal paths to the 'pre-loaded' QPN imaging and phenotypic digests, previously expected to be at a path nipoppy-qpn/nipoppy/digest in the nipoppy-qpn repo. Now that this repo is deprecated and split into qpn_workflows and qpn_analysis, we should choose a location (maybe qpn_workflows/digest or qpn_workflows/tabular/digest?) to store the two digest files.

The QPN imaging and phenotypic digests should be regenerated to align with the latest digest schemas (which now should be aligned with the latest Nipoppy schema), including:

• imaging digest: TSV with columns as defined in https://nipoppy.readthedocs.io/en/latest/schemas/index.html#imaging-bagel-file
• phenotypic digest: TSV with columns as defined in https://github.com/neurobagel/digest/blob/update-proc-status-file-parsing/schemas/phenotypic_digest_schema.json
  • the main change is just the renaming of bids_id -> bids_participant_id, and session -> session_id, since digest relies on the same set of identifier columns across input files