run_all

Orchestrator: read file_inventory.csv and run all converters.

Reads the inventory, groups files by conversion_type, and dispatches each to the appropriate converter module. Supports dry-run, subject filtering, and task filtering.

Usage: python run_all.py [–dry-run] [–subjects sub-03,sub-04] [–tasks encoding,math] python run_all.py –validate [–subjects sub-03]

Source: src/python/raw2bids_converters/run_all.py

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Functions

load_inventory

Load and return all rows from file_inventory.csv.

load_inventory()

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filter_rows

Filter inventory rows by subject and/or conversion type.

filter_rows(rows, subjects = None, conversion_types = None)

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process_timed_events

Process a timed_events file (behavioral + timing -> events.tsv).

process_timed_events(row, dry_run = False)

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process_psychopy_encoding

Process a psychopy_encoding file.

process_psychopy_encoding(row, dry_run = False)

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process_psychopy_retrieval

Process a psychopy_retrieval file.

process_psychopy_retrieval(row, dry_run = False)

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process_localizer

Process a localizer_events file.

process_localizer(row, dry_run = False)

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process_behavioral

Process a behavioral_to_beh file.

process_behavioral(row, dry_run = False)

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process_edf

Process an edf_to_physio file.

process_edf(row, dry_run = False)

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process_physio_dcm

Process a physio_dcm file (PhysioLog DICOM -> BIDS physio).

process_physio_dcm(row, dry_run = False)

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