Description

Dataset that imports anatomical images as duplicates first creates two anatomical runs in rawdata, and then when doing BIDS2Legacy it messes up the order of the multiple-runs. We fix both errors, while fixing one of them would have been sufficient for this dataset.

xASL_bids_BIDS2Legacy_ParseModality line 43 sorts the table reference.
Indices (e.g., TypeRunIndex) are then created according to the sorted reference table.
But ModalityFields (and perhaps others?) does not get sorted accordingly, so xASL_bids_BIDS2Legacy_CompilePathsForCopying line 70 had unmatched TypeRunIndex and ModalityFields in the case of multiple ASL or anatomical runs.

Tasks

• Fix the sorting from xASL_bids_BIDS2Legacy_ParseModality
• Add a final filename check before copying in xASL_bids_BIDS2Legacy_ParseScanType
• Some minor warning improvements in xASL_bids_parseM0 & xASL_imp_UpdateDatasetRoot
• Default output when SessionID is empty in xASL_wrp_BIDS2Legacy (tricky to default to 1 as this may be incorrect, so just added "unknown" as default)
• If multiple anatomical files are converted to NII, but they are not assigned a specific run-label, then covert only the non-labeled one from the first run.
• Inform Mervin about merging.

Release notes

Correct import and BIDS2Legacy with duplicate anatomical scans.