Second pass issue

[CatalinaTLl]

Hi,

The first pass ran well and I got the .niigz and .json files (see the first screenshot). I then edited the protocol translator (see the second screenshot). However, the second pass only organizes the “dwi” files in the BIDS structure. There are no outputs for the other sequences (T1, T2 and rsfMRI) in the source folder, although I specified them in the protocol translator. What could be the problem?

Many thanks,

[jmtyszka]

"rest_bold" should be "task-rest_bold", but that's the only issue I can find in your translator JSON. Try checking your work/ folder where dcm2niix outputs the converted files and see if the structural and functional series are there. If they are, then check the verbose output from bidskit to see if any warnings have been generated (typically the line would start with "" or "**". Let me know.