Hello, 

I’m having some trouble importing fMRIPrep preprocessed data into CONN and was hoping someone could help. Here are the issues I’m running into:

1) Scrubbing Variable:
When I import the dataset, the scrubbing variables for some sessions are way off. For example the maximum value for my scrubbing varialbles across all subjects and sessions is about 50-60, but in CONN, I see values like [488 240] for some of the sessions. When I load the timeseries file using the command from this post: https://www.nitrc.org/forum/message.php?... my output looks fine: 

struct with fields: global_signal: [488×1 double] global_signal_derivative1: [488×1 double] global_signal_derivative1_power2: [488×1 double] ..........

I also tried uploading the *_bold.scrubbing.mat files instead of the _bold.QC_timeseries.mat files, but that only worked for some participants and didn’t solve the issue for others. The excessive values (like [240]) are only happening in 1-2 sessions per subject out of the total 6 sessions. The scrubbing.mat files actually shows the correct number but as I said, when imported, those files again start showing values ranging from 150-240. I also tried deleting any hidden files if they were present but still can't seem to resolve this issue.

2) Missing Files During Import:
When importing the fMRIPrep folder, not all the files are being recognized for two of my subjects. For one subject only 5 functional runs are being imported even though there are 6. Similarly, for another subject, only 4 out of 6 .mat files for first level covariates are being imported. I have checked the folders, re-added the files, and still the issue is occuring. 

3) Is there a batch option to import fmriprep dataset into conn?

Thanks!!