Hi,
Checking back on this - any thoughts are helpful!
I have attached an example design.fsf that I am using (compressed in order to not exceed max message size), along with a contrast file that is the result of saving the design via the GUI (i.e. design_MANUAL.con) and a contrast file that is the result of running "feat_model design" (i.e. design_CL.con). The design_MANUAL.con file contains the correct information, and I am hoping to get some help on figuring out why using the command line does not correctly populate NumWaves or the contrast matrix dimensions. I wonder if the command line is not correctly referencing the confound EV .txt file.
Thank you!
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