recon-all will not produce the registration file you are looking for. It should be produced by reg-feat2anat. Try running it with --debug as the first argument and post the terminal output to the list doug
recon-all will not produce the registration file you are looking for. It should be produced by reg-feat2anat. Try running it with --debug as the first argument and post the terminal output to the list doug
Hi Sherrysemostly I'll leave this for Doug. Have you tried using bbregister directly? It might be embedded within reg-feat2anat, I'm not sure
Bruce
Thanks Bruce. The problem is that the registration itself is not workingproperly.
Recap: The goal is to view the functional data on the inflated brain. We ran recon-all, checked that registration, then attempted to register the functional data to the free surfer anatomical. My understanding is that running reg-feat2anat should create a folder (featdir/reg/freesurfer) with register.dat and anat2exf.register.dat files in (among others). The folder is created and some of the files are created, but those two are not. Although, I should note that there is a file created within this folder called anat2exf.register.dat.init. But I am not sure what the ³init² is for or what it means. The terminal output from running reg-feat2anat is attached. I can see now that there are errors in the output (I am slowly figuring how how to use FreeSurfer!). Any suggestions you have are greatly appreciated! Thanks! Sherryse