Hi,

I have two short questions concerning motion correction using preproc-sess and registration files

1) Running preproc-sess using per-session as e.g. like this preproc-sess -per-session -fwhm 0 -sliceorder siemens -surface vpID lhrh -s vpID -fsd bold -mni305 should result in a "fmc" output stem, doesn't it? This however, this is not the the case (I received "fmcpr"), so I'm wondering whether the error occured (only) at the labeling stage or whether motion correction was indeed computed for each run separately (I also received register files for each run, i.e. in each bold/run directory, rather than "global ones" within the bold directory). Is this a known issue?

2) Furthermore I'd be very glad if someone could shed some light on the registration process (using fslregister-sess) for -per-run mc and the various register-files that are produced. In particular, I do not understand how the output of the statistical analysis of the functional data (averaged over all runs) is mapped onto the high resolution anatomical data, when every run is registered seperately. Which register file is needed in order the visualize the results? And what about checking the accuracy of the registration, do I have to check this for every run?

I am using freesurfer Version 5.1.0 (freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0) on ubuntu 11.10 (64b).

Thanks a lot in advance,

Katrin