Re: [Freesurfer] autoreg-sess and spmregister-sess problem

Hi Reza,

I need more information that you have supplied. Please look over the instructions in surfer.nmr.mgh.harvard.edu/fswiki/BugReporting

thanks

doug

Reza Rajimehr wrote:

Hi,

In the FS-FAST analysis stream (dev environment), I used autoreg-sess command as follows:

autoreg-sess -s mvp022106 -df df.txt

It successfully generated a register.dat file in the bold directory. Then I used tkregister-sess as follows:

tkregister-sess -s mvp022106 -df df.txt -rsd t1epi

When tkregsiter window comes, the structural volume (anatomical T1) is OK but t1epi volume is completely corrupted. However, running tkregister-sess with '-rsd t1epi' generates another register.dat file in the directory above the bold directory. When I use this register.dat file in the tkregister-sess command, t1epi volume looks fine and almost in the appropriate location as T1 volume.

I also tried spmregister-sess instead of autoreg-sess:

spmregister-sess -s mvp022106 -df df.txt -fsd bold

A register.dat file is generated by this command in the bold directory. Then I used tkregister-sess as follows:

tkregsiter-sess -s mvp022106 -df df.txt -fsd bold

In the tkregsiter window, the functional volume looks fine but it is largely displaced. I could finally register it manually.

I might do something wrong with autoreg-sess and spmregister-sess or is there a bug for these commands?

Thanks, Reza

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Reza Rajimehr, MD

NMR Athinoula A. Martinos Center Department of Radiology Massachusetts General Hospital (MGH) Building 149, 13th St. Charlestown, MA 02129

Email: reza@nmr.mgh.harvard.edu

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