Hi all,

I tried to use the 4-echo MEMPRAGE dura detection for mris_make_surfaces, but I'm not sure if it worked. The terminal output, including commands, is attached. It was run with version freesurfer-Linux-centos6_x86_64-stable-v5.3.0-BETA-20130509.

On the original recon, in the rh, there is a segment of dura marked as grey inside the pial line, at 94 111 169. The surfaces did not appear to change substantially after I reran mris_make_surfaces with the -dura flag specifying the 4-echo MEMPRAGE, which I placed in the mri directory. You can see the before and after for yourself on the attached screenshots, or if you have NMR access, here:

/space/ficus/6/users/SNEF_edits/OB01_orig/

/space/ficus/6/users/SNEF_edits/OB01_orig_dura/

I saw this output from mris_make_surfaces for the rh, so maybe -dura did correct a different defect? 

Any help would be appreciated, because we have over 130 brains and the fewer manual corrections, the better!

Thanks,

-Kayle