Doug, I am also curious about this mri_label2vol upgrade. Will this work on the Windows virtual machine version of FreeSurfer? I downloaded and placed it in the FREESURFER/bin directory, but when trying to run it I receive an error that states: Exec format error. Binary file not executable. Thanks for your help.
Cyrus From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of José Ángel Pineda Sent: Tuesday, December 04, 2012 9:07 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] (no subject) Thanks Doug, I already downloaded the new script for mri_label2vol, but it seems it is just compiled for linux, as I cannot execute it in my Mac. If it is so, could you please upload another compiled for mac, or source. Thanks Jose For the missing insula problem, try using a newer version of mri_label2vol ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_label2vol The 2nd problem is not so easy to fix. You might be better off using aparc+aseg.mgz as input to mri_label2vol instead of the surface annotation. doug On 12/3/12 10:35 AM, Jos? ?ngel Pineda wrote: > Dear experts, > > I am registering cortical labels from Talairach coordinates to my > native T1. For doing this, I have run the next script lines: > > > tkregister --targ brainmask.mgz --mov highres_brain.nii.gz --reg > T1FS2Highres.dat --regheader --noedit > > mri_label2vol --annot rh.aparc.annot --temp highres_brain.nii.gz --reg > T1FS2Highres.dat --o rh_aparc.nii.gz --hemi rh --subject FS --proj > frac 0 1 .1 --fillthresh .3 > > and the same for the left hemi. > > However I am finding two problems at the result. First Insula is > missing for both hemispheres, and second the cortical ROIs have the > shape of the figure attached, e.g. there are many voxels empty > > Im?genes integradas 1 > > I found in previous topics, that the mri_label2vol, was updated as it > left last volume from the list out of the conversion. I tried to > download it, but it is just compiled for linux, and since Im working > with mac I am not able to run it. Could you please give me any > comments to solve the problem with the missing voxels. > About the problem with the insula, the other option is to just extract > it with mri_annotation2label, but if I could get the mri_label2vol > working correctly it would be better. > > Thanks a lot > > Jose -- José Angel Pineda Pardo Center of Biomedical Technology (CTB) Parque Científico y Tecnológico de la UPM Campus de Montegancedo 28223 Pozuelo de Alarcón, Madrid, ES ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues
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