What is actually in the gii file? It is expecting only to read in overlay information (eg, a binary mask with values of 0 or 1 at each vertex). I have not used gifti all that much
On 3/4/19 10:55 AM, CAGNA Bastien wrote: > > External Email - Use Caution > > Hi everyone, > I need to convert a surfacic mask that is made from data of one > subject projected onto fsaverage6 into a volumic map. To do so, I'm > trying to use mri_surf2vol to take my Gifti file and create 3D version > as Nifti file (using gray matter). So, I tryed this: > mri_surf2vol --sd [subjects_dir] --subject fsaverage6 --o > [output_filename].nii.gz --so [subjects_dir]/fsaverage6/surf/lh.white > [lh.surf_mask_filename].gii --so > [subjects_dir]/fsaverage6/surf/lh.white [rh.surf_mask_filename].gii > > But it failed and tells me: > MRISreadGiftiAsMRI: no overlay data found in file > [lh.surf_mask_filename].gii > > After quickly looking to the source code, at line 1077 of utils/gifti.cpp: > //*----------------------------------------------------------- > MRISreadGiftiAsMRI() - reads GIFTI functional frames into > an MRI volume struct, which is a retro-fit usage to store > multiple frames of data (where in this case, a frame is one > complete vector of vertices). > This routine will only read NIFTI_INTENT_TIME_SERIES data > arrays. > -----------------------------------------------------------*// > I'm getting confused because (from what I understood) this function is > trying to read gifti's data in a nifti and moreover i didn't find any > example on the web of resampling Gifti file to Nifti image using > mri_surf2vol. I think I missing some think but do not understand what. > > Does any one have an idea about it? > > Best regards, > Bastien CAGNA > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
