Use mri_info to see what it reshapes it to. You can also try adding --reshape-factor 6. doug
Gabriel Go.Es. wrote: > Dear Doug Im using : > > mri_surf2surf --sval $PATH/image.mgh --tval $PATH/image.nii --reshape > --s my_avg_subject --hemi lh > > and the nii output image still seems to be a not valit image, am I > missign something? > > Gabriel > > > > > Date: Fri, 27 May 2011 12:53:53 -0400 > > From: gr...@nmr.mgh.harvard.edu > > To: gabriel...@hotmail.com > > CC: freesurfer@nmr.mgh.harvard.edu > > Subject: Re: [Freesurfer] mgh conversion > > > > Nifti can only handle 32k elements in any dimension. This is a problem > > for surfaces when they have upwards of 100k vertices. For our average > > subject (fsaverage and derivatives), this problem is solved by > reshaping > > the number of vertices to be 27307x6=163842. If you are working with > > fsaverage, this should happen automatically (but might not for older FS > > versions). You can try converting to nifti using mri_surf2surf which > > offers a "--reshape" option. > > > > doug > > > > Gabriel Go.Es. wrote: > > > Dear freesurfers > > > > > > I want to convert an .mgh image to NIfTY format, but even when the > > > conversion using "mri_convert" seems to be ok, when I try to open the > > > nii, an error message appears "image doesn't appear to be a valid 2D > > > or 3D image", there is any other way to convert an mgh image to nii? > > > > > > In other cases when I tryed to convert other mgh's cointaining > > > clusters extracted with matlab but saved with the same matrix header > > > as "sig.mgh", FS says that nrows in volume exceeds 32768, and does > not > > > make the conversion? > > > Any ideas? > > > > > > Thanks in advanced, > > > Gabriel. > > > > ------------------------------------------------------------------------ > > > > > > _______________________________________________ > > > Freesurfer mailing list > > > Freesurfer@nmr.mgh.harvard.edu > > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > -- > > Douglas N. Greve, Ph.D. > > MGH-NMR Center > > gr...@nmr.mgh.harvard.edu > > Phone Number: 617-724-2358 > > Fax: 617-726-7422 > > > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > > FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html > > > > > > > > The information in this e-mail is intended only for the person to > whom it is > > addressed. If you believe this e-mail was sent to you in error and > the e-mail > > contains patient information, please contact the Partners Compliance > HelpLine at > > http://www.partners.org/complianceline . If the e-mail was sent to > you in error > > but does not contain patient information, please contact the sender > and properly > > dispose of the e-mail. > > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
