Can you drop the image to me (don't email it). The drop site is below at the end of this email. doug
Gabriel Go.Es. wrote: > Thank you again Doug, > > I've tryed all the possibilities you said, but still not have a nii > image, It says that it's reshaping to 6, but also when I change to > another factor number it always says reshaping to 6, and the resultant > nii image has still 163842 vertex so no program is able to read it, > I'm working with FS version 5.0. > > > Gabriel > > > > > > > > > Date: Fri, 27 May 2011 16:58:33 -0400 > > From: gr...@nmr.mgh.harvard.edu > > To: gabriel...@hotmail.com > > CC: freesurfer@nmr.mgh.harvard.edu > > Subject: Re: [Freesurfer] mgh conversion > > > > 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 > > -- 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
