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: greve@nmr.mgh.harvard.edu To: gabriellbk@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: greve@nmr.mgh.harvard.edu To: gabriellbk@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.
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