Hey Doug, I believe for this patient/hemisphere the number of vertices is 157373.
What is the workaround in the case my number of vertices is unluckily a prime? Thank you, Omer Tal > Hi Omar, how many vertices? The reshape only works if the number is not > prime (actually the largest prime factor has to be less than 2^15. > doug > > Omer Tal wrote: >> Hey Bruce, >> >> Thank you for the prompt response. >> >> The line is as follows: >> >> mri_convert -it mgh -ot nii test.mgh test.nii. >> >> Since I do agree that the issue is arising from the NIFTI bit limit, i >> tried doug's suggestion of >> >> mri_surf2surf --sval test.mgh --tval test.nii --reshape-factor 6 --s >> subject_name --hemi lh >> >> But it doesn't seem to solve the problem. even though now i can load it >> through FSL without it failing and quitting, the image is faulty w/ over >> 78,000 data points in the X direction, none in Y, and 240 in Z. At this >> point, Doug told him to send the file in and no more follow-up is >> shown... >> >> Please advise. >> >> Thank you very much, >> Omer Tal >> UCSD Keck Center for Functional MRI >> >> >>> Hi Omer >>> >>> what file are you trying to convert? What is your entire command line >>> with output and what problems do you have? Nifti unfortunately only >>> allows >>> 16 bits for the width/height/depth/nframes, so surface overlays can't >>> usually fit as nvertices x 1 x 1 x nframes since nvertices > 2^16 (or >>> 2^15 >>> signed). >>> >>> cheers >>> Bruce >>> >>> >>> On Mon, 6 Feb 2012, Omer >>> Tal wrote: >>> >>> >>>> Hey there, >>>> >>>> I am trying to convert an mgh file I created into an nii volume so I >>>> can >>>> load it in AFNI. I was trying to use mri_convert, which I have used >>>> previously to make nii volumes from my aparc+aseg and it worked great, >>>> but >>>> this time the resulting file is faulty. >>>> >>>> I've noticed a previous thread where someone ran into a similar >>>> problem, >>>> and it had to do w/ too many vertices existing for NIFTI, and Doug >>>> suggested using mri_surf2surf, but it didn't work for that guy or me >>>> (at >>>> which point I think he was sending you files). >>>> >>>> Seems like it should be something common and trivial, but I can't get >>>> it >>>> too work, any suggestions? >>>> >>>> Thank you, >>>> Omer Tal >>>> UCSD Keck Center for Functional MRI >>>> _______________________________________________ >>>> 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 >>> >>> >>> 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. >>> >>> >>> >> >> _______________________________________________ >> 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 > > _______________________________________________ > 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
