If MRIcro gets the orientation right, then that will be stored in the nifti file and be inherited by the mgz.
doug Gabriel Go.Es. wrote: > Thanks Doug, > > The answer is yes, I can convert to NIfTY with using MRIcro (DCM2nii) > and then use mri_convert to convert to mgz but, how can I be sure that > this will not change the handedness???' > > Bests, > Gabriel > > > > > > > > Date: Tue, 1 Feb 2011 10:59:56 -0500 > > From: gr...@nmr.mgh.harvard.edu > > To: gabriel...@hotmail.com > > CC: freesurfer@nmr.mgh.harvard.edu > > Subject: Re: [Freesurfer] mri_convert problem > > > > There is a tag in this file that our DICOM reader does not recognize: > > > > 280092 DCM Unrecognized VR code (??) in readVRLength > > > > Unfortunately, we're using a 3rd party dicom reader that is quite > > brittle, and I don't know a way around it. Can you convert to nifti > > using MRIcro and then use mri_convert to convert to mgz? > > > > doug > > > > Gabriel Go.Es. wrote: > > > > > > Dear FS users > > > > > > I'm using FS v5 to convert some dicom images to mgz running the > comand: > > > > > > mri_convert -it dicom -ot mgz 000001.DCM 001.mgz > > > > > > And get the error: > > > > > > ERROR: > > > /root/trabajo/freesurfer/subjects/sujeto1/mri/orig/MPRAGE1/000001.DCM > > > is not a dicom file > > > > > > But when I try to open the file in MRIcro it is a dicom (philips) > file > > > (see attached file), can any one help me with this? > > > > > > Regards, > > > 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
