it could be that the info needed to create the orientation info is not in the dicom. You can also try it without the -it dicom. You can also specify an orientation like --in_orientation RAS. This will probably be wrong, but it will at least let you see the image.

On 7/19/17 8:44 PM, John Anderson wrote:

Dear Dr Bruce, Thank you very much for your response. I tried mri_Convert -i INPUT_FIRST_DICOM -it dicom -ot nii -o OUTPUT_4d.nii

The problem is when I run mri_info on the "OUTPUT_4d.nii" I get the following

voxel-to-ras determinant 0 ras to voxel transform: mat =NULL! MatrixFree: NULL mat POINTER!

I am not sure what I am doing wrong. So thank you for help Jon

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-------- Original Message -------- Subject: Re: [Freesurfer] mri_convert Local Time: July 19, 2017 5:12 PM UTC Time: July 19, 2017 9:12 PM From: fischl@nmr.mgh.harvard.edu To: John Anderson John.anderso@protonmail.com, Freesurfer support list freesurfer@nmr.mgh.harvard.edu

Hi Jon

have you tried mri_convert?

cheers Bruce On Wed, 19 Jul 2017, John Anderson wrote:

...

Dear Freesurfer, Are there any tools in Freesurfer that can help to convert PET

DICOMs to

...

nifti files?

Thank you for your help and for any suggestion Jon

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