Dear FreeSurfer experts,
Hello, I am trying to use Freesurfer's (developmental version) PVE correction tool and I haveone question.
The data to be PVE-corrected are some preprocessed PET data downloaded from the Alzheimer's DIsease Neuroimaging Initiative (ADNI) database. Basiclly, the dynamic PET images have been co-registered to one another, averaged, and spatially normalized to a common space. Now I am trying to apply PVE-correction. It seems from your answers here (https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg43435.html)https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg43435.htmlthat you run the following commands: (1) gtmseg (2) bbregister (3) mri_gtmpvc (4) mri_glmfit
When I enter gtmseg --s subject such as below ('Desktop/forFSsubin_2' is location of the subject MRI and '019_S_4835_N3m_cub_ACPC.nii' is the filename)
~/Desktop/forFSsubin_2$ gtmseg --s 019_S_4835_N3m_cub_ACPC.nii
I get:
ERROR: cannot find 019_S_4835_N3m_cub_ACPC.nii
I have changed directory to the folder where the subject MRI file is, and I have typed the subject's filename correctly, but it keeps saying the subject file cannot be found. Any ideas on what is wrong here?
Any help would be appreciated. Thank you in advance.
Regards, Subin