I obtain /Applications/freesurfer/subjects/subject_prova
my DWI file is in Diff01, Diff02 ... that are in subject_prova folder.
Thanks,
Stefano
Messaggio originale
Da: ayend...@nmr.mgh.harvard.edu
Data: 6-giu-2013 0.42
A:
Cc:
Ogg: Re: [Freesurfer] R: Re: Tracula
What do you get when
/Applications/freesurfer/subjects/subject_prova
Stefano
Messaggio originale
Da: ayend...@nmr.mgh.harvard.edu
Data: 6-giu-2013 0.42
A:
Cc:
Ogg: Re: R: Re: Tracula
What do you get when you run "echo $SUBJECTS_DIR"?
On Thu, 6 Jun 2013, std...@virgilio.it wrote:
> Hi Anastasia,
>
> y
Hi Stefano,
Just use the cp command to move your recon-all directories to the Diff01
directory and source it from there.
HTH,
Shantanu
On Tue, February 5, 2013 3:38 pm, std...@virgilio.it wrote:
> Because initially I have run recon-all and trac-all in two separate
> folder.Now I'd like rerun t
You could just move the recon-all output directories from the location
where they was originally generated into the Diff01 directory. For the
purposes of running trac-all this should not make a difference.
On Tue, 5 Feb 2013, std...@virgilio.it wrote:
Because initially I have run recon-all
Because initially I have run recon-all and trac-all in two separate folder.Now
I'd like rerun them in a unique folder.I have put MPRAGE and data.nii.gz in
Diff01
When I run:recon-all -i $SUBJECTS_DIR/Diff01/MPRAGE.nii.gz -sd
$SUBJECTS_DIR/Diff01 -all I have:ERROR: must specify a subject id
I do
The subject name needs to be the same for recon-all and trac-all. There is
no way for trac-all to guess that hpth_subj01 and Diff01 are the same
subject.
> Hi Anastasia,
> my original folder Diff01 in
> /Applications/freesurfer/subjects/subject_prova/Diff01 now
> contains:data.nii.gz (DWI), MPRAGE
Hi Anastasia,
my original folder Diff01 in
/Applications/freesurfer/subjects/subject_prova/Diff01 now contains:data.nii.gz
(DWI), MPRAGE.nii.gz, bvecs, bvals.I have runned recon-all -all -i
$SUBJECTS_DIR/MPRAGE.nii.gz -subject $SUBJECTS_DIR/hpth_subj01 without error
and after trac-all -prep -c
