Veronica,
Hi, can you copy me on the subject data upload? You can upload data
here:
https://www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Nick
On Mon, 2013-04-15 at 12:30 -0400, Bruce Fischl wrote:
> Hi Veronica,
>
> we haven't seen that before. Can you upload your subject including the
> FLAIR and we'll take a look?
>
> thanks
> Bruce
>
> On Mon, 15 Apr 2013, Popescu, Veronica wrote:
>
> >
> > Dear all,
> >
> > I have already run the FreeSurfer 5.2 -all, and I would like to improve the
> > pial surface recongition using the FLAIR. From the $SUBJECTS_DIR (where I
> > have also placed the FLAIR file) I use the following syntax:
> >
> > recon-all -autorecon3 -subjid ${SUBJ_ID} -FLAIR $FLAIRFILE -FLAIRpial
> >
> > It starts running but then it hangs, I never get an output. The FLAIR file
> > is in nifti format.
> >
> > I am not sure what I am doing wrong: it is the syntax? Should I first
> > convert the FLAIR file to .mgz?
> >
> > Thank you in advance for the help!
> >
> > Veronica Popescu, MD, MSc
> > Department of Radiology & Nuclear Medicine
> > VU University Medical Center
> > Amsterdam, The Netherlands
> >
> >
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