the ribbon.mgz isn't part of autorecon2 (or autorecon1) I don't think.
What are you trying to run?
On Thu, 11 Dec 2014, pradeep mahato wrote:
Hi Bruce,
After running autorecon1 and autorecon2, I am getting an error saying
ribbon.mgz file is missing.
Is it that autorecon2 the 23rd function didn't execute.
Attaching the recon log also.
On Tue, Dec 9, 2014 at 6:48 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu>
wrote:
Hi Pradeep
sorry, I meant autorecon1 and autorecon2 (but not autorecon3)
cheers
Bruce
On Tue, 9 Dec
2014, pradeep mahato wrote:
> Hi Bruce,
>
> I am using Intel Core 2 Quad core processor 2.2 GHz with 4 GB
ram.
> The version i am using is
freesurfer-i686-redhat-linux-gnu-stable5-20130513
> Using autorecon2 process , I got error saying nu.mgz file is
missing. Error
> : mghRead(/home/nsb/oasis/OAS2_RAW_PART1/OAS1_2/mri/nu.mgz,
-1): could not
> open file
> Should I include nuintensitycor.
>
> Thanks
>
> Pradeep
>
> On Mon, Dec 8, 2014 at 7:01 PM, Bruce Fischl
<fis...@nmr.mgh.harvard.edu>
> wrote:
> Hi Pradeep
>
> you could only run recon-all -autorecon2 instead of -all
which
> should
> save you some time. 30 hours is pretty long though. What
> hardware are you
> using? If you have a modern Linux box with say 4-8 cores
it
> should take
> less than 10. Or with 2 cores and >4G of ram you could
run 2
> recons at the
> same time. What version of FS are you using? The newer
ones use
> openmp,
> although only the dev version has a bunch of things that
take
> advantage of
> it. If you want to use more than one core try using
-openmmp 4
> (to use 4
> cores).
>
> cheers
> Bruce
>
>
> On Mon, 8 Dec 2014, pradeep mahato wrote:
>
> > Hello,
> >
> > I need to extract Hippocampus from brain mri image.
The
> recon-all process
> > takes more than 30 hours to reconstruct from an single
image.
> I am having an
> > dataset of 200 subjects, it is not feasible to run the
recon
> process for all
> > individual brain mri images.
> > Is there any method to possibly get the hippocampus
segmented
> and get the
> > statistical values faster and efficient way.
> >
> > Thanking You
> >
> > Pradeep Kumar Mahato
> >
> >
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>
> --
> Pradeep Kumar Mahato
>
>
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Pradeep Kumar Mahato
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