eptember 7, 2013 7:10 PM
Subject: Re: [Freesurfer] recon-all for multiple subjects
it won't handle it. If you gave it multiple inputs each with it's own -i it
would assume that they are different images of the same subject and perform
motion correction and averaging. I don't th
of Anupa AV [
> av.an...@yahoo.com]
> > Sent: Saturday, September 07, 2013 5:56 AM
> > To: KOOL; Freesurfer
> > Subject: [Freesurfer] recon-all for multiple subjects
> >
> > Dear Sir,
> > I'd like to know the command lines for running recon-all for multiple
&g
Anupa AV
> [av.an...@yahoo.com]
> Sent: Saturday, September 07, 2013 5:56 AM
> To: KOOL; Freesurfer
> Subject: [Freesurfer] recon-all for multiple subjects
>
> Dear Sir,
> I'd like to know the command lines for running recon-all for multiple
> datasets.
> Can you plea
want it to.
From: freesurfer-boun...@nmr.mgh.harvard.edu
[freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Anupa AV
[av.an...@yahoo.com]
Sent: Saturday, September 07, 2013 5:56 AM
To: KOOL; Freesurfer
Subject: [Freesurfer] recon-all for multiple subjects
Dear Sir,
I'd like to k
Hi Anupa
in general recon-all only processes a single dataset at a time. You can run
multiple versions of recon-all if you have the processors and memory to
support it. Something like:
foreach x ( *)
recon-all -i SZ.${x}.nii -s $x -all &
end
assuming that you had already converted your dico
Dear Sir,
I'd like to know the command lines for running recon-all for multiple datasets.
Can you please help me on that?
I've tried using the following command lines
cd /home/john/Anu (where I kept all the .nii files)
for x in *
do
recon-all -i SZ*.nii -s $x -all
done
But this is not working
Hello,
In our lab, we create a txt file with all the subject names (as they appear
on their respective folders). Name that txt file whatever you want (like "*
subs.txt*") and save it somewhere in one of the paths (we use /Users/*
Home_User*).
Then in terminal, after setting the environments for
Dear FS experts,
I'd like to know about the for loop command for running recon-all for multiple
subjects.
I went thru this link,
https://mail.nmr.mgh.harvard.edu/pipermail/freesurfer/2006-November/004083.html
But didn't get much info.
Can anyone please tell me how to run recon-all for multiple
