Forwarded Message
Subject:PET postdoc at NIH
Date: Wed, 8 Jun 2022 19:44:38 +
From: Innis, Robert (NIH/NIMH) [E]
To: Innis, Robert (NIH/NIMH) [E]
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A postdoctoral position will be available in my lab starting in late
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Thanks Paul.
bedpostx_preproc.sh is the first job that is I submit to my cluster. My input
file is attached to this email.
Thanks,
Ela
From: Wighton,
Hi Ela,
It looks to me like line 79 of bedpostx_preproc.sh is:
if [ ${gflag} -eq 1 ]; then
Which is consistent with the error:
-eq: unary operator expected
What this error is saying is that the variable `gflag` has not been set, so the
script does not know how to perform the comparison.
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That actually helps but not solving all the problems. So, what happens is that
if I create dmri.bedpostX folder, the first error goes away, a.k.a. (cp: target
'/home2/am2359/fs6_data/TRACULA/subjects_dir/57/dmri.bedpostX' is not a
directory).
You will need an lta file that maps from the anatomical to the fmri. You
can get this with something
bbregister --mov template.nii.gz --s subject --t2 --reg reg.lta
where template.nii.gz is the fmri motion correction template or the mean
fmri (I forgot what it is called in FSL)
On 6/3/2022
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Hello,
I am writing to request the password to unzip the Freesurfer 7 image (for
VirtualBox running on windows).
I appreciate your help.
Best,
Catarina Duarte
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