subject's folder is empty, there is no scripts folder, or anything else. Again if I omit -expert everything works fine.
On Fri, Aug 3, 2012 at 7:36 PM, james pardon
<james.pardon15@gmail.com> wrote:
Hi Bruce,
subject's folder is empty, there is no scripts folder, or anything else. Again if I omit -expert everything works fine.
Thanks
On Fri, Aug 3, 2012 at 7:29 PM, Bruce Fischl
<fischl@nmr.mgh.harvard.edu> wrote:
Hi James
what happens if you run:
ls -l /home/dir/subject/subname/scripts/expert-options
touch /home/dir/subject/subname/scripts/expert-options
Bruce
On Fri, 3 Aug 2012, james pardon wrote:
Dear all,
I'm trying to pass the following flags for mri_normalize through -expert
flag in recon-all, with a file, named expert.opts with the following single
line:
mri_normalize -b 20 -n 5
my command line is:
recon-all -i inputfile -subject subname -all -expert <pathname>/expert.opts
I receive the following error:
cp: cannot create regular file:
'/home/dir/subject/subname/scripts/expert-options'
The directory of the subject has been created, but it is completely empty.
At first glance I thought it might be some sort of permission problems,
however I have rwx permission for all the paths (even running under the root
username the same error comes up). Secondly, I checked my disk quota, it is
completely fine. Please note that, if I do not pass -expert flag recon-all
works completely fine.
Any input is much appreciated.
Regards,
James
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