That is weird -- ft_read_mri is not one of our files. Can you send the
command line and the *full* terminal output? The lGI stuff is pretty old
and does not have a maintainer.
On 2/26/2024 1:40 PM, Michael Ruvalcaba wrote:
External Email - Use Caution
Hi Douglas,
Yes I can definitel
Just closing this thread: we have solved it in
https://forum.freesurfer.net/t/permission-denied-error-from-localgi/62
Thanks,
Tashrif
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Does that file exist? If so what are its perms?
From: Billah, Tashrif
Sent: Friday, April 29, 2022 3:53 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Permission denied error from -localGI
Thank you Douglas. We took our time to install Free
Does that file exist? If so what are its perms?
On 4/29/2022 3:53 PM, Billah, Tashrif wrote:
Thank you Douglas. We took our time to install FreeSurfer 7.2 and
retry. However, we ran into the same error:
>> reading filled volume...
/bin/bash: /scratch/tp7785365264536.load_mgh.m.mgh: Permiss
Thank you Douglas. We took our time to install FreeSurfer 7.2 and retry.
However, we ran into the same error:
>> reading filled volume...
/bin/bash: /scratch/tp7785365264536.load_mgh.m.mgh: Permission denied
ERROR: could not open /scratch/tp7785365264536.load_mgh.m.mgh for reading
ERROR:
Thank you Douglas. We took our time to install FreeSurfer 7.2 and retry.
However, we ran into the same error:
>> reading filled volume...
/bin/bash: /scratch/tp7785365264536.load_mgh.m.mgh: Permission denied
ERROR: could not open /scratch/tp7785365264536.load_mgh.m.mgh for reading
ERRO
Can you just try it with 7.2? We had some problems at one point with
temporary files in lGI that were fixed with 7.2
On 4/27/2022 9:36 AM, Billah, Tashrif wrote:
Sorry about missing your earlier question--our FreeSurfer is 7.1.0
We still need your help with this issue.
Thank you,
Tashrif
Sorry about missing your earlier question--our FreeSurfer is 7.1.0
We still need your help with this issue.
Thank you,
Tashrif
Douglas N. Greve Sun, 27 Mar 2022 13:57:02 -0700
===
What version of FS are you running?
On 3/20/2022 8:47 PM, Billah, Tashrif wrote:
It d
What version of FS are you running?
On 3/20/2022 8:47 PM, Billah, Tashrif wrote:
It does not exist and cannot be created in a shared cluster. Is there
a way to define a different folder for
/scratch/tp24093955057547375.load_mgh.m.mgh?
===
Douglas N. Greve Wed, 09 Mar 2022 10:04:31
It does not exist and cannot be created in a shared cluster. Is there a way to
define a different folder for /scratch/tp24093955057547375.load_mgh.m.mgh?
===
Douglas N. Greve Wed, 09 Mar 2022 10:04:31 -0800
Do you have permission to /scratch? Does it exist?
===
Billah, T
Do you have permission to /scratch? Does it exist?
On 3/2/2022 9:50 AM, Billah, Tashrif wrote:
Hi all,
We are trying to run recon-all with -localGI but running into an
unknown permission denied error:
$ recon-all -s sub-1001 -localGI
```
make_outer_surface('/path/to/FS_SUBJECTS_DIR/sub-100
Hi all,
We are trying to run recon-all with -localGI but running into an unknown
permission denied error:
$ recon-all -s sub-1001 -localGI
```
make_outer_surface('/path/to/FS_SUBJECTS_DIR/sub-1001/surf/tmp-mris_compute_lgi-lh.pial/lh.pial.filled.mgz',15,'/path/to/FS_SUBJECTS_DIR/sub-1001/surf/
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