External Email - Use Caution
Hi Douglas,
I am using the following:
Linux Redhat version 7.9 Singularity version 3.6.0 Freesurefer version 6.0.0-min (for containers)
I checked all the recon-all.log, and it looks like all of the old reports and I could not find where the error report of the freesurefer save from the container. I have checked the file output, and it does not have a recall-all.log.
Thanks, Ahmed ________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Douglas N. Greve dgreve@mgh.harvard.edu Sent: Friday, July 17, 2020 10:12 AM To: freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] nu_correct error
CAUTION: External Sender
What version are you running? Can you send the recon-all.log file?
On 7/16/2020 3:40 PM, Bahrani, Ahmed A. wrote:
External Email - Use Caution
Hello Freesurfer experts,
I have a question related to the singularity container to run a bash script that contains a freesurfer's commend "nu_correct".
The singularity container only runs as a root user login and gives error as shown below with a general user login.
==================================================================================
---Error message--- evaluate_field: posixio.c:210: px_pgin: Assertion `*posp == ((off_t)(-1)) || *posp == lseek(nciop->fd, 0, 1)' failed. nu_evaluate: crashed while running evaluate_field (termination status=134) nu_correct: crashed while running nu_evaluate (termination status=65280) --------------------------------------------------------------------
---Error message--- ncvarput: ncid 4: No space left on device mivarput1: MINC package entry point nu_evaluate: crashed while running minccalc (termination status=768) nu_correct: crashed while running nu_evaluate (termination status=768) --------------------------------------------------------------------
Would you advise, please?
Thanks, Ahmed
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurferhttps://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer&data=02%7C01%7Cahmed.bahrani%40uky.edu%7C1beb056d3cbd43038ab808d82a5b9396%7C2b30530b69b64457b818481cb53d42ae%7C0%7C0%7C637305920089095415&sdata=4UHLpStFVSuBTY825%2BGFsYs0yubW13L0Xnf4Fwn5wTA%3D&reserved=0