Hi Bruce,
I checked all the inputs and they look fine to me. Therefore I attached the recon-all.log and the subject. I hope this helps.
Best, Theresa
________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Bruce Fischl [fischl@nmr.mgh.harvard.edu] Sent: Friday, March 09, 2018 3:11 PM To: Freesurfer support list Subject: Re: [Freesurfer] mri_ca_normalize error: Abort (core dumped)
Hi Theresa
can you open the inputs to mri_ca_normalize in freeview ok? The nu.mgz for example? Please send us the recon-all.log so we can examine it.
If all the inputs look fine, then upload your subject and we will have a look.
cheers Bruce
On Fri, 9 Mar 2018, Marschall, T.M. wrote:
Dear all,
I’m currently running the -reconall command on 40 subjects. One of them exited the mri_ca_normalize step with an error saying:
Abort (core dumped)
I tried rerunning it, however the error keeps occurring. So I have search the list, but could not find a solution to my problem. Does anyone have an idea on how I can fix this problem? I attached the recon-all.log file, maybe it can help finding the error.
Furthermore some information about the system I am running the analysis on:
Freesurfer version: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
Platform: Ubuntu 16.04.4 LTS
uname -a: Linux theresa-Lenovo-IdeaPad 4.13.0-36-generic #40~16.04.1-Ubuntu SMP Fri Feb 16
23:25:58 UTC 2018 x86_64 x86_64 x86_64 GNU/Linux
Kind regards,
Theresa Marschall
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