Linda,

You might want to check if the disk is full or not by using df command.

Gen On Nov 19, 2011, at 12:13 AM, Linda Zhang wrote:

Hi,

I'd been having trouble with "recon-all -all -subjid [mysubject]", so I broke it down with -autorecon1 and -autorecon2. -autorecon1 worked fine, it seems that the problem is somewhere in -autorecon2. I've included the system information below, as well as the error message I got, and the recon-all log. I've tried this with another subject as well and the same error occurs. It'd be great if someone could tell me what the problem is and how I can fix it.

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FREESURFER_HOME: /home/virtualuser/freesurfer

Build stamp: freesurfer-Linux-centos4-stable-pub-v5.1.0

Debian version: squeeze/sid

Kernel info: Linux 2.6.31-23-generic i686

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The command line: FreeSurfer:~/freesurfer/subjects> recon-all -subjid avo0260 -autorecon2

The error message: GCAMwrite(transforms/talairach.m3z): gzip encountered error. writing output transformation to transforms/talairach.m3z... GCAMwrite GCAMwrite:: m3z loop GCAMwrite:: the command is: gzip -f -c > transforms/talairach.m3z GCAMwrite:: the popen error code is: 12 mri_ca_register: GCAMwrite(transforms/talairach.m3z) failed ERROR: mri_ca_register with non-zero status 252 but continuing despite the error #-------------------------------------- #@# CA Reg Inv Fri Nov 18 11:23:25 EST 2011 /home/virtualuser/freesurfer/subjects/avo0260/mri

mri_ca_register -invert-and-save transforms/talairach.m3z

Loading, Inverting, Saving, Exiting ... Reading transforms/talairach.m3z ERROR: cannot find or read transforms/talairach.m3z ERROR: mri_ca_register with non-zero status 0 Linux FreeSurfer 2.6.31-23-generic #75-Ubuntu SMP Fri Mar 18 18:08:39 UTC 2011 i686 GNU/Linux

recon-all -s avo0260 exited with ERRORS at Fri Nov 18 11:23:26 EST 2011

The recon-all.log and recon-all.error files are attached.

Thanks for your time and help!

Regards, Linda Zhang University of Hong Kong

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