Hi Cyrus,
it's almost certainly running out of ram. How much do you have in that machine/VirtualBox?
Bruce
On Wed, 9 May 2012, Sarosh, Cyrus wrote:
I have run recon?all on multiple subjects and have had it fail at the same step every time with the same error. I am using VirtualBox with the provided Disk Image and Windows 7.
0560: dt=0.001750, rms=0.358 (0.039%), neg=0, invalid=766
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 Tue May 8 16:45:14 EDT 2012
/home/virtualuser/freesurfer/subjects/test/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 2.6.28-11-generic #42-Ubuntu SMP Fri Apr 17 01:57:59 UTC 2009 i686 GNU/Linux
recon-all -s test exited with ERRORS at Tue May 8 16:45:15 EDT 2012
Has anyone had this issue and resolved this problem? Thanks for your help.
- Cyrus
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