Hi, there,
I have question about the mris_volmask ERROR.
I ran multiple subjects on our SUN Grid Engine system. sometimes some subjects
are sent to the same cluster node, and limited memory is assigned to each
subject.
Because of this, I often met an ERROR at the mris_volmask --label_left_white
2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42
--save_ribbon --save_distance sub1 step
in autorecon3., which gave me an error like:
ERROR: In /usr/pubsw/packages/vtk/5.2.0/src/Common/vtkMultiThreader.cxx, line
372
vtkMultiThreader (0x33d05a90): Unable to create a thread. pthread_create()
returned 12
I knew this error is caused by some VTK function FS used to allocate memory.
What I did is everytime when I met this kind of error,
I use recon-all -s subj -autorecon3 -no-isrunning , and the process will
finish.
However, I found if I did something like this, it will cause problems at the
wm parcellation step. For example, I have the same subject which is sent to
SGE, fails at mris_volmask, and then I call autorecon3 to finish the process,
and I go to wmparc.stats, lotf of rois such as isthumus ctx-cingluate,
ctx-posterior singulate are 0.
While I ran the same subject at a local machine, and finished without any
problems, I looked at isthumus cingluate and posterior singulate, they are not
zeros.
So, does it mean that I need start from beginning when I met the errors cause
by mris_volmask?
Thanks a lot!
guang
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