Hi Bruce and all,
Thank you for your help. Bill Monaco emailed and let me know that this happened to him as well. He suggested running the '-autorecon2 -autorecon3' flags on this subject (as opposed to the 'recon-all -all'), and this worked for me!
However, here is the end of the recon-all.log file, where the CA Reg error occured:
pct change decreased switching integration type to fixed (done=0) pct change decreased pct change < tol 0.025, nsmall = 1 of 2 pct change decreased pct change decreased pct change decreased pct change decreased pct change decreased pct change decreased pct change decreased pct change decreased pct change decreased pct change decreased pct change decreased pct change < tol 0.025, nsmall = 1 of 2 pct change decreased pct change decreased pct change < tol 0.025, nsmall = 1 of 2 pct change decreased pct change < tol 0.025, nsmall = 1 of 2 pct change < tol 0.025, nsmall = 2 of 2 switching integration type to fixed (done=1) pct change decreased pct change < tol 0.025, nsmall = 1 of 2 pct change < tol 0.025, nsmall = 2 of 2 setting smoothness coefficient to 0.40 blurring input image with Gaussian with sigma=2.000... rms increased - undoing step... blurring input image with Gaussian with sigma=0.500... pct change decreased rms increased - undoing step... setting smoothness coefficient to 1.00 blurring input image with Gaussian with sigma=2.000... pct change decreased switching integration type to fixed (done=0) rms increased - undoing step... pct change < tol 0.025, nsmall = 1 of 2 blurring input image with Gaussian with sigma=0.500... pct change decreased swSegmentation fault ERROR: mri_ca_register with non-zero status Linux node0052 2.6.9-42.0.3.ELsmp #1 SMP Fri Oct 6 06:21:39 CDT 2006 i686 athlon i386 GNU/Linux
recon-all exited with ERRORS at Wed Oct 24 07:03:49 EDT 2007
Thank you, Caroline
On Thu, 6 Dec 2007, Bruce Fischl wrote:
Hi Caroline,
can you send us the end of the recon-all.log when it fails?
Bruce On Thu, 6 Dec 2007, Caroline Chapman wrote:
Hello,
I am having trouble with one subject during the recon-all process. It has failed twice at CA Reg:
status file for recon-all Thu Nov 8 15:11:20 EST 2007 #@# MotionCor Thu Nov 8 15:11:20 EST 2007 #@# Nu Intensity Correction Thu Nov 8 15:18:50 EST 2007 #@# Talairach Thu Nov 8 15:21:26 EST 2007 #@# Intensity Normalization Thu Nov 8 15:23:01 EST 2007 #@# Skull Stripping Thu Nov 8 15:30:05 EST 2007 #@# EM Registration Thu Nov 8 15:33:05 EST 2007 #@# CA Normalize Thu Nov 8 15:42:54 EST 2007 #@# CA Reg Thu Nov 8 15:45:14 EST 2007 Linux node0052 2.6.9-42.0.3.ELsmp #1 SMP Fri Oct 6 06:21:39 CDT 2006 i686 athlon i386 GNU/Linux
The brainmask, orig, and talairach look okay. Any ideas why this might be failing?
Thanks! Caroline