[Freesurfer] Recon-all failing at CA Reg

2007-12-06 Thread Caroline Chapman
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 [EMAIL PROTECTED] MotionCor Thu Nov 8 15:11:20 EST 2007 [EMAIL PROTECTED] Nu Intensity Correction Thu Nov 8 15:18:50 EST 2007 [EMAIL

Re: [Freesurfer] Recon-all failing at CA Reg

2007-12-06 Thread Bruce Fischl
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 [EMAI

Re: [Freesurfer] Recon-all failing at CA Reg

2007-12-07 Thread Bruce Fischl
Hi Caroline, can you replicate this problem? Does it always happen for this subject? If so, please send me the data and I'll fix it. Bruce On Fri, 7 Dec 2007, Caroline Chapman wrote: Hi Bruce and all, Thank you for your help. Bill Monaco emailed and let me know that this happened to him

Re: [Freesurfer] Recon-all failing at CA Reg

2007-12-07 Thread Caroline Chapman
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.