then you need to fix it manually I guess. There's a tutorial on doing this on the wiki (using tkregistter2).
cheers Bruce On Fri, 3 Sep 2010, Oya, Hiroyuki wrote:
talairach.xfm file is as below:
MNI Transform File % tkregister2
Transform_Type = Linear; Linear_Transform = 1.37266099 0.20895453 0.18430687 13.98477840 0.46526164 0.99459654 -3.29530478 68.71842194
-0.81687593 0.73364604 3.47314310 -136.09573364 ;
This looks awful. an image is also attached. Thanks again.
On Fri, 2010-09-03 at 09:36 -0400, Bruce Fischl wrote:
can you post these to the list so others can answer? Did you check the talairach.xfm with either tkmedit or tkregister2?
On Fri, 3 Sep 2010, Oya, Hiroyuki wrote:
Hi Bruce,
Bringing up the image with tkmedit, directions are correct. And I have not done any process in Analyze format.
Thank you.
On Fri, 2010-09-03 at 09:24 -0400, Bruce Fischl wrote:
Hi Hiroyuki,
can you check to make sure that the direction cosines are correct? Bring up the orig.mgz and make sure that coronal is coronal, sagittal is sagittal and horizontal is horizontal. Did this data go through analyze at any time?
cheers Bruce
On Fri, 3 Sep 2010, Oya, Hiroyuki wrote:
Dear all,
recon-all failed at the talairach stage.
ERROR: talairach_afd: Talairach Transform: transforms/talairach.xfm ***FAILED*** (p=0.0000, pval=0.0000 < threshold=0.0050) Linux hiroyuki-desktop 2.6.32-24-generic #42-Ubuntu SMP Fri Aug 20 14:21:58 UTC 2010 x86_64 GNU/Linux
In what circumstances do we see this? T1 STRUCTURAL looks OK . Any comment would be appreciated.
Hiroyuki
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//***********************// Hiroyuki Oya, M.D. Assistant Professor, Department of Neurosurgery, University of Iowa, 200 Hawkins drive, Iowa City, IA, 52242-1061, USA tel:1-319-353-8452 e-mail: hiroyuki-oya@uiowa.edu fax:1-319-353-6605
//***********************// Hiroyuki Oya, M.D. Assistant Professor, Department of Neurosurgery, University of Iowa, 200 Hawkins drive, Iowa City, IA, 52242-1061, USA tel:1-319-353-8452 e-mail: hiroyuki-oya@uiowa.edu fax:1-319-353-6605