The xform has to be linear in the xfm format. The m3z cannot be used. doug On 03/07/2013 06:44 PM, Xiaowei Song wrote: > Thanks for your help. > > My command line is > make_average_subject --out avgGrp139 --subjects `cat > script/subjects.id <http://subjects.id>` --xform talairach.m3z > > > On Thu, Mar 7, 2013 at 6:15 PM, Bruce Fischl > <fis...@nmr.mgh.harvard.edu <mailto:fis...@nmr.mgh.harvard.edu>> wrote: > > what was your command line? > > On Thu, 7 Mar 2013, Xiaowei Song wrote: > > Sorry, I did not make it clear. > In make_average_volume.log, the error message is: > > 1/139 1173622 aseg Sat Feb 23 02:26:02 EST 2013 > mri_vol2vol --mov /data/lis9/fs/x/1173622/mri/aseg.mgz --targ > /usr/local/freesurfer/average/mni305.cor.mgz --xfm > /data/lis9/fs/x/1173622/mri/transforms/talairach.m3z --o > > /data/lis9/fs/x/avgGrp139/tmp/make_average_vol-tmp-55832/seg-1173622.mgh > --interp nearest > ERROR: /data/lis9/fs/x/1173622/mri/transforms/talairach.m3z > does not start > as 'MNI Transform File'/spin1/users/lis9/fs/dcm.mprage.mgz > ERROR: mri_vol2vol failed. > > > On Thu, Mar 7, 2013 at 5:49 PM, Bruce Fischl > <fis...@nmr.mgh.harvard.edu <mailto:fis...@nmr.mgh.harvard.edu>> > wrote: > sorry, I don't understand. What was the error? I don't > see one > in this email. Can you send us the actual screen output? > > cheers > Bruce > On Thu, 7 Mar 2013, Xiaowei Song wrote: > > This error may come from regio_read_mincxfm function > in registerio.c.Does > this mean something wrong in recon-all? > > I forgot to mention that FreeSurfer version is > freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0 > > > On Thu, Mar 7, 2013 at 5:34 PM, Xiaowei Song > <dawnwei.s...@gmail.com > <mailto:dawnwei.s...@gmail.com>> wrote: > Hi all, > > Did you encounter the error message talairach.m3z > does not start as > 'MNI Transform File' when making average of > subjects? > > I checked all the recon-all.log file and did not > find error, but when > running make_average_subject after recon-all, then > this error shoot. > > To repeat the error message, I tried the following > command which is > called by make_average_subject and found all my > subjects shoot this > error. > > mri_vol2vol --mov 1173622/mri/aseg.mgz --targ > /usr/local/freesurfer/average/mni305.cor.mgz --xfm > 1173622/mri/transforms/talairach.m3z --o > /tmp/make_average_vol-tmp-164320_seg-1173622.mgh > --interp nearest > > I found another same question asked before, > butnoanswer. > https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2012-May/0 > 24 > 064.html > > Any hint or help will be appreciated. Thank you. > > -- > Xiaowei Song > > > > > -- > Xiaowei Song > > > > > The information in this e-mail is intended only for the person > to whom > it is > addressed. If you believe this e-mail was sent to you in error > and the > e-mail > contains patient information, please contact the Partners > Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was > sent to you > in error > but does not contain patient information, please contact the > sender > and properly > dispose of the e-mail. > > > > > -- > Xiaowei Song > > > > > -- > Xiaowei Song > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
