Thanks for your help. My command line is make_average_subject --out avgGrp139 --subjects `cat script/subjects.id` --xform talairach.m3z
On Thu, Mar 7, 2013 at 6:15 PM, Bruce Fischl <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> >> 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> 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<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<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
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