Hi, Hopefully this is something simple. When I try to check the talairach transform for my subjects I type:
tkregister2 --mgz --s SM1C2_autoreconall --fstal --surf orig and then I get this error: subject = SM1C2_autoreconall Reading lh surface orig MRISread(/space/troy/3/users/retrievalnewest/SM1C2_autoreconall/surf/lh.orig): could not open file No such file or directory /usr/local/freesurfer/stable/bin/tkregister2.bin: could not read surface orig No such file or directory orig.mgz is in the mri folder. why is it looking for lh.orig? Without the surf tag, tkregister loads the transform fine but I do not get the green surface outlines to assist with the registration. A more detailed transcription of the error is pasted below if needed. Thanks, Cameron [troy:SM1C2_autoreconall] (nmr-std-env) cd .. [troy:retrievalnewest] (nmr-std-env) pwd /autofs/space/troy_003/users/retrievalnewest [troy:retrievalnewest] (nmr-std-env) tkregister2 --mgz --s SM1C2_autoreconall --fstal --surf orig surfname set to orig INFO: no target volume specified, assuming FreeSurfer orig volume. target volume orig movable volume (null) reg file (null) LoadVol 1 $Id: tkregister2.c,v 1.49.2.4 2006/03/27 21:48:16 greve Exp $ Diagnostic Level -1 %Mon Jan 8 14:55:02 2007>>> /usr/local/freesurfer/dev/mni/bin/minctracc -clobber -debug /tmp/mritotal_2618/src_8_dxyz.mnc /usr/local/freesurfer/dev/mni/bin/../share/mni_autoreg/average_305_8_dxyz.mnc transforms/talairach.auto.xfm -transformation /tmp/mritotal_2618/src_8tmp2c.xfm -lsq9 -xcorr -model_mask /usr/local/freesurfer/dev/mni/bin/../share/mni_autoreg/average_305_8_mask.mnc -center -2.114464 54.148323 -58.055290 -step 4 4 4 -tol 0.004 -simplex 2 talairach.xfm --------------------- 0.790 -0.163 0.022 8.207; 0.189 0.845 -0.535 -58.555; 0.093 0.573 0.939 13.334; 0.000 0.000 0.000 1.000; INFO: loading target /space/troy/3/users/retrievalnewest/SM1C2_autoreconall/mri/orig.mgz INFO: changing target type to float Ttarg: -------------------- -1.000 -0.000 0.000 125.117; 0.000 -0.000 1.000 -84.596; -0.000 -1.000 0.000 84.914; 0.000 0.000 0.000 1.000; INFO: loading movable /usr/local/freesurfer/stable/average/mni305.cor.mgz INFO: changing move type to float Tmov: -------------------- -1.000 0.000 0.000 128.000; 0.000 0.000 1.000 -128.000; 0.000 -1.000 0.000 128.000; 0.000 0.000 0.000 1.000; mkheaderreg = 0, float2int = 0 ---- Input registration matrix -------- 0.790 -0.163 0.022 8.207; 0.189 0.845 -0.535 -58.555; 0.093 0.573 0.939 13.334; 0.000 0.000 0.000 1.000; subject = SM1C2_autoreconall Reading lh surface orig MRISread(/space/troy/3/users/retrievalnewest/SM1C2_autoreconall/surf/lh.orig): could not open file No such file or directory /usr/local/freesurfer/stable/bin/tkregister2.bin: could not read surface orig No such file or directory _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
