Mishkin,
Append mri/ to aseg.mgz. I'll correct the wiki page.
Nick
On Wed, 2007-02-28 at 17:19 -0500, Mishkin DERAKHSHAN wrote:
Hi, I just installed the rh9 version of fressurfer. I am running Ubuntu 6.10. I had the libtiff.so.3 error, which I seemed to have fixed by just making a sym link to libtiff.so.4 ( I hope that is okay). Now I get this error about the aseg.mgz.gz not existing. It looks like it isn't looking in the mri/ dir as it should be.
mishkin@thinkpad:/usr/local/freesurfer$ tkmedit bert norm.mgz -segmentation aseg.mgz $FREESURFER_HOME/FreeSurferColorLUT.txt libGL warning: 3D driver claims to not support visual 0x5b Talairach transform /autofs/space/freesurfer/subjects/bert/mri/transforms/talairach.xfm does not exist ... Loading tal xfm file /usr/local/freesurfer/subjects/bert/mri/transforms/talairach.xfm zcat: /usr/local/freesurfer/subjects/bert//aseg.mgz.gz: No such file or directory mghRead(/usr/local/freesurfer/subjects/bert//aseg.mgz, -1): read error Reading /usr/local/freesurfer/lib/tcl/tkm_common.tcl Reading /usr/local/freesurfer/lib/tcl/tkm_wrappers.tcl
These are the only things i've added to my .bashrc : export FREESURFER_HOME=/usr/local/freesurfer source $FREESURFER_HOME/SetUpFreeSurfer.sh
which produces this output: -------- freesurfer-Linux-rh9-stable-pub-v3.0.5 -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /usr/local/freesurfer FSFAST_HOME /usr/local/freesurfer/fsfast SUBJECTS_DIR /usr/local/freesurfer/subjects MNI_DIR /usr/local/freesurfer/mni GSL_DIR /usr/local/freesurfer/lib/gsl FSL_DIR /usr/local/freesurfer/fsl
Did I forget to set a variable somewhere? thanks, mishkin
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer