Hi everyone,
I am very new to freesurfer/qdec. What I would like to do is examine the results of a feat analysis in qdec and then perform further between-subject analyses with behavioural data (http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/FslFeatFreeSurfer). I've run against problems at the first stage (registration) (http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/RegisterFeatOntoAnatomic...). I imagine something is not set up right?
Christophe-de-Bezenacs-MacBook-Pro:~ chdebezenac$ tcsh setenv FREESURFER_HOME freesurfer [Christophe-de-Bezenacs-MacBook-Pro:~] chdebezenac% setenv FREESURFER_HOME freesurfer [Christophe-de-Bezenacs-MacBook-Pro:~] chdebezenac% source freesurfer/SetUpFreeSurfer.csh -------- freesurfer-Darwin-snowleopard-i686-stable-pub-v5.3.0 -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME freesurfer FSFAST_HOME freesurfer/fsfast FSF_OUTPUT_FORMAT nii.gz SUBJECTS_DIR freesurfer/subjects MNI_DIR freesurfer/mni FSL_DIR /usr/local/fsl [Christophe-de-Bezenacs-MacBook-Pro:~] chdebezenac% setenv SUBJECTS_DIR freesurferX/subjects [Christophe-de-Bezenacs-MacBook-Pro:~] chdebezenac% cd $SUBJECTS_DIR [Christophe-de-Bezenacs-MacBook-Pro:~/freesurferX/subjects] chdebezenac% cd scan1Cor.feat [Christophe-de-Bezenacs-MacBook-Pro:~/freesurferX/subjects/scan1Cor.feat] chdebezenac% ln -s $SUBJECTS_DIR/fsaverage ln: ./fsaverage: File exists [Christophe-de-Bezenacs-MacBook-Pro:~/freesurferX/subjects/scan1Cor.feat] chdebezenac% ln -s $SUBJECTS_DIR/S1 ln: ./S1: File exists [Christophe-de-Bezenacs-MacBook-Pro:~/freesurferX/subjects/scan1Cor.feat] chdebezenac% reg-feat2anat --feat scan1Cor.feat --subject S1 reg-feat2anat: Command not found. [Christophe-de-Bezenacs-MacBook-Pro:~/freesurferX/subjects/scan1Cor.feat] chdebezenac% cd [Christophe-de-Bezenacs-MacBook-Pro:~] chdebezenac% cd $SUBJECTS_DIR [Christophe-de-Bezenacs-MacBook-Pro:~/freesurferX/subjects] chdebezenac% ls S1 S4 fbert lh.EC_average scan1Cor.feat S2 S5 fbert2.feat qdec S3 bert fsaverage rh.EC_average [Christophe-de-Bezenacs-MacBook-Pro:~/freesurferX/subjects] chdebezenac% reg-feat2anat --feat scan1Cor.feat --subject S1 reg-feat2anat: Command not found. [Christophe-de-Bezenacs-MacBook-Pro:~/freesurferX/subjects] chdebezenac%
Any help would be greatly appreciated,
Christophe