Hi,

Did the process actually stop running?  The old location, with the old name is hard coded into some of the volumes.  By default freesurfer will first look in the hard coded location, but then it will look in the location based on the current SUBJECTS_DIR and subject name.  The last line of output you pasted says:

Loading tal xfm file /usr/local/freesurfer/subjects/001/mri/transforms/talairach.xfm

This is the correct location – but only if your SUBJECTS_DIR is set to /usr/local/freesurfer/subjects

I’m willing to bet that your SUBJECTS_DIR is set wrong – try resetting it and try the command again.  You may see the same messages about the talairach, but they are not necessarily errors.

Jenni