Jeremie,

The AFNI package must be installed and setup independently from Freesurfer. Since you have it installed, it sounds like you just need to add the AFNI bin path to the search path. Something like this:

setenv PATH "$PATH":"$AFNI_BIN" rehash

Then test if it finds to3d by running it.

Nick

On Thu, 2006-05-18 at 09:21 -0500, Dreyfuss Jeremie wrote:

Hello everyone,

I'm new here to the freesurfer community, and i've install the latest package on my Linux.64 version. I've completed the installation stages described on MGH site and it all seemed to work quite well until I've tried to run the mc-sess routine. The error message I got was that AFNI's to3d routine couldn't be found. I then realised that in Freesurfer's package there wasn't any AFNI directory to be found. I've downloaded AFNI from their official site and put the extracted file in the directory $FREESURFER_HOME/afni/$os I've also modified the FreeSurferEnv.sch to include the following lines: setenv AFNI_DIR $FREESURFER_HOME/afni setenv AFNI_BIN $AFNI_DIR/$os where $os is Linux on my computer. Still mc-sess wouldn't work on my computer. Please if somebody can tell what I'm doing wrong it would be of great help.

Thanks in advance.

Jeremie DREYFUSS.