Dear Eric,

i traced again and these are the result while i make all of the linse un commented 

in line 422, stmp has this value: stmp = 3dcopy resp_PESTICA2.nii ./____tmp_resp_PESTICA2

and the result of unix(stmp) in line 423 produce this error: /bin/bash: 3dcopy: command not found

this is so strange! (and thats why i added those lines to the run_pestica.sh just to create the same thing)

my matlab version is R2013a, and i have the lastes afni version, and as i noticed before i dont have any problem with afni commands in my mac terminal. and even with afni_matlab toolbox, this is the only problem that i have.