/usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data -Tmean mean_func

/usr/share/fsl/5.0/bin/bet2 mean_func mask -f 0.3 -n -m; /usr/share/fsl/5.0/bin/immv mask_mask mask

/usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data -mas mask prefiltered_func_data_bet

/usr/share/fsl/5.0/bin/fslstats prefiltered_func_data_bet -p 2 -p 98
0.000000 829.000000 

/usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_bet -thr 82.9 -Tmin -bin mask -odt char

/usr/share/fsl/5.0/bin/fslstats prefiltered_func_data -k mask -p 50
519.000000 

/usr/share/fsl/5.0/bin/fslmaths mask -dilF mask

/usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data -mas mask prefiltered_func_data_thresh

/usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_thresh -Tmean mean_func

/usr/share/fsl/5.0/bin/susan prefiltered_func_data_thresh 389.25 1.6985138004246285 3 1 1 mean_func 389.25 prefiltered_func_data_smooth

/usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_smooth -mas mask prefiltered_func_data_smooth

/usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_smooth -mul 19.26782273603083 prefiltered_func_data_intnorm

/usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_intnorm -Tmean tempMean

/usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_intnorm -bptf 37.5 -1 -add tempMean prefiltered_func_data_tempfilt

/usr/share/fsl/5.0/bin/imrm tempMean

/usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_tempfilt filtered_func_data

/usr/share/fsl/5.0/bin/fslmaths filtered_func_data -Tmean mean_func

/bin/rm -rf prefiltered_func_data*