Thank You Sungho.

After emailing you the the file requested,  I tried to run again on a different computers, and have now had success a computer running matlab2014b, and all seemed to work for the Results step (which is great, but still don't understand what was the issue before). 

However, I now get an error at the last stage - computation of individual contrast images

When I try the computation of 2D contrast images- i get the following error.

>> spm_fnirs_con2d
Error using load
Unable to read file '/Applications/sample_fnirs/stroop/meas/HbO/eeg_128sens.mat'. No such file
or directory.

Error in spm_fnirs_2dtopo (line 42)
load(fullfile(cd, 'eeg_128sens.mat'));
Error in spm_fnirs_con2d (line 18)
[N, interpY] = spm_fnirs_2dtopo(S, fname_c);

Doesn't much make sense (its calling an eeg_128sens.mat file)

When I try  computation of the 3D contrast I get the following error

>> spm_fnirs_con3d
Undefined function 'vert_mindist' for input arguments of type 'single'.

Error in spm_fnirs_roivert (line 29)
[xyz, vert] = vert_mindist(xyz_ch(i,:), Mh.vertices, r);
Error in spm_fnirs_con3d (line 24)
vinterp = spm_fnirs_roivert(pos, r);

This I assume is a matlab version issue?

Your help will be much appreciated. Once I get this, the road will be open to do group analysis on SPM with our own data, which will be fantastic. 

Thank you for your help in advance. 

Regards, 

Liat