Hi Zohreh,


Thanks. 

1. Did you run your results using the ShapeAnalysisModule command or just running intermediate commands one-by-one? Running one by one is useful to diagnose problems, but it would be helpful if you could run the whole shape analysis pipeline via ShapeAnalysisModule and attach a zipped version of your output folder.

2. If I am guessing correctly, segpostprocess worked ok (your files Output Image1 look ok - by the way just an advice, refrain from using spaces in folder names and outputs, underscore is ok "_"), but something went wrong in ParaToSPHARM, when editing the surfSPHARM meshes you attach the vertices have NAN values. 

3. As Martin said, at the moment we do not provide support for SPHARM coefficient analysis. We do provide the coefficients in the *surfSPHARM.coef in an ASCII file that can be read with any standard i/o library, and have plenty of collaborators that have analyzed them by designing their own protocols. 

I hope that helps,

Beatriz