Hi Shahrokh,

I am happy to hear things are moving forward.

The steps that you mention are all good ways to run statistical analysis to test for group differences in Spharm. The error you mention in the First way is a legacy error. Before, spharm used to create mrml scene files to load in Slicer, but that is no longer supported. The files resulting from the Second way are the right results files.

At this point you will have to run some analysis steps manually on your own to visualize the results. Could you please let me know how did you run the spharm pdm pipeline? Via command line or Slicer extension? Also what OS: MacOS, Linux or Windows?


I am happy to guide you through the necessary steps once you provide that information.
Thank you,


Beatriz