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This is common. Once you import a script, it becomes cached so even if you make changes to it and save it, python won't see the changes. You need to reload it as you said if you make changes to the imported script after running your main script.
I am not familiar with SCANIP or it's image formats, but can't you export your data as an stl or another compatible image format?
In the 'Model' tab, if you click on 'Imp/ Export' -> 'Import' you should be able to see the different file formats that can be imported.
If Exporting your whole model as some compatible format doesn't work, maybe you can export the different tissues individually?
If this doesn't work then maybe you can email the support team to request compatibility?