Number of relatively minor fixes

A number of smaller fixes that make the examples run up to GNN evaluation.

They inclued:

• Fixes https://gitlab.cern.ch/gnn4itkteam/commonframework/-/issues/40
• Fixes https://gitlab.cern.ch/gnn4itkteam/commonframework/-/issues/39
• Fixes https://gitlab.cern.ch/gnn4itkteam/commonframework/-/issues/38
• Fixes https://gitlab.cern.ch/gnn4itkteam/commonframework/-/issues/34
• Fixes https://gitlab.cern.ch/gnn4itkteam/commonframework/-/issues/33

Note: This does not fix the entire chain yet.