replace retrieve by get_entity_by... methods

See, e.g., the underlying problem in https://gitlab.com/linkahead/linkahead-pylib/-/issues/123. We need to replace the Entity.retrieve method by the much more meaningful get_entity_by_name/get_entity_by_id methods.

Also, we should be very careful when retrieving entities with different roles. Maybe we should abandon Entity.retrieve and only allow it for the subclasses?

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• Reproduce bug + write test
• Implement: I suggest not to use get_entity_by_id as id retrieval should be unique anyways, and large containers might take extremely long otherwise. Using get_entity_by_name if no ID is set should be sufficient to catch ambiguous retrieves.

Code-MR: !168
Test-MR: caosdb-pyinttest!87