Change where we rename Descriptor.cs to DescriptorProtoFile.cs.

We now do this in protoc instead of the generation simpler.

Benefits:
- Generation script is simpler
- Detection is simpler as we now only need to care about one filename
- The embedded descriptor knows itself as "google/protobuf/descriptor.proto" avoiding dependency issues

This PR also makes the "invalid dependency" exception clearer in terms of expected and actual dependencies.