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Deep copy optimization

schoi839 requested to merge feature/deepcopy-optimization into develop

This merge request is a little dangerous since I remove deep copy from many places when performing AddNodeMutation.

In particular, note that

  1. aggregated_cache is not copied but only referenced
  2. Ecotransit caches are also not deep copied.

It leads to faster performance but can be dangerous as we could end up modifying the cache...

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