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Duplicate source files (7 pairs) and Module-scope CALLS edges not emitted #404

@4REHMA70

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@4REHMA70

All are byte-for-byte identical to their originals:

analysis 2.py, enrich 2.py, exports 2.py, graph_diff 2.py, jedi_resolver 2.py, memory 2.py, token_benchmark 2.py
Also: enrich 3.py, exports 3.py, memory 3.py
And: test_main 2.py, test_cli 2.py, test_main 2.py, etc.

Top-level (module-scope) function call statements don't produce CALLS edges attributed to the file node.

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