Refactor: Remove Unnecessary Bug Skipping Logic and Consolidate Graph Functions for Code Reuse

[mannaandpoem]

PR Description:

This pull request includes two main changes aimed at improving the codebase for maintainability and clarity:

Key Changes:

1. Remove Logic to Skip First 54 Bug Instances:

   • Removed the debugging code that was used to skip the first 54 bug instances in swe_bench_data during processing.
   • This change ensures that all bug instances are now processed from the start, making the processing logic cleaner and more reliable for production.

2. Consolidate retrieve_graph and construct_code_graph_context Functions for Code Reuse:

   • Moved the retrieve_graph and construct_code_graph_context functions from localize.py and repair.py into get_repo_structure.py.
   • This refactor reduces code duplication and improves maintainability by centralizing these shared functions in a common module.