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Add LinkGraph to replace ObjectLink and LinkCollection #252

Merged
merged 14 commits into from
Jun 10, 2024
Merged

Add LinkGraph to replace ObjectLink and LinkCollection #252

merged 14 commits into from
Jun 10, 2024

Commits on Jun 10, 2024

  1. Update pyproject.toml

    @CunliangGeng
    CunliangGeng committed Jun 10, 2024
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  2. Delete link_collection.py

    @CunliangGeng
    CunliangGeng committed Jun 10, 2024
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  3. Delete object_link.py

    @CunliangGeng
    CunliangGeng committed Jun 10, 2024
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  4. Create scoring_method.py

    @CunliangGeng
    CunliangGeng committed Jun 10, 2024
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  5. Create score.py

    @CunliangGeng
    CunliangGeng committed Jun 10, 2024
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  6. Create link_graph.py

    @CunliangGeng
    CunliangGeng committed Jun 10, 2024
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  7. Update __init__.py

    @CunliangGeng
    CunliangGeng committed Jun 10, 2024
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  8. Create test_score.py

    @CunliangGeng
    CunliangGeng committed Jun 10, 2024
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  9. Create test_scoring_method.py

    @CunliangGeng
    CunliangGeng committed Jun 10, 2024
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  10. Create test_link_graph.py

    @CunliangGeng
    CunliangGeng committed Jun 10, 2024
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  11. update abc.py to use LinkGraph

    @CunliangGeng
    CunliangGeng committed Jun 10, 2024
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  12. Update MetcalfScoring to use LinkGraph 

    - Use LinkGraph to replace ObjectLink and LinkCollection
- remove attribute `cutoff` and `standardised`. Now users have to pass them as parameters
    @CunliangGeng
    CunliangGeng committed Jun 10, 2024
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  13. update NPLinker and other scoring methods to use LinkGraph 

    These updates are just to make sure code can import. Further refactoring is needed to ensure the correct output.
    @CunliangGeng
    CunliangGeng committed Jun 10, 2024
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  14. Update test_nplinker_scoring.py

    @CunliangGeng
    CunliangGeng committed Jun 10, 2024
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