Multiple fixes for AlphaLink2 backend#531

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DimaMolod merged 28 commits intomainfrom

Aug 7, 2025

Commits on Aug 4, 2025

Commits on Aug 5, 2025

Update AlphaLink2 submodule to latest main branch and commit all changes
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Remove leftover test files: test_simple_alphalink.py, fix_test_templates.py, create_simple_test.py
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Remove alphapulldown.egg-info directory and add *.egg-info/ to .gitignore
DimaMolod
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Commits on Aug 7, 2025

All tests passed but chain id == '9' for all monomers
DimaMolod
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