v3.2.2

Release Notes

Documentation

• Added comprehensive Available Models section to README with tables for:
  • ESM3 Family models (flagship, published, and experimental variants)
  • ESM C models with specifications
• Updated notebook examples with improved import organization

API & SDK Enhancements

• Experimental Guided Generation with Constraints: New ESM3GuidedDecodingWithConstraints class supporting:
  • Constraint-based protein generation using Modified Differential Method of Multipliers
  • Multiple constraint types (GREATER_EQUAL, LESS_EQUAL, EQUAL)
  • Trajectory visualization for constrained optimization
• Enhanced LogitsConfig and LogitsOutput with mean embedding support
• Improved PDB export functionality to match expected behavior
• Added confidence scores to protein complex chains

Bug Fixes & Improvements

• Fixed Flash Attention import handling for better compatibility
• Improved error handling in Forge client with proper exception propagation
• Enhanced potential_sequence_of_concern parameter handling (now optional)
• Removed unnecessary DSSP annotation from default protein chain conversion
• Improved oxygen inference in PDB string generation

Examples & Tutorials

• Updated guided generation tutorial with constraint-based examples
• Added visualization for constraint optimization trajectories
• Improved code examples with better formatting and organization