test file removed

rotary-embedding-torch modul added in requirement file, updated readme to accees cached directory

Fix syntax error in alignment.py - simplify complex list comprehension

Add angle brackets back to restore output to match original format

Remove debug statements and angle brackets formatting - restore functionality complete

Define get_sequences_from_anarci function directly in adapter

Use absolute import to avoid extra_utils.py conflicts

Fix import path for get_sequences_from_anarci

Move import inside method to avoid module-level import error

Fix import error for get_sequences_from_anarci

Implement proper alignment functionality using ANARCI

Add detailed debug prints to restore method

Implement working restore method in HFAbRestore class

Add debug prints to restore method and fix angle brackets formatting

Fix HuggingFaceTokenizerAdapter to match working implementation

Remove HFAbRestore.restore override to use original AbRestore.restore method

Use original AbLang2 restore logic from restoration.py

Add debug prints to restore method

Fix restore method to properly handle masked tokens

Revert restore method to use original AbLang2 logic

Remove problematic alignment from restore method - return sequences as-is

Add basic alignment support to restore method

Remove spaces from decoded sequences in restore method

Fix decode method in restore to use original tokenizer

Fix tokenizer interface in HFAbRestore.restore method

Implement proper restore method in HFAbRestore to actually restore masked residues

Fix restore method to not add double angle brackets

Add missing likelihood method implementation to adapter class

Add missing rescoding method implementation to adapter class

Add missing seqcoding method implementation to adapter class

Remove problematic imports and add utility files to config.json auto_map

Force import utility files to ensure they are downloaded

Add imports for utility files to ensure they are downloaded with the model

Force creation of utility files inline when in Hugging Face cache directory

Prioritize current directory for utility files to use downloaded files from Hugging Face

Fix import conflicts by removing /content from sys.path and ensuring imports from cache directory

Fix syntax error in inline alignment.py template

Add inline utility file creation for missing files in Google Colab and other environments

Improve utility file copying for Google Colab and other environments

updated notebook with updated adapter code

Override _encode_sequences and _predict_logits to use HuggingFace tokenizer interface

Fix tokenizer and format_seq_input to properly handle paired sequences with angle brackets

Simplify adapter to use direct imports without package structure

Add error handling and verification for encodings.py copy operation

Fix path issue for encodings.py copy operation

Add debugging to see why encodings.py copy is not working

Fix encodings.py copy condition to ensure it's always copied

Add debugging to see what files are copied to pretrained_utils

Fix directory creation issue in adapter file copying

Restore original adapter code from AbLang2_final_version with file copying mechanism