* symmetrical refactoring to support both af2 and af3 data pipelines
* Clean tests
* Keep GPU tests in place
* Reverted accidentally deleted templates
* Add AlphaFold3 feature creation pipeline and per-chain input generation
- Implement `create_pipeline_af3` to construct the AlphaFold3 data pipeline with correct database and binary paths.
- Add `create_af3_individual_features` to generate AlphaFold3 input features for each chain in a FASTA, handling protein, RNA, and DNA sequences.
- Integrate new AF3 logic into the main entry point, dispatching to AF2 or AF3 as appropriate.
- Ensure output directory creation and error handling for missing dependencies or invalid sequences.
* Convert template dates to datetime for af3
* First check for nucleotides, then for amino-acids
* Skip existing features json if --skip_existing=true
* Check if DNA before RNA
* Bump 2.1.0
* Git ignore build/ dir
