The Agent Skills Directory

[COMMAND_EXECUTION]: The skill uses the boltz predict command to process YAML-defined complexes and generate structure files (mmCIF/PDB) and confidence scores.
[EXTERNAL_DOWNLOADS]: The skill queries the ColabFold MSA server at api.colabfold.com to retrieve Multiple Sequence Alignments. The documentation explicitly states that the user's biological sequences are transmitted to this service for processing.
[INDIRECT_PROMPT_INJECTION]: The skill processes user-supplied protein sequences and SMILES/CCD ligand identifiers through YAML configuration files.
Ingestion points: The complex.yaml file, specifically the sequence and smiles fields.
Boundary markers: Data is parsed as structural YAML, which limits the potential for instructions to be misinterpreted as code.
Capability inventory: CLI command execution for prediction and local file system writes for results.
Sanitization: Input sequences and ligands are validated by the scientific parser in the Boltz-2 utility.

boltz