biopython
Pass
Audited by Gen Agent Trust Hub on Jun 26, 2026
Risk Level: SAFECOMMAND_EXECUTIONEXTERNAL_DOWNLOADSPROMPT_INJECTION
Full Analysis
- [COMMAND_EXECUTION]: The skill documents the use of Biopython wrappers for executing external command-line tools such as Clustal Omega, MUSCLE, BLAST+, and DSSP for alignment and structural analysis.
- [EXTERNAL_DOWNLOADS]: The skill enables network requests to official scientific databases including NCBI (via Bio.Entrez and Bio.Blast.NCBIWWW) and the Protein Data Bank (via Bio.PDB.PDBList) to retrieve sequences and structures.
- [PROMPT_INJECTION]: The skill processes untrusted biological data from files and remote APIs, creating a potential surface for indirect prompt injection.
- Ingestion points:
references/sequence_io.md(SeqIO),references/databases.md(Entrez),references/structure.md(PDBParser). - Boundary markers: Not present.
- Capability inventory: Subprocess execution, network access, and file system writes.
- Sanitization: No explicit data sanitization or validation of embedded text content is documented.
Audit Metadata