operon/examples/59_plasmid_registry.py at main · coredipper/operon · GitHub

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"""
Example 59: Plasmid Registry — Horizontal Gene Transfer
========================================================

Demonstrates dynamic tool acquisition from a searchable registry,
implementing the paper's horizontal gene transfer construction in §6.2.

Biological Analogy:
- Plasmid = small circular DNA encoding a useful gene (tool)
- Registry = environmental pool of plasmids
- Acquisition = bacterial conjugation / transformation
- Optional capability gating = restriction enzymes (when capability envelopes are configured)
- Release = plasmid curing

Key points:
1. Tools are no longer static at construction time
2. Agents can dynamically discover and acquire new capabilities
3. Optional capability gating prevents privilege escalation when enabled
4. Released tools are cleanly removed

References:
- Article Section 6.2: Horizontal Gene Transfer - Dynamic Tool Loading
"""

from operon_ai.core.types import Capability
from operon_ai.organelles.mitochondria import Mitochondria
from operon_ai.organelles.plasmid import Plasmid, PlasmidRegistry


def main():
    try:
        print("=" * 60)
        print("Plasmid Registry — Horizontal Gene Transfer")
        print("=" * 60)

        # =================================================================
        # SECTION 1: Create a Plasmid Registry
        # =================================================================
        print("\n--- Section 1: Plasmid Registry ---")

        registry = PlasmidRegistry()

        registry.register(Plasmid(
            name="reverse",
            description="Reverse a string",
            func=lambda s: s[::-1],
            tags=frozenset({"text", "utility"}),
        ))

        registry.register(Plasmid(
            name="word_count",
            description="Count words in text",
            func=lambda s: len(s.split()),
            tags=frozenset({"text", "analysis"}),
        ))

        registry.register(Plasmid(
            name="fetch_url",
            description="Fetch a URL (simulated)",
            func=lambda url: f"<html>Content from {url}</html>",
            tags=frozenset({"network", "io"}),
            required_capabilities=frozenset({Capability.NET}),
        ))

        print(f"  Registry size: {len(registry)} plasmids")
        for item in registry.list_available():
            caps = item["required_capabilities"] or ["none"]
            print(f"    {item['name']}: tags={item['tags']}, caps={caps}")

        # =================================================================
        # SECTION 2: Search the Registry
        # =================================================================
        print("\n--- Section 2: Search ---")

        text_tools = registry.search(tags={"text"})
        print(f"  Text tools: {[p.name for p in text_tools]}")

        net_tools = registry.search("fetch")
        print(f"  Network tools: {[p.name for p in net_tools]}")

        # =================================================================
        # SECTION 3: Dynamic Acquisition
        # =================================================================
        print("\n--- Section 3: Dynamic Acquisition ---")

        mito = Mitochondria(
            allowed_capabilities={Capability.READ_FS},
            silent=True,
        )
        print(f"  Initial tools: {list(mito.tools.keys())}")

        # Acquire a tool with no capability requirements
        result = mito.acquire("reverse", registry)
        print(f"  Acquire 'reverse': success={result.success}")

        result = mito.acquire("word_count", registry)
        print(f"  Acquire 'word_count': success={result.success}")

        print(f"  Tools after acquisition: {list(mito.tools.keys())}")

        # =================================================================
        # SECTION 4: Capability Gating
        # =================================================================
        print("\n--- Section 4: Capability Gating ---")

        # fetch_url requires NET, but mito only allows READ_FS
        result = mito.acquire("fetch_url", registry)
        print(f"  Acquire 'fetch_url': success={result.success}")
        print(f"  Reason: {result.error}")

        # Create a mito with NET capability
        net_mito = Mitochondria(
            allowed_capabilities={Capability.NET},
            silent=True,
        )
        result = net_mito.acquire("fetch_url", registry)
        print(f"  Acquire with NET cap: success={result.success}")

        # =================================================================
        # SECTION 5: Execute Acquired Tools
        # =================================================================
        print("\n--- Section 5: Execute Acquired Tools ---")

        r = mito.metabolize('reverse("hello world")')
        print(f"  reverse('hello world') = {r.atp.value}")

        r = mito.metabolize('word_count("the quick brown fox")')
        print(f"  word_count('the quick brown fox') = {r.atp.value}")

        # =================================================================
        # SECTION 6: Release (Plasmid Curing)
        # =================================================================
        print("\n--- Section 6: Plasmid Release ---")

        print(f"  Tools before release: {list(mito.tools.keys())}")
        mito.release("reverse")
        print(f"  Tools after releasing 'reverse': {list(mito.tools.keys())}")

        # Verify tool is gone
        r = mito.metabolize('reverse("test")')
        print(f"  Execute after release: success={r.success}")
        print(f"  Error: {r.error}")

        # Re-acquire is possible
        result = mito.acquire("reverse", registry)
        print(f"  Re-acquire 'reverse': success={result.success}")
        print(f"  Tools: {list(mito.tools.keys())}")

        # =================================================================
        # SECTION 7: Schema Export
        # =================================================================
        print("\n--- Section 7: Schema Export ---")

        schemas = mito.export_tool_schemas()
        for s in schemas:
            print(f"  {s.name}: {s.description}")

        print("\n" + "=" * 60)
        print("DONE — Plasmid Registry demonstrated successfully")
        print("=" * 60)

    except Exception as e:
        print(f"\nError: {e}")
        raise


if __name__ == "__main__":
    main()