cuda-biology

Biological agent runtime mapping the instinct→enzyme→gene→RNA→protein pipeline to instruction set bytecode. Every operation costs ATP. Circadian rhythm modulates instinct strength. Apoptosis terminates unsustainable agents.

The 10 Instincts

Instinct	Effect	Energy
Survive	HALT, TRAP, RESOURCE_ACQUIRE	0 (free)
Perceive	IO_READ, SENSOR_ACQUIRE, FUSE_CONF	0.5 (cheap)
Navigate	JMP, CALL, RET	0.3
Communicate	TELL, ASK, BROADCAST	1.0
Learn	BOX, UNBOX, REGION_CREATE	1.5
Defend	MEMBRANE_CHK, VERIFY, CAP_REQ	0.8
Rest	ATP_GEN	-gen_rate (generates)
Play	Explore unknown states	0.7
Create	Compose new gene patterns	2.0
Socialize	TRUST_UPDATE, DELEGATE	1.0

Pipeline

Environment → Sensors → Membrane → Enzymes → Genes → RNA → Proteins → FLUX bytecode → Action → Feedback

Quick Start

git clone https://github.com/Lucineer/cuda-biology.git
cd cuda-biology
cargo test    # 12 tests

Key Types

• Instinct — 10 biological instincts with energy profiles
• Enzyme — Catalyze gene expression (lower activation threshold)
• Gene — Encoded behavior patterns with fitness scores
• Protein — Compiled gene output (bytecode sequences)
• Membrane — Permeability filter (what signals get through)

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Fleet Context

Part of the Lucineer/Cocapn fleet. See fleet-onboarding for boarding protocol.

• Vessel: JetsonClaw1 (Jetson Orin Nano 8GB)
• Domain: Low-level systems, CUDA, edge computing
• Comms: Bottles via Forgemaster/Oracle1, Matrix #fleet-ops