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Design a compliance architecture that maps applicable regulations to computerized systems. Covers system inventory, criticality classification (GxP-critical, GxP-supporting, non-GxP), GAMP 5 category assignment, regulatory requirements traceability, and governance structure definition. Use when establishing a new regulated facility, formalising compliance across multiple systems, addressing a regulatory gap analysis, harmonising compliance after mergers or reorganisations, or preparing a site master file that references computerized systems.

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Triage maintenance problems by severity, document findings with context, route to appropriate specialist agent or human, and create actionable issue reports. Use when a maintenance task encounters problems beyond automated cleanup: code that is unsafe to delete, configuration changes requiring domain expertise, breaking changes detected during cleanup, complex refactoring needed, or security-sensitive findings such as hardcoded secrets or vulnerabilities.

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Evaluate and simplify Boolean expressions using truth tables, algebraic laws (De Morgan, distributive, absorption, idempotent, consensus), and Karnaugh maps for up to six variables. Use when you need to reduce a Boolean expression to its minimal sum-of-products or product-of-sums form, verify logical equivalence between two expressions, or prepare a minimized function for gate-level implementation.

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Containerize an R-based MCP (Model Context Protocol) server using Docker. Covers mcptools integration, port exposure, stdio vs HTTP transport, and connecting Claude Code to the containerized server. Use when deploying an R MCP server without requiring a local R installation, creating a reproducible MCP server environment, running MCP servers alongside other containerized services, or distributing an MCP server to other developers.

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Collect and preserve insect specimens following museum-grade standards including legal compliance, collection methods, humane dispatch, dry pinning, wet preservation, labeling, storage, and curation. Covers permit requirements, protected species regulations, sweep nets, beating trays, pitfall traps, light traps, Malaise traps, aspirators, ethyl acetate killing jars, freezing, pin placement by order, wing spreading, ethanol preservation for soft-bodied specimens, specimen labeling with locality and date, storage with pest management, and database entry. Use when building a reference collection for taxonomic study, preserving voucher specimens for ecological research, preparing specimens for identification by specialists, or curating an existing collection.

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Create a new agent definition file following the agent-almanac agent template and registry conventions. Covers persona design, tool selection, skill assignment, model choice, frontmatter schema, required sections, registry integration, and discovery symlink verification. Use when adding a new specialized agent to the library, defining a persona for a Claude Code subagent, or creating a domain-specific assistant with curated skills and tools.

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Set up centralized log aggregation with Loki and Promtail (or ELK stack), including log parsing, label extraction, retention policies, and integration with metrics for correlation. Use when consolidating logs from multiple services into a searchable system, replacing local log files with centralized queryable storage, correlating logs with metrics and traces, implementing structured logging with label extraction, or troubleshooting production incidents requiring cross-service log analysis.

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Capture outbound HTTP and telemetry from a CLI harness at runtime. Covers capture-channel selection (transcript file vs verbose-fetch stderr vs outbound proxy vs on-disk state), hook-driven per-event capture vs long-running session capture, JSONL output format for diff-friendly artifacts, and the observability table that maps each target to the cheapest channel that captures it. Use when a static finding needs runtime confirmation, when a payload shape is needed for a client re-implementation, or when dark-vs-live disambiguation requires watching what the binary actually sends.

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AI micro-reset between actions — the lightest self-care unit. A single conscious pause to check alignment before the next step. Where meditate is a full clearing session, breathe is one deliberate moment of awareness between tool calls or reasoning steps. Use mid-task when drift might be accumulating, between reading a file and acting on it, when about to make a decision that affects subsequent work, or as a habit between any two distinct actions.

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Read-only audit of a GitHub repository's security posture. Gathers ref protection (rulesets AND classic branch protection), Actions token permissions, code and supply-chain features (Dependabot, secret scanning, push protection, CodeQL), and repo hygiene toggles via `gh api`, then classifies findings against essential / recommended / advanced tiers into a PASS/GAP report. Makes NO changes. Use when reviewing a repo before open-sourcing or a release, auditing a public user-owned repo whose CI auto-commits to the default branch, verifying a hardening change actually took effect, or producing a baseline security posture report for a repository.

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Build a plugin or adapter for a CLI tool using the abstract base class pattern. Covers defining the contract (static fields, required methods), choosing an installation strategy (symlink, copy, append-to-file), implementing detection, install/uninstall with idempotency, listing, auditing, and registering the plugin. Use when adding support for a new framework to a CLI installer, building a plugin system for any multi-target tool, or extending an existing adapter architecture.

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Four-stage alchemical code transmutation — nigredo (decomposition), albedo (purification), citrinitas (illumination), rubedo (synthesis) — with meditate and heal checkpoints between stages. Transforms tangled or legacy code into optimized, well-structured output through systematic material analysis. Use when transforming legacy code into modern equivalents, refactoring deeply tangled modules where incremental fixes keep failing, converting a codebase between paradigms, or when simpler refactoring approaches have stalled and a full-cycle transformation is needed.

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Analyze a tensegrity system by identifying compression struts and tension cables, classifying type (class 1/2, biological/architectural), computing prestress equilibrium, verifying stability via Maxwell's rigidity criterion, and mapping biological tensegrity (microtubules, actin, intermediate filaments). Use when evaluating tensegrity in architecture, robotics, cell biology, or any system with isolated compression in continuous tension.

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Check if voice message handling is configured — verify Whisper, ElevenLabs/OpenAI TTS keys, and required tools.

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Self-critique specification documents using extended thinking — surfaces hidden assumptions, contradictions, missing edge cases, and scope creep before implementation

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Run CodeQL and Semgrep static analysis with SARIF output for vulnerability detection, code quality assessment, and security compliance scanning across multiple languages.

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Execute plans via autonomous agents with two-stage review per task. Use for complex implementations requiring quality gates.

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Creates structured plans from requirements. Generates comprehensive plans with steps, dependencies, risks, and success criteria. Coordinates with specialist agents for planning input and validates plan completeness. Uses template-renderer for formatted output.

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Verifies implementation plan quality across 8 dimensions (requirement-coverage, task-completeness, dependency-validity, scope-sanity, artifact-wiring, risk-assessment, testability, estimation-quality) and returns pass/fail with per-dimension scores.

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Generate structured Product Requirements Documents using hypothesis-driven methodology with Implementation Phases tracking.

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Shell out to Claude Code CLI to invoke a second Claude session headlessly. Useful for cross-validation, second opinions, and isolated analysis without sharing current agent context. Requires Anthropic account.

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Shell out to OpenAI Codex CLI for headless code generation, analysis, and question-answering. Optimized for code tasks. Requires OPENAI_API_KEY env var.

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Orchestrate multi-LLM parallel debate and synthesis. Dispatches prompts to available omega CLI wrappers in parallel, collects independent responses, runs anonymized peer review ranking, and synthesizes via a chairman model. Supports collaboration templates, idle watchdog, inter-agent messaging, worktree isolation, and multi-turn sessions. No server required.

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Shell out to Cursor Agent CLI for headless IDE-aware code tasks. Supports multi-model routing (auto mode routes to Claude, Gemini, GPT). Requires Cursor Pro/Business subscription.

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