diff --git a/.claude/skills/aphoria-claims/SKILL.md b/.claude/skills/aphoria-claims/SKILL.md new file mode 100644 index 0000000..f5409f8 --- /dev/null +++ b/.claude/skills/aphoria-claims/SKILL.md @@ -0,0 +1,239 @@ +--- +name: aphoria-claims +description: Author and review claims during diff review. Use when reviewing PRs, git diffs, or code changes to identify claimable decisions, suggest new claims, and check existing claims for violations. Triggers on "review diff for claims", "what claims does this change need", "aphoria claims review", "author claims for this diff". +--- + +# Aphoria Claims Authoring Skill + +You are an expert at identifying **architectural decisions, safety invariants, and policy requirements** hidden in code changes. Your job is to review diffs and help developers author proper claims with provenance, invariants, and consequences — not just observations. + +## The Key Distinction + +| | Observation | Claim | +|---|---|---| +| **Source** | Extractor (grep) | Human (deliberate) | +| **Example** | `ordering = SeqCst at line 42` | "All wallet atomics MUST use SeqCst" | +| **Has** | file, line, confidence | provenance, invariant, consequence, evidence | +| **Stored** | Ephemeral scan result | `.aphoria/claims.toml` (version-controlled) | + +Observations describe what IS. Claims describe what MUST BE and WHY. + +## Workflow: Reviewing a Diff for Claims + +### Step 1: Get the Diff + +Read the git diff. If the user hasn't provided one: + +```bash +git diff HEAD~1 # Last commit +git diff --staged # Staged changes +git diff main...HEAD # Branch changes +``` + +### Step 2: Identify Claimable Patterns + +Scan the diff for these categories: + +| Pattern in Diff | Category | Claim Signal | +|---|---|---| +| New constant or magic number | `constants` | Why this value? What breaks if changed? | +| New `#[derive(...)]` or removed derive | `derives` | Why these traits? Safety implications? | +| New import / removed import | `imports` | Dependency boundary? Why allowed/forbidden? | +| Atomic ordering choice | `safety` | Race condition implications? | +| Error handling strategy | `architecture` | Why this approach? What's the fallback? | +| Configuration default | `constants` | Why this default? What's the valid range? | +| Access control / auth check | `safety` | What's protected? What if bypassed? | +| Cryptographic choice | `safety` | Why this algorithm? Regulatory requirement? | +| New public API surface | `architecture` | Stability commitment? Breaking change policy? | +| Feature flag or toggle | `architecture` | Rollback plan? Who controls it? | + +### Step 3: Check Existing Claims + +Load the project's claims and check if the diff violates any: + +```bash +aphoria claims list --format json +``` + +For each changed file, ask: +- Does this change contradict an existing claim's invariant? +- Does this change make an existing claim's consequence possible? +- Does this change supersede an existing claim? + +### Step 4: Draft Claims + +For each claimable pattern found, draft using this template: + +**Thinking through the claim:** +1. **What must be true?** (invariant) — The rule that must hold +2. **Why?** (provenance) — The analysis, decision, or spec that established this +3. **What breaks?** (consequence) — The concrete failure mode if violated +4. **Says who?** (authority tier) — How authoritative is this claim +5. **Proof?** (evidence) — ADRs, specs, safety analyses, benchmarks + +### Step 5: Create Claims via CLI + +```bash +aphoria claims create \ + --id "--" \ + --concept-path "//" \ + --predicate "" \ + --value "" \ + --provenance "" \ + --invariant "" \ + --consequence "" \ + --tier \ + --evidence "" \ + --category \ + --by "" +``` + +## Authority Tier Guide + +When helping users pick a tier, use this decision tree: + +| If the claim comes from... | Tier | Example | +|---|---|---| +| Law, regulation, compliance requirement | `regulatory` | "GDPR requires encryption at rest" | +| Published spec (RFC, OWASP, IEEE) | `clinical` | "RFC 7519 requires audience validation" | +| Benchmark data, load test results | `observational` | "Pool size >100 causes OOM under load" | +| Team lead / architect decision | `expert` | "All wallet atomics use SeqCst" | +| Convention, established pattern | `community` | "We use serde for serialization" | +| Individual opinion, preference | `anecdotal` | "I think 30s timeout is better" | + +Most project claims are `expert` (team decisions) or `observational` (measured). + +## Claim ID Convention + +Format: `--` + +Examples: +- `maxwell-seqcst-001` — Maxwell project, SeqCst ordering, first claim +- `api-auth-jwt-001` — API project, JWT auth, first claim +- `core-no-tokio-001` — Core crate, no-tokio rule, first claim + +Keep IDs short, readable, and referenceable in commit messages. + +## Category Reference + +| Category | What It Covers | Typical Invariants | +|---|---|---| +| `safety` | Race conditions, memory safety, data integrity | "MUST use X ordering", "MUST NOT allow Y" | +| `architecture` | Module boundaries, dependency rules, API contracts | "Module X MUST NOT depend on Y" | +| `imports` | Allowed/forbidden dependencies | "Core MUST NOT import tokio" | +| `constants` | Magic numbers, configuration values | "Timeout MUST be >= 30s" | +| `derives` | Required/forbidden trait derivations | "Message types MUST derive Serialize" | + +## Example: Full Diff Review + +Given this diff: +```diff ++ const MAX_POOL_SIZE: u32 = 50; ++ const MIN_POOL_SIZE: u32 = 5; +``` + +Output: +``` +## Claims Identified + +### 1. Pool Size Bounds (constants) +The diff introduces pool size constants. These deserve claims because changing +them affects system stability under load. + +**Suggested claims:** + +aphoria claims create \ + --id "myapp-pool-max-001" \ + --concept-path "myapp/db/pool/max_size" \ + --predicate "max_value" \ + --value "50" \ + --provenance "Load testing showed OOM above 50 connections" \ + --invariant "Database pool size MUST NOT exceed 50" \ + --consequence "OOM kill under sustained load (>500 req/s)" \ + --tier observational \ + --evidence "Load test report 2026-01-15" \ + --category constants \ + --by jml + +### 2. No Existing Claim Violations +Checked 3 existing claims — none are affected by this change. +``` + +## Lifecycle Operations + +When the diff supersedes or invalidates an existing claim: + +```bash +# Update evidence on existing claim +aphoria claims update wallet-seqcst-001 \ + --evidence "New benchmark data from 2026-02" + +# Supersede with new claim (old marked as superseded automatically) +aphoria claims supersede wallet-seqcst-001 \ + --new-id wallet-ordering-v2 \ + --value "Acquire" \ + --provenance "Updated safety analysis after AcqRel audit" \ + --by jml + +# Deprecate if no longer relevant +aphoria claims deprecate old-claim-001 \ + --reason "Module removed in refactor" +``` + +## Decision Points + +### Is This Worth a Claim? + +Not every code change needs a claim. Ask: + +| Question | If Yes | If No | +|---|---|---| +| Would violating this break something? | Claim it | Skip | +| Would a new team member need to know this? | Claim it | Skip | +| Is there a non-obvious reason for this choice? | Claim it | Skip | +| Is this a temporary implementation detail? | Skip | — | +| Is this enforced by the type system already? | Skip | — | + +### Claim vs Acknowledgment? + +| Situation | Use | +|---|---| +| "This MUST be true going forward" | `aphoria claims create` | +| "We know this conflicts but it's intentional" | `aphoria ack add` | + +## Output Format + +When reviewing a diff, produce: + +```markdown +## Claims Review for [diff description] + +### New Claims Needed +1. **[claim-id]**: [invariant summary] + - Category: [category] + - Tier: [tier] + - Rationale: [why this needs a claim] + - Command: `aphoria claims create ...` + +### Existing Claims Affected +1. **[claim-id]**: [what changed] + - Action: Update / Supersede / Deprecate + - Command: `aphoria claims [update|supersede|deprecate] ...` + +### No Claim Needed +- [pattern]: [why it doesn't need a claim] +``` + +## Constraints + +1. **Never invent provenance.** If you don't know WHY a value was chosen, ask the developer. +2. **Never guess consequences.** If you can't articulate what breaks, don't claim it. +3. **Prefer fewer, stronger claims** over many weak ones. A claim without a real consequence is noise. +4. **Match the project's existing claim style.** Run `aphoria claims list` first to see conventions. +5. **Always check existing claims first.** Don't duplicate. Supersede if updating. + +## Related Skills + +- `aphoria-dev`: Development guidelines for Aphoria +- `aphoria-self-review`: Evaluate scan quality and noise +- `extract-claims`: Extract claims from prose text (different from code diff review) diff --git a/.claude/skills/aphoria-dev/SKILL.md b/.claude/skills/aphoria-dev/SKILL.md index dbc720f..a9ebbef 100644 --- a/.claude/skills/aphoria-dev/SKILL.md +++ b/.claude/skills/aphoria-dev/SKILL.md @@ -313,8 +313,27 @@ When implementing features or fixing bugs, provide: | 4A | Complete | Observation write-back | | 4B | Complete | Drift detection | | 4C | Complete | Staged scanning | -| **4D** | **Next** | Enhanced ack | +| 4D | Planned | Enhanced ack | | 4E | Planned | Community contribution | | 5 | Complete | Research agent loop | | 6 | Complete | Trust Packs | | 7 | Planned | Declarative extractors | +| A1 | Complete | Observations vs Claims type system | +| A2 | Complete | Claim authoring workflow + CLI | +| A3 | Complete | Verification engine + verify command | +| A4 | Complete | Corpus as assertions + authority lens | +| A5.1 | Complete | Coverage metrics (coverage.rs) | +| A5.2 | Complete | Docs generation (explain.rs + claims_explain) | +| **A5.3** | **Next** | Claim suggester skill (aphoria-suggest) | +| A5.4 | Complete | Onboarding mode (aphoria explain) | + +## Related Skills + +| Skill | Purpose | +|-------|---------| +| `aphoria-claims` | Review diffs for claimable changes (reactive) | +| `aphoria-suggest` | Suggest claims from patterns + gaps (proactive) | +| `aphoria-self-review` | Evaluate scan quality and noise | +| `aphoria-llm-optimization` | Optimize LLM extraction quality | +| `extract-claims` | Extract claims from prose text | +| `aphoria-install` | Install Aphoria for local dev | diff --git a/.claude/skills/aphoria-suggest/SKILL.md b/.claude/skills/aphoria-suggest/SKILL.md new file mode 100644 index 0000000..3cd664c --- /dev/null +++ b/.claude/skills/aphoria-suggest/SKILL.md @@ -0,0 +1,225 @@ +--- +name: aphoria-suggest +description: Suggest new claims by analyzing existing patterns and unclaimed observations. Use when you want to grow claim coverage, find unclaimed code patterns, or bootstrap claims for a new project. Triggers on "suggest claims", "what needs claims", "aphoria suggest", "grow coverage", "bootstrap claims". +--- + +# Aphoria Claim Suggester + +You are an expert at identifying **semantic patterns** across authored claims and recognizing analogous unclaimed observations that deserve claims. You use the Aphoria CLI as your data source and your reasoning as the intelligence layer. + +## Core Principle: Skill Calls CLI + +You do NOT train models or use embeddings. You: +1. Call the CLI to get structured data (claims + observations) +2. Reason over the data to find patterns +3. Suggest new claims with ready-to-run CLI commands + +The "learning" is your ability to read existing claims, understand their semantic patterns, and apply that understanding to unclaimed observations. + +## Workflow + +### Phase 1: Gather Context + +Run these commands to understand the project's current claim state: + +```bash +# Get all authored claims (the "gold standard" examples) +aphoria claims list --format json + +# Get verification results including unclaimed observations +aphoria verify run --format json --show-unclaimed + +# Get coverage gaps +aphoria coverage --format json +``` + +### Phase 2: Determine Mode + +Based on the claim count, choose your approach: + +| Claim Count | Mode | Strategy | +|---|---|---| +| 0 | **Cold Start** | Bootstrap from project docs, tests, and conventions | +| 1-5 | **Foundation** | Extend existing patterns, fill obvious gaps | +| 6+ | **Flywheel** | Full analogical reasoning from established patterns | + +### Phase 3a: Cold Start (0 Claims) + +When no claims exist, bootstrap from external context: + +1. **Read architecture docs**: `CLAUDE.md`, `README.md`, `docs/adr/`, `.claude/` +2. **Inspect tests for implicit invariants**: Property-based tests, assertion patterns, `#[should_panic]` tests +3. **Identify tech stack conventions**: What framework? What serialization? What auth pattern? +4. **Propose 3-5 foundation claims** in these categories: + - **Safety**: Race conditions, data integrity, resource management + - **Architecture**: Module boundaries, dependency rules + - **Constants**: Magic numbers from specs, configuration bounds + +Example cold start output: +``` +## Bootstrap Claims Suggested + +No existing claims found. Here are foundation claims based on project analysis: + +### 1. [safety] Serialization Consistency +Reading tests in `tests/serialization.rs` — there's a roundtrip property test. + +**Invariant:** All persistent types MUST implement roundtrip serialization +**Consequence:** Data corruption on disk or wire +**Evidence:** Property test at tests/serialization.rs:42 + +aphoria claims create \ + --id "project-serde-roundtrip-001" \ + --concept-path "project/types/serialization" \ + --predicate "roundtrip_safe" \ + --value "true" \ + --provenance "Property-based test coverage" \ + --invariant "All persistent types MUST serialize/deserialize without data loss" \ + --consequence "Data corruption in WAL or network protocol" \ + --tier expert \ + --evidence "tests/serialization.rs:42" \ + --category safety \ + --by "aphoria-suggest" +``` + +### Phase 3b: Foundation Mode (1-5 Claims) + +With a few claims, extend the patterns: + +1. **Identify the categories covered** — What has claims? Safety? Architecture? +2. **Find gaps in the same categories** — If there's a SeqCst claim for wallet, check other atomic code +3. **Suggest 2-3 claims** that extend existing patterns to new locations + +### Phase 3c: Flywheel Mode (6+ Claims) + +Full analogical reasoning: + +1. **Group existing claims by semantic pattern** (not string matching): + - "Ordering invariants" (SeqCst claims across modules) + - "Boundary rules" (no-import claims for module isolation) + - "Serialization requirements" (derive claims for wire types) + - "Configuration bounds" (min/max value claims) + +2. **For each unclaimed observation**, apply chain-of-thought: + ``` + THINKING: + - Observation: `Ordering::Relaxed` at sync/coordinator.rs:87 + - Most similar claim: wallet-seqcst-001 ("All wallet atomics MUST use SeqCst") + - Similarity: Both involve atomic ordering in critical data paths + - Difference: Coordinator vs wallet — is coordinator also safety-critical? + - Decision: YES — coordinator manages distributed state, weakened ordering + could cause split-brain. SUGGEST a claim. + ``` + +3. **Rank suggestions by coverage impact**: + - Modules with 0 claims but many observations = highest priority + - Patterns that appear in 3+ locations = systematic invariant + - Safety-category gaps > architecture > constants + +### Phase 4: Output Suggestions + +For each suggestion, produce: + +```markdown +## Suggestion N: [Short Title] + +**Reasoning:** [Chain-of-thought explanation] +**Analogous to:** [existing claim ID, if any] +**Coverage impact:** [module name] goes from X% to Y% claimed + +aphoria claims create \ + --id "" \ + --concept-path "" \ + --predicate "" \ + --value "" \ + --provenance "" \ + --invariant "" \ + --consequence "" \ + --tier \ + --evidence "" \ + --category \ + --by "" +``` + +## Context Management + +To avoid context window saturation with large projects: + +| Situation | Strategy | +|---|---| +| <50 claims, <200 observations | Load everything, reason holistically | +| 50-200 claims | Filter by `--category` relevant to current work | +| 200+ claims | Use coverage gaps to focus on highest-impact modules only | +| 1000+ observations | Use `aphoria coverage --sort-by unclaimed` to prioritize | + +When filtering: +```bash +# Focus on safety claims only +aphoria claims list --format json --category safety + +# Focus on a specific module +aphoria verify run --format json --show-unclaimed --path src/wallet/ +``` + +## Quality Gates + +Before suggesting a claim, verify it passes these checks: + +| Check | Requirement | +|---|---| +| **Non-trivial** | Would violating this actually break something? | +| **Not type-system enforced** | The compiler doesn't already catch this | +| **Has a consequence** | You can articulate a specific failure mode | +| **Has provenance** | You can point to WHY this must be true | +| **Not a duplicate** | No existing claim covers this | +| **Testable** | An extractor can verify this observation | + +## Anti-Patterns + +**Do NOT suggest claims for:** +- Variable renames, whitespace changes, comment additions +- Patterns enforced by the type system or compiler +- Temporary implementation details ("TODO: refactor this") +- Generic boilerplate ("all functions should have docs") +- Observations where the value can never realistically change + +**Do NOT generate:** +- Template garbage invariants ("This value MUST be what it is") +- Claims without specific consequences ("Bad things could happen") +- Claims with invented provenance ("Industry best practice") + +## Integration with Existing Skills + +This skill complements: +- **aphoria-claims**: Reviews diffs for claimable changes (reactive — triggered by code changes) +- **aphoria-suggest**: Proactively scans for coverage gaps (proactive — triggered by developer request) +- **aphoria-self-review**: Evaluates scan quality and noise + +Typical workflow: +1. `aphoria-suggest` identifies systematic gaps → developer authors claims +2. `aphoria-claims` catches new claimable patterns in future diffs +3. More claims → better suggestions → flywheel spins + +## Example Session + +``` +User: "suggest claims for this project" + +Agent: +1. Runs `aphoria claims list --format json` → 4 claims (all safety category) +2. Runs `aphoria verify run --format json --show-unclaimed` → 23 unclaimed observations +3. Runs `aphoria coverage --format json` → 3 modules with 0 claims +4. Identifies: existing claims all about atomic ordering +5. Finds: 5 unclaimed observations also involve Ordering:: in different modules +6. Suggests: 3 new SeqCst claims for uncovered modules + 2 architecture boundary claims +7. Outputs: ready-to-run aphoria claims create commands with reasoning +``` + +## Constraints + +1. **Never invent provenance.** If you don't know WHY, mark the tier as `community` and note "needs expert review." +2. **Never suggest more than 10 claims at once.** Prioritize by impact. +3. **Always show reasoning.** The developer should understand WHY you're suggesting each claim. +4. **Match existing style.** If project claims use formal MUST/SHALL language, match it. +5. **Prefer fewer strong claims** over many weak ones. +6. **Run coverage after suggesting.** Show the before/after impact. diff --git a/CLAUDE.md b/CLAUDE.md index d275bb3..7c3daf6 100644 --- a/CLAUDE.md +++ b/CLAUDE.md @@ -48,6 +48,8 @@ A probabilistic knowledge graph database that stores Claims, not Facts. Append-o | **General LLM optimization** | Load skill: `llm-optimization` | | **Install Aphoria** | Load skill: `aphoria-install` | | **Run Aphoria self-review** | Load skill: `aphoria-self-review` | +| **Author claims from diffs** | Load skill: `aphoria-claims` | +| **Suggest new claims** | Load skill: `aphoria-suggest` | ## Roadmap Maintenance diff --git a/ai-lookup/features/observability.md b/ai-lookup/features/observability.md index b37e200..f719d53 100644 --- a/ai-lookup/features/observability.md +++ b/ai-lookup/features/observability.md @@ -25,6 +25,34 @@ StemeDB exposes metrics in Prometheus format and provides admin endpoints for op ## Metrics Reference +### Application Metrics (stemedb-api) + +| Metric | Type | Labels | Description | +|--------|------|--------|-------------| +| `stemedb_assertions_total` | Gauge | - | Total assertions in database (updated on health check) | +| `stemedb_assertions_ingested_total` | Counter | - | Assertions ingested via `POST /v1/assert` | +| `stemedb_queries_total` | Counter | `endpoint` | Queries executed (query, skeptic, layered, constraints) | +| `stemedb_query_latency_seconds` | Histogram | `endpoint` | End-to-end query latency by endpoint | +| `stemedb_quarantine_pending` | Gauge | - | Pending quarantine events (updated on health check) | +| `stemedb_circuit_breakers_open` | Gauge | - | Open circuit breakers (updated on health check) | + +**Source files:** +- `handlers/health.rs` — gauges for assertions_total, quarantine_pending, circuit_breakers_open +- `handlers/assert.rs` — counter for assertions_ingested_total +- `handlers/query.rs`, `skeptic.rs`, `layered.rs`, `constraints.rs` — counter + histogram per endpoint + +### Grafana Dashboard + +A pre-built Grafana dashboard is available at `docs/grafana/stemedb-overview.json`. + +**Rows:** +1. **Overview** — assertions_total, queries/sec, quarantine_pending, circuit_breakers_open (stat panels) +2. **Query Performance** — latency p50/p95/p99 histogram, queries by endpoint (time series) +3. **Cluster Health** — node counts, sync lag, convergence latency +4. **Write Path** — assertions ingested rate, sync throughput + +Import via Grafana UI > Dashboards > Import. Uses `${DS_PROMETHEUS}` variable for datasource portability. + ### Sync Metrics (stemedb-sync) | Metric | Type | Labels | Description | diff --git a/applications/aphoria/Cargo.toml b/applications/aphoria/Cargo.toml index 59f2f7e..5470f16 100644 --- a/applications/aphoria/Cargo.toml +++ b/applications/aphoria/Cargo.toml @@ -25,6 +25,7 @@ stemedb-storage = { path = "../../crates/stemedb-storage" } stemedb-ingest = { path = "../../crates/stemedb-ingest" } stemedb-query = { path = "../../crates/stemedb-query" } stemedb-wal = { path = "../../crates/stemedb-wal" } +stemedb-lens = { path = "../../crates/stemedb-lens" } # CLI clap = { version = "4.5", features = ["derive"] } @@ -35,6 +36,9 @@ tokio = { version = "1", features = ["full"] } # File walking ignore = "0.4" +# Parallel extraction +rayon = "1.10" + # Pattern matching regex = "1.10" globset = "0.4" diff --git a/applications/aphoria/docs/architecture/scout-judge-extraction.md b/applications/aphoria/docs/architecture/scout-judge-extraction.md deleted file mode 100644 index 8d8a9a1..0000000 --- a/applications/aphoria/docs/architecture/scout-judge-extraction.md +++ /dev/null @@ -1,203 +0,0 @@ -# Scout & Judge: Hybrid Deterministic-Probabilistic Extraction Architecture - -> **Status:** Proposed (2026-02-05) -> **Phase:** 7.9 (Replaces monolithic LLM extraction) -> **Context:** Evolution of Phase 7.5 (LLM-in-the-Loop) - ---- - -## 1. Problem Statement - -The current LLM extraction pipeline ("Monolithic Mode") treats code files as unstructured text. It feeds entire files to the LLM to find security claims. - -**Issues with Monolithic Mode:** -1. **Cost:** 90% of a file is irrelevant to security (imports, UI logic, helpers), yet we pay for every token. -2. **Recall:** LLMs struggle to find "needles in haystacks" (long context window degradation). -3. **Hallucination:** Irrelevant code confuses the model, leading to false positives. -4. **Latency:** Processing large files is slow/blocking. - -## 2. The Solution: Scout & Judge Architecture - -We decouple the **discovery** of potential claims from the **analysis** of those claims. - -* **The Scout (Deterministic):** Uses Abstract Syntax Trees (AST) via `tree-sitter` to find *Regions of Interest* (ROIs) with 100% speed and 0 cost. -* **The Judge (Probabilistic):** Uses the LLM to analyze *only* the specific ROI snippet to extract semantic meaning and confidence. - -### Architectural Diagram - -```mermaid -graph TD - File[Source File] -->|Input| Scout[AST Scout (Tree-sitter)] - - subgraph "The Scout (Local/Fast)" - Scout -->|Parse| AST - AST -->|Query| Query[SCM Queries] - Query -->|Match| Candidate[Candidate Node] - Candidate -->|Expand| Snippet[Context Snippet] - end - - Snippet -->|Input| Judge[LLM Judge (Gemini/Claude)] - - subgraph "The Judge (Remote/Smart)" - Judge -->|Prompt: Analyze this specific call| Claims[Structured Claims] - end - - Claims -->|Output| Aggregator[Claim Aggregator] -``` - ---- - -## 3. Component Details - -### 3.1 The Scout (Tree-sitter) - -The Scout's job is **High Recall**. It should find *anything* that *might* be relevant. It does not need to be precise. - -**Technology:** `tree-sitter` (Rust bindings) - -**Workflow:** -1. **Detect Language:** Identify file type (Python, Go, Rust, JS). -2. **Parse:** Generate AST. -3. **Query:** Run SCM (S-expression) queries to find patterns. - -**Example Query (Python TLS):** -```scm -(call_expression - function: (attribute) @func - arguments: (argument_list - (keyword_argument - name: (identifier) @arg_name - value: (_) @value - ) - ) - (#match? @func "requests\.(get|post|put|delete)") - (#eq? @arg_name "verify") -) -``` - -**Context Expansion:** -The Scout doesn't just grab the line. It grabs the **Logical Context**: -* The function call itself. -* Variable definitions referenced in the call (simple static analysis). -* Surrounding 5 lines for comments. - -### 3.2 The Judge (LLM) - -The Judge's job is **High Precision**. It receives a focused prompt and determines if a claim exists. - -**Input Prompt:** -```text -You are a security analyst. -Analyze this code snippet for TLS verification settings. - -SNIPPET: -# Dev override -should_verify = False -requests.get(url, verify=should_verify) - -CONTEXT: -Variable `should_verify` is defined on line 2. - -TASK: -Does this snippet disable TLS verification? -Output JSON: { "subject": "tls/verification", "value": false, "confidence": 0.95 } -``` - -**Why this wins:** -* **Token Efficiency:** Input reduced from 2000 tokens (file) to ~100 tokens (snippet). -* **Accuracy:** Model has no distractions. -* **Speed:** Parallelizable per-snippet. - ---- - -## 4. Implementation Plan - -### Phase 1: Infrastructure (Dependencies) - -Add `tree-sitter` support to `Cargo.toml`. - -```toml -[dependencies] -tree-sitter = "0.20" -tree-sitter-python = "0.20" -tree-sitter-javascript = "0.20" -tree-sitter-go = "0.20" -tree-sitter-rust = "0.20" -``` - -### Phase 2: The Scout Engine (`src/scout/`) - -Create a new module `applications/aphoria/src/scout/`. - -* `mod.rs`: Public interface. -* `engine.rs`: Orchestrates parsing and querying. -* `queries/`: Directory containing `.scm` query files for each category/language. - * `python/tls.scm` - * `go/sql_injection.scm` - -**Struct definition:** -```rust -pub struct CandidateSnippet { - pub file_path: String, - pub language: Language, - pub start_line: usize, - pub end_line: usize, - pub code: String, - pub context_variables: HashMap, // Name -> Value/Definition - pub query_id: String, // Which query found this -} -``` - -### Phase 3: The Judge Engine (`src/llm/judge.rs`) - -Refactor `LlmExtractor` to support "Judge Mode". - -* Modify `extract()` to accept `CandidateSnippet` instead of full file content. -* Create specialized prompts for specific query IDs (e.g., if Scout found a TLS pattern, use the specialized "TLS Judge" prompt, not the generic one). - -### Phase 4: Integration - -Modify the main `scan` loop: - -1. **Regex Extractors** run first (unchanged). -2. **Scout** runs on all files (extremely fast). -3. **Deduplicate:** If Scout finds a region already handled by Regex, drop it. -4. **Judge:** Send remaining Candidates to LLM. - ---- - -## 5. Evaluation & Metrics - -The "Prompt Evaluation System" (Phase 7.8) adapts to this model: - -**1. Scout Evaluation (Deterministic):** -* **Metric:** Recall. "Did the Scout find the vulnerable line in `fixtures/tls/bad.py`?" -* **Test:** Unit tests using `tree-sitter` queries against code snippets. No LLM required. - -**2. Judge Evaluation (Probabilistic):** -* **Metric:** Precision/Accuracy. "Given the snippet, did the LLM classify it correctly?" -* **Fixture:** `tests/llm_fixtures` now contains *snippets* derived from the Golden Corpus files. - -**3. Cost Efficiency Metric:** -* Track `tokens_per_claim`. -* Goal: Reduce tokens/claim by >80% compared to Monolithic approach. - -## 6. Migration Strategy - -1. **Parallel Run:** Run Scout logic alongside Regex logic in "shadow mode" (logging only) to tune queries. -2. **Incremental Rollout:** Enable Scout & Judge for **one category** (e.g., TLS) while leaving others in Monolithic mode (if any) or Regex mode. -3. **Full Switch:** Deprecate "Monolithic Mode" prompts. - ---- - -## 7. Comparison Summary - -| Feature | Current (Monolithic) | Scout & Judge (Proposed) | -| :--- | :--- | :--- | -| **Trigger** | File name heuristic | AST Pattern Match | -| **Input** | Whole File | Relevant Snippet | -| **Context** | Noisy (imports, unrelated code) | Focused (local scope) | -| **Cost** | $$$ (Linear to file size) | ¢ (Linear to *relevant* code) | -| **Reliability** | Low (Lost in middle) | High (Forced focus) | -| **Maintenance** | Prompt Engineering | Query Engineering + Simple Prompts | - diff --git a/applications/aphoria/docs/vision-gaps.md b/applications/aphoria/docs/vision-gaps.md new file mode 100644 index 0000000..4501a53 --- /dev/null +++ b/applications/aphoria/docs/vision-gaps.md @@ -0,0 +1,661 @@ +# Aphoria Vision Gaps + +**Date**: 2026-02-08 +**Status**: Honest assessment of where we are vs. where we need to be +**Grounded Against**: Codebase as of commit `e0d2940` (42 extractors, bridge.rs, ephemeral/persistent modes) + +## Implementation Status + +**Phase A1: Distinguish Observations from Claims** - ✅ **COMPLETE** (2026-02-08) + +- Renamed `ExtractedClaim` → `Observation` (struct + 81 files updated) +- Added confidence-based tier mapping: ≥0.9 → Tier 4, <0.9 → Tier 5 +- `observation_to_assertion()` replaces fixed Tier 3 assignment +- `AuthoredClaim` type fully defined with provenance/invariant/consequence fields +- Claims storage in `.aphoria/claims.toml` (ClaimsFile implementation) +- CLI commands: `aphoria claim create|list|explain|update|supersede|deprecate` +- All 1055 tests passing + +See commit history for implementation details. + +--- + +## The Problem in One Sentence + +Aphoria extracts observations about source code and calls them "claims," but they aren't claims -- they're grep results wearing Episteme vocabulary. + +--- + +## Current Architecture: What Actually Happens + +### Scan Flow (Ephemeral Mode) + +This is the fast path (~0.25s), used for CI/pre-commit. Traced from `scanner.rs:52` through to report output. + +```mermaid +sequenceDiagram + participant CLI as CLI (main.rs) + participant Handler as handle_scan() + participant Scanner as run_scan() + participant Walker as walk_project() + participant Registry as ExtractorRegistry + participant Bridge as bridge.rs + participant Corpus as corpus.rs + participant Index as ConceptIndex + participant Conflict as conflict.rs + participant Report as Formatter + + CLI->>Handler: ScanArgs + AphoriaConfig + Handler->>Scanner: run_scan(args, config) + + Note over Scanner: Phase 1: WALK + Scanner->>Walker: walk_project(root, config) + Walker-->>Scanner: Vec + + Note over Scanner: Phase 2: EXTRACT + loop For each WalkedFile + Scanner->>Registry: extract_all(segments, content, lang, file) + Registry->>Registry: for_language(lang) -> applicable extractors + loop For each Extractor + Registry->>Registry: extractor.extract(segments, content, lang, file) + end + Registry->>Registry: filter by IgnoreCommentParser + Registry-->>Scanner: Vec + end + + Note over Scanner: Phase 3: CONFLICT DETECTION + Scanner->>Bridge: load_or_generate_key(root) + Bridge-->>Scanner: SigningKey + + Scanner->>Corpus: create_authoritative_corpus(key) + Note over Corpus: Hardcoded RFC/OWASP assertions
corpus.rs:33-157 + Corpus-->>Scanner: Vec (authority) + + Scanner->>Index: ConceptIndex::build(corpus) + Note over Index: make_key() = last 2 path segments
+ "::" + predicate + Index-->>Scanner: ConceptIndex + + Scanner->>Conflict: check_conflicts(claims, index, config) + loop For each ExtractedClaim + Conflict->>Index: lookup(claim.subject, claim.predicate) + Note over Conflict: Tail-path match:
"code://rust/app/tls/cert_verification"
matches "rfc://5246/tls/cert_verification" + Conflict->>Conflict: Compare values, compute score + Conflict->>Conflict: Determine verdict (Block/Flag/Pass) + end + Conflict-->>Scanner: Vec + + Note over Scanner: Phase 4: REPORT + Scanner->>Report: format(results) + Report-->>CLI: Table / JSON / SARIF / Markdown +``` + +**Key code locations:** +- Entry: `handlers/scan.rs:8-71` +- Orchestration: `scanner.rs:52-117` +- Walker: `walker/mod.rs:115-175` +- Extraction: `registry.rs:289-304` +- Corpus build: `corpus.rs:33-157` +- Index: `concept_index.rs:30-110` +- Conflict: `conflict.rs:64-200` + +### Scan Flow (Persistent Mode with --persist --sync) + +The full Episteme path, used for drift detection and observation write-back. + +```mermaid +sequenceDiagram + participant Scanner as run_scan() + participant Episteme as LocalEpisteme + participant WAL as Journal (WAL) + participant Store as HybridStore + participant Bridge as bridge.rs + participant Index as ConceptIndex + participant Drift as drift.rs + participant Hosted as HostedClient + + Note over Scanner: Same walk + extract as ephemeral + + Scanner->>Episteme: LocalEpisteme::open(config, root) + Episteme->>WAL: Journal::open(wal_dir) + Episteme->>Store: HybridStore::open(store_dir) + Episteme-->>Scanner: LocalEpisteme + + Note over Scanner: Ingest claims as Tier 3 assertions + Scanner->>Episteme: ingest_claims(all_claims) + loop For each claim + Episteme->>Bridge: claim_to_assertion(claim, key, ts) + Note over Bridge: SourceClass::Expert (Tier 3)
lifecycle: Approved
parent_hash: None
epoch: None + Bridge-->>Episteme: Assertion + Episteme->>WAL: journal.append(serialized) + end + + Note over Scanner: Build index from corpus + imported assertions + Scanner->>Episteme: fetch_authoritative_assertions() + Episteme-->>Scanner: Vec (from store) + Scanner->>Index: ConceptIndex::build_with_aliases(corpus, aliases) + + Note over Scanner: Check conflicts + Scanner->>Episteme: check_conflicts(claims, config, index) + Episteme-->>Scanner: Vec + + Note over Scanner: Check drift against prior observations + Scanner->>Drift: check_drift(non_conflicting_claims) + Drift->>Store: fetch_observations_for_concept(path) + Note over Drift: Compare current value vs prior
If different -> DriftResult + Drift-->>Scanner: Vec + + Note over Scanner: Write back novel observations as Tier 4 + Scanner->>Episteme: ingest_observations(novel_claims) + loop For each observation + Episteme->>Bridge: claim_to_observation(claim, key, ts) + Note over Bridge: SourceClass::Community (Tier 4)
weight: 0.3 + Bridge-->>Episteme: Assertion + Episteme->>WAL: journal.append(serialized) + Episteme->>Store: predicate_index("observation", hash) + end + + opt If hosted mode enabled + Scanner->>Hosted: push_observations(assertions) + Hosted-->>Scanner: PushObservationsResponse + end +``` + +**Key code locations:** +- Persistent path: `scanner.rs:195-325` +- LocalEpisteme::open: `local/mod.rs:44-124` +- Ingest claims: `local/store.rs:20-96` +- Ingest observations: `local/store.rs:105-165` +- Drift detection: `drift.rs:23-57` +- Hosted push: `hosted.rs:178+` + +--- + +## What We Built (Grounded) + +Aphoria has **42 built-in extractors** (`registry.rs:327` -- `BUILTIN_EXTRACTOR_COUNT: usize = 42`) that scan source code with regex patterns and produce `ExtractedClaim` structs: + +```rust +// types/claim.rs:7-31 +pub struct ExtractedClaim { + pub concept_path: String, // e.g., "code://rust/maxwell/hypervisor/lib/imports/firecracker" + pub predicate: String, // e.g., "imported" + pub value: ObjectValue, // Boolean(true) + pub file: String, // "hypervisor/src/lib.rs" + pub line: usize, // 24 + pub matched_text: String, // "use firecracker_sdk::..." + pub confidence: f32, // 1.0 + pub description: String, // "Module imports firecracker" +} +``` + +We ran this on Maxwell and got 67 "claims" with zero noise. We celebrated. + +Then we looked at the output and asked: **what is the claim being made here?** + +The answer is: there is no claim. `imported: true` is an index entry. No one will ever assert `imported: false`. There's no conflict to resolve, no lens needed, no reason to store this in an append-only Merkle DAG. It's `grep "use firecracker"` with extra steps. + +### Verified Against Code + +| Extractor | File | Predicate Used | What It Actually Produces | +|-----------|------|---------------|--------------------------| +| `import_graph` | `extractors/import_graph.rs` | `"imported"` with `Boolean(true)` | grep for `use` statements | +| `derive_pattern` | `extractors/derive_pattern.rs` | `"derives"` with `Text("Clone,Debug")` | AST metadata extraction | +| `const_declarations` | `extractors/const_declarations.rs` | `"value"` with literal value | copy of the source line | +| `unsafe_atomic` | `extractors/unsafe_atomic.rs` | `"pattern"` with `Text("SeqCst")` | grep for `Ordering::` | + +None of these can conflict. None need lenses. None benefit from Episteme's architecture. + +--- + +## What a Real Claim Looks Like + +After the scan, we wrote [claims-explained.md](../../claims-explained.md) by hand for Maxwell. That document contains actual claims. Compare: + +**What Aphoria produces** (`unsafe_atomic` extractor, `extractors/unsafe_atomic.rs`): +``` +Subject: "code://rust/maxwell/core/wallet/atomics/ordering" +Predicate: "pattern" +Value: "SeqCst" +``` + +**What a human wrote:** +> "All wallet atomic operations MUST use SeqCst to prevent double-spend race conditions. Weakening to Relaxed or Acquire/Release is a correctness bug." + +**What Episteme expects** (from `stemedb-core/src/types/assertion.rs`): +``` +Subject: "maxwell/wallet/atomics/ordering" +Predicate: "required_ordering" +Value: "SeqCst" +Source: Safety analysis by lead developer +Authority: Tier 3 (Expert) -- with real evidence +Evidence: "AtomicU64 balance requires sequential consistency + to prevent double-spend. See wallet ADR-003." +Parent: None (original assertion) +Epoch: Some("maxwell-v1.0") +``` + +More examples from the same scan: + +**Aphoria says:** `core/thermal/const/rapl_power_unit = 0x606` +**The claim is:** "Intel MSR register address for reading CPU power units. Sourced from Intel SDM Vol 4. If this changes, either the code is wrong or targeting different hardware." + +**Aphoria says:** `wallet/type/wallet/derives = Debug` +**The claim is:** "Wallet MUST NOT derive Clone because singleton ownership is a safety invariant. Wallet contains AtomicU64 -- cloning it creates divergent state." + +**Aphoria says:** `vsock/message/agentmessage/derives = Clone,Debug,Deserialize,Serialize` +**The claim is:** "All vsock message types MUST derive Serialize+Deserialize because they cross the VM boundary via bincode. If serde appears in core imports, internal types are leaking into the wire protocol." + +The difference: observations describe **what is**. Claims describe **what must be and why**. Claims have provenance, consequences, and can conflict with each other. + +--- + +## The Fundamental Gap (Code-Grounded) + +Episteme is a knowledge graph for conflicting claims with lineage and resolution. Aphoria uses it as a document store for scan results. + +The `bridge.rs` conversion (`bridge.rs:45-92`) forces observations into the Assertion schema: + +| Assertion Field | What Episteme Expects | What bridge.rs Provides | Code Reference | +|----------------|----------------------|------------------------|----------------| +| `source_hash` | Hash of source document (RFC, paper) | `blake3(file + line + matched_text)` | `bridge.rs:107-113` | +| `source_class` | Tiered authority (0=Regulatory...4=Community) | Always `SourceClass::Expert` (Tier 3) for claims | `bridge.rs:25` | +| `source_metadata` | `{journal, DOI, author, standard}` | `{file, line, matched_text, scan_tool, scan_version}` | `bridge.rs:52-58` | +| `parent_hash` | Links to superseded assertion | Always `None` | `bridge.rs:79` | +| `epoch` | Paradigm context (e.g., "post-quantum") | Always `None` | `bridge.rs:89` | +| `lifecycle` | Pending -> Review -> Approved | Always `LifecycleStage::Approved` (skips review) | `bridge.rs:85` | +| `evidence` | Provenance chain, ADR references | Not present in `ExtractedClaim` at all | `types/claim.rs:7-31` | + +**We're using a Mercedes as a shopping cart.** + +### Partial Mitigation Already Exists + +`claim_to_observation()` (`bridge.rs:36-42`) creates Tier 4 (Community) assertions for write-back. But this is only used in the `--sync` path for drift detection -- the default `claim_to_assertion()` still uses Tier 3. + +--- + +## What the Workflow Should Be + +### Target: Commit-Time Claim Authoring + +```mermaid +sequenceDiagram + participant Dev as Developer + participant Skill as Aphoria Skill (.claude/skills/) + participant Graph as Episteme Knowledge Graph + participant Scanner as aphoria scan (audit mode) + participant Report as Claims-Explained View + + Note over Dev: Developer commits code + + Dev->>Skill: Review diff + Skill->>Skill: Identify claimable changes + + Note over Skill: Claimable = new constants from specs,
ordering changes, boundary crossings,
derive changes on serialized types

NOT claimable = renamed variables,
whitespace, internal refactors + + Skill->>Graph: Look up existing claims for context + Graph-->>Skill: Related claims (if any) + + alt Diff contradicts existing claim + Skill->>Dev: "This contradicts claim X. Fix code or supersede claim?" + Dev->>Skill: Decision + evidence + Skill->>Graph: Create superseding claim (parent_hash = old claim) + else New claimable pattern + Skill->>Dev: "This looks claimable. Author a claim?" + Dev->>Skill: Provenance + invariant + consequence + Skill->>Graph: Submit authored claim with lineage + end + + Note over Skill: Create extractor for audit + Skill->>Scanner: Register extractor paired with claim + + Note over Scanner: Later: Audit runs + Scanner->>Graph: For each claim, verify code matches + Graph-->>Scanner: Expected values + Scanner->>Scanner: Extractor output vs claim + Scanner-->>Report: PASS / CONFLICT / DRIFT + + Report->>Report: Auto-generate claims-explained.md +``` + +### Audit Flow: Two Directions + +**Direction 1: Scan code, check against claims** (what Aphoria partially does today) + +```mermaid +sequenceDiagram + participant Scanner as aphoria audit + participant Extractors as ExtractorRegistry + participant Code as Source Files + participant Graph as Episteme (Claims) + participant Report as Audit Report + + Scanner->>Code: Walk project files + Scanner->>Extractors: extract_all(file) -> Vec + + loop For each Observation + Scanner->>Graph: lookup_claim(observation.subject, observation.predicate) + alt Claim exists + alt observation.value == claim.value + Scanner->>Report: PASS (code matches claim) + else observation.value != claim.value + Scanner->>Report: CONFLICT (code contradicts claim) + Note over Report: Score by authority tier,
apply lenses for resolution + end + else No claim exists + Scanner->>Report: REVIEW ("should this be a claim?") + end + end +``` + +**Direction 2: Walk claims, verify in code** (does not exist today) + +```mermaid +sequenceDiagram + participant Scanner as aphoria audit --verify-claims + participant Graph as Episteme (Claims) + participant Extractors as Paired Extractors + participant Code as Source Files + participant Report as Audit Report + + Scanner->>Graph: List all authored claims + Graph-->>Scanner: Vec + + loop For each Claim + Scanner->>Extractors: Find extractor paired with this claim + alt Extractor exists + Extractors->>Code: Run extractor on relevant files + Code-->>Extractors: Vec + alt Observation matches claim + Scanner->>Report: PASS + else Observation contradicts claim + Scanner->>Report: CONFLICT + end + alt No observation found (code deleted?) + Scanner->>Report: MISSING (claimed pattern not found) + end + else No paired extractor + Scanner->>Report: UNCHECKED (no extractor for this claim) + end + end + + Note over Report: Catches:
- Deleted code (claim says X exists, it doesn't)
- Drifted values (claim says 0x606, code says 0x607)
- Unenforced policies (claim says "no tokio in core") +``` + +--- + +## Extracted Claims from This Document + +The following claims were extracted using the `extract-claims` skill pattern. Each is testable against the current codebase. + +### Architecture Claims (Verified) + +| ID | Claim | Verification Status | Code Reference | +|----|-------|-------------------|----------------| +| VG-001 | Aphoria has 42 built-in extractors | VERIFIED | `registry.rs:327` -- `BUILTIN_EXTRACTOR_COUNT: usize = 42` | +| VG-002 | `import_graph` extractor uses predicate `"imported"` with `Boolean(true)` | VERIFIED | `import_graph.rs` -- only produces `imported: true` | +| VG-003 | `unsafe_atomic` extractor uses predicate `"pattern"` | VERIFIED | `unsafe_atomic.rs` -- uses generic `"pattern"` predicate | +| VG-004 | `bridge.rs` default path uses `SourceClass::Expert` (Tier 3) | VERIFIED | `bridge.rs:25` -- `claim_to_assertion()` calls with `SourceClass::Expert` | +| VG-005 | `bridge.rs` always sets `parent_hash: None` | VERIFIED | `bridge.rs:79` | +| VG-006 | `bridge.rs` always sets `epoch: None` | VERIFIED | `bridge.rs:89` | +| VG-007 | `bridge.rs` always sets `lifecycle: LifecycleStage::Approved` | VERIFIED | `bridge.rs:85` | +| VG-008 | `source_metadata` contains `{file, line, matched_text, scan_tool, scan_version}` only | VERIFIED | `bridge.rs:52-58` | +| VG-009 | `ExtractedClaim` has no evidence/provenance field | VERIFIED | `types/claim.rs:7-31` -- only has location, value, confidence | +| VG-010 | `claim_to_observation()` uses Tier 4 (Community) | VERIFIED | `bridge.rs:36-42` | +| VG-011 | Extractor trait has no mechanism to receive claims for verification | ✅ **CLOSED** | `traits.rs:68-107` -- `verifiable_predicates()` method added, 10 extractors declare predicates | + +### Gap Claims (What Doesn't Exist) + +| ID | Claim | Gap | +|----|-------|-----| +| VG-020 | `ExtractedClaim` should be renamed to `Observation` | `types/claim.rs` still uses `ExtractedClaim` | +| VG-021 | A real `Claim` type should exist with provenance, invariant, consequence, authority | No such type exists anywhere | +| VG-022 | Extractors should be paired with claims they verify | ✅ **CLOSED** — `verifiable_predicates()` added to `Extractor` trait; 10 extractors declare predicates; `compute_extractor_claim_map()` in verify.rs; `aphoria verify map` shows coverage | +| VG-023 | `aphoria audit` command should exist | No audit subcommand in CLI | +| VG-024 | Claims should support supersession via `parent_hash` | `parent_hash` is always `None` | +| VG-025 | `aphoria claims list` / `aphoria claims explain` should exist | No claims subcommand | +| VG-026 | Corpus should be real assertions, not hardcoded in `corpus.rs:33-157` | Corpus is built procedurally per scan | +| VG-027 | Conflict resolution should use Episteme lenses | No lens invoked during scan | +| VG-028 | Direction 2 audit (walk claims, verify code) doesn't exist | No inverse audit flow | +| VG-029 | Skill should be primary claim authoring interface | No `.claude/skills/aphoria` skill exists | + +--- + +## What Needs to Change + +### 1. Claims are authored, not extracted + +Extractors don't produce claims. Humans (assisted by the Aphoria skill) produce claims. Extractors produce **observations** that are checked against claims. + +The type system should reflect this: + +```rust +// CURRENT (types/claim.rs:7-31) +pub struct ExtractedClaim { // This is an observation, not a claim + pub concept_path: String, + pub predicate: String, + pub value: ObjectValue, + pub file: String, + pub line: usize, + pub matched_text: String, + pub confidence: f32, + pub description: String, +} + +// TARGET: New Observation type (rename ExtractedClaim) +pub struct Observation { + pub concept_path: String, + pub predicate: String, + pub value: ObjectValue, + pub file: String, + pub line: usize, + pub matched_text: String, + pub confidence: f32, + pub description: String, +} + +// TARGET: New Claim type (does not exist today) +pub struct AuthoredClaim { + pub concept_path: String, + pub predicate: String, + pub value: ObjectValue, + pub provenance: String, // Where did this come from? (Intel SDM, RFC, ADR) + pub invariant: String, // What must remain true? + pub consequence: String, // What breaks if violated? + pub authority_tier: SourceClass, // Tier 0-4 + pub evidence_chain: Vec, // References to supporting documents + pub parent_hash: Option, // Supersedes which claim? + pub epoch: Option, // Paradigm context +} +``` + +### 2. The skill is the primary interface, not the scanner + +The `.claude/skills/aphoria` skill should be the main way claims enter the system. It: +- Understands the project's claim vocabulary +- Reviews diffs for claimable changes +- Looks up existing claims for context +- Helps author claims with proper lineage +- Submits them as real Episteme assertions + +The scanner (`aphoria scan`) becomes the audit tool -- it verifies that code matches claims, not the other way around. + +### 3. Extractors serve the audit, not the authoring + +The `Extractor` trait (`traits.rs:68-94`) needs to change: + +```rust +// CURRENT: Extractors produce observations from thin air +pub trait Extractor: Send + Sync { + fn name(&self) -> &str; + fn languages(&self) -> &[Language]; + fn extract(&self, segments: &[String], content: &str, lang: Language, file: &str) -> Vec; +} + +// TARGET: Extractors can also verify observations against claims +pub trait Extractor: Send + Sync { + fn name(&self) -> &str; + fn languages(&self) -> &[Language]; + fn extract(&self, segments: &[String], content: &str, lang: Language, file: &str) -> Vec; + + /// Claims this extractor can verify (empty = observation-only extractor) + fn verifiable_claims(&self) -> &[&str] { &[] } + + /// Verify a specific claim against extracted observations + fn verify(&self, claim: &AuthoredClaim, observations: &[Observation]) -> VerifyResult { + VerifyResult::Unchecked + } +} +``` + +### 4. The corpus should be proper assertions + +Today, RFC/OWASP knowledge is built procedurally in `corpus.rs:33-157`. The `ConflictingSource::extract_citation()` in `types/claim.rs:89-111` already handles `rfc://` and `owasp://` URI schemes -- the infrastructure for proper corpus assertions partially exists. + +Target: corpus data stored as real Episteme assertions with proper lineage, not rebuilt every scan. + +### 5. The claims-explained.md pattern should be the product + +The workflow that produces it: + +```mermaid +flowchart TD + A[aphoria scan] -->|produces| B[Observations] + B -->|skill identifies| C{Claimable?} + C -->|yes| D[Developer authors claim
with skill assistance] + C -->|no| E[Discard / log as observation] + D -->|submit| F[Episteme Knowledge Graph] + F -->|future scans| G[aphoria audit checks
code against claims] + G -->|generates| H[claims-explained.md
auto-generated from graph] + F -->|new observations| I{Matches existing claim?} + I -->|yes, same value| J[PASS] + I -->|no, different value| K[CONFLICT] + I -->|claim about deleted code| L[MISSING] +``` + +--- + +## Proposed Extractors for Audit Flow + +These extractors don't exist today. They're needed to close the gap between observations and claims. + +### Self-Audit Extractors (Meta) + +These extractors audit Aphoria's own code to verify the claims in this document remain true: + +| Extractor Name | What It Verifies | Pattern | +|---------------|-----------------|---------| +| `bridge_source_class_audit` | `bridge.rs` default tier assignment | Regex for `SourceClass::Expert` in `claim_to_assertion` | +| `bridge_parent_hash_audit` | Whether `parent_hash` is always `None` | Regex for `parent_hash: None` in bridge | +| `bridge_lifecycle_audit` | Whether lifecycle skips review | Regex for `LifecycleStage::Approved` without Pending | +| `extractor_trait_audit` | Whether Extractor trait accepts claims | Check trait definition for claim parameter | +| `type_naming_audit` | Whether `ExtractedClaim` has been renamed | Grep for `struct ExtractedClaim` vs `struct Observation` | + +### Claim-Paired Extractors (Project-Specific) + +These are examples of what extractor-claim pairs look like for a project like Maxwell: + +| Claim | Extractor | Verification | +|-------|-----------|-------------| +| "Wallet atomics MUST use SeqCst" | `unsafe_atomic` (exists) | Check all `Ordering::` in wallet/ are `SeqCst` | +| "Wallet MUST NOT derive Clone" | `derive_pattern` (exists) | Check `#[derive(` on Wallet struct excludes `Clone` | +| "vsock types MUST derive Serialize+Deserialize" | `derive_pattern` (exists) | Check all structs in vsock/ derive both | +| "RAPL_POWER_UNIT MUST be 0x606" | `const_declarations` (exists) | Check const value matches Intel SDM | +| "Core modules MUST NOT import tokio" | `import_graph` (exists) | Check no `use tokio` in core/ | + +The existing extractors can already produce the observations needed. What's missing is the **claim** to compare against and the **pairing mechanism** to connect them. + +### Declarative Extractor Examples + +Using the existing `DeclarativeExtractor` system (`extractors/declarative/`), claim-paired extractors can be defined in `aphoria.toml`: + +```toml +[[extractors.declarative]] +name = "wallet_seqcst_policy" +description = "Wallet atomics must use SeqCst ordering" +languages = ["rust"] +pattern = 'Ordering::(Relaxed|AcqRel|Acquire|Release)' +claim.subject = "policy/wallet/atomics/ordering" +claim.predicate = "forbidden_ordering" +claim.value = { type = "boolean", value = true } +confidence = 0.95 +source = { claim_id = "wallet-seqcst-001", authority = "safety-analysis" } + +[[extractors.declarative]] +name = "core_no_tokio_policy" +description = "Core modules must not import tokio" +languages = ["rust"] +pattern = 'use tokio' +claim.subject = "policy/core/imports/tokio" +claim.predicate = "forbidden_import" +claim.value = { type = "boolean", value = true } +confidence = 0.95 +source = { claim_id = "arch-boundary-001", authority = "architecture-decision" } +``` + +--- + +## The Path Forward + +### Phase 1: Distinguish observations from claims + +- [ ] Rename `ExtractedClaim` to `Observation` in `types/claim.rs` +- [ ] Create `AuthoredClaim` type with provenance, invariant, consequence, authority, evidence_chain +- [ ] Update `bridge.rs` default path to use Tier 4/5 (not Tier 3) for scanner output +- [ ] Add `evidence` field to `source_metadata` in bridge + +### Phase 2: Build the authoring workflow + +- [ ] Create `.claude/skills/aphoria` skill for claim authoring +- [ ] Add `aphoria claims create` CLI command +- [ ] Add `aphoria claims update` with `parent_hash` supersession +- [ ] Add `aphoria claims list` and `aphoria claims explain` +- [ ] Store authored claims as proper Episteme assertions with lineage + +### Phase 3: Pair extractors with claims + +- [ ] Extend `Extractor` trait with `verifiable_claims()` and `verify()` methods +- [ ] Add `aphoria audit` command (both directions) +- [ ] Map each existing extractor to claims it can verify +- [ ] Flag observations without matching claims as "should this be a claim?" + +### Phase 4: Make the corpus first-class + +- [ ] Convert `corpus.rs` hardcoded assertions to stored Episteme assertions +- [ ] Wire up Authority Lens for conflict resolution +- [ ] Ensure Trust Packs contain authored claims, not just patterns + +### Phase 5: The flywheel + +- [ ] More claims authored per commit +- [ ] Better audit coverage (extractors verify more claims) +- [ ] Skill learns from authored claims what's claimable +- [ ] Claims-explained documentation auto-generates from knowledge graph +- [ ] New team members read claims to understand WHY, not just WHAT + +--- + +## Summary + +We built a good code scanner. We didn't build a knowledge graph client. + +The extractors work well at finding patterns. But finding patterns isn't the point -- understanding what those patterns mean, why they must be that way, and what breaks if they change is the point. + +The Maxwell claims-explained.md proves the concept works. Every one of those 67 observations becomes valuable when paired with provenance and invariants. The gap is that today a human has to write that context by hand. + +Close the gap by making the skill -- not the scanner -- the primary interface, and by treating claims as authored artifacts with lineage rather than regex output with a fancy name. + +--- + +## Appendix: Claim Extraction Summary + +This document contains **94 extractable claims** across **52 unique subjects**: + +- **11 architecture claims**: Verified against current code (all confirmed true) +- **10 gap claims**: Define what doesn't exist yet +- **5 bridge.rs claims**: Code-verifiable, confirmed (source_hash faked, source_class hardcoded, parent_hash ignored, epoch ignored, evidence empty) +- **15 phase-plan claims**: Define specific deliverables and tasks +- **20+ workflow claims**: Define the target authoring/audit model +- **5 claimability rules**: What counts as claimable in a diff (spec constants=yes, ordering changes=yes, boundary crossings=yes, derive changes on serialized types=yes, renamed variables=no) +- **4 Maxwell examples**: Real claims about SeqCst ordering, Wallet derives, vsock serialization, RAPL_POWER_UNIT + +~~The most critical engineering gap: **no extractor currently has the ability to verify against existing claims**.~~ **CLOSED (2026-02-08):** The `Extractor` trait now includes `verifiable_predicates()` returning `(tail_path, predicate)` pairs. 10 extractors declare their predicates. `compute_extractor_claim_map()` matches claims against extractors (with wildcard support). `aphoria verify map` shows coverage. Direction 2 audit (walk claims, verify code) is now implemented via `aphoria verify run`. diff --git a/applications/aphoria/roadmap-archive.md b/applications/aphoria/roadmap-archive.md new file mode 100644 index 0000000..b1398c3 --- /dev/null +++ b/applications/aphoria/roadmap-archive.md @@ -0,0 +1,319 @@ +# Aphoria Roadmap Archive + +> Completed phases moved from `roadmap.md`. Full implementation details preserved in git history. + +--- + +## Phase 0: StemeDB Foundation ✅ + +ConceptPath type, hierarchical index, alias store, source class inference, concept API endpoints. +All shipped as Phase 5D of the main StemeDB roadmap. + +**Spec:** [docs/specs/concept-hierarchy.md](../../docs/specs/concept-hierarchy.md) + +--- + +## Phase 2: CLI Core ✅ + +End-to-end CLI pipeline with 10 extractors and bootstrapped corpus of 11 hardcoded assertions. + +| Task | Status | +|------|--------| +| 2.1 Project Walker | ✅ `walker/mod.rs`, `walker/path_mapper.rs`, `walker/language.rs` | +| 2.2 Extractors (10) | ✅ `tls_verify`, `jwt_config`, `hardcoded_secrets`, `timeout_config`, `dep_versions`, `cors_config`, `rate_limit`, `weak_crypto`, `command_injection`, `sql_injection` | +| 2.3 Ingestion Bridge | ✅ `bridge.rs` — BLAKE3 hashing, Ed25519 signing, claim→assertion conversion | +| 2.4 Conflict Query | ✅ `episteme.rs` — LocalEpisteme with check_conflicts() | +| 2.5 Report Output | ✅ `report/` — table (comfy-table), JSON, SARIF 2.1.0, markdown | +| 2.6 Acknowledge Command | ✅ `lib.rs` acknowledge() | +| Baseline & Diff | ✅ `lib.rs` set_baseline(), show_diff() | +| Status Command | ✅ `lib.rs` show_status() | + +### Phase 2 Code Quality Fixes ✅ + +- DES/RC4 concept path misclassification: Split into `check_hash_pattern()` and `check_encryption_pattern()` +- SHA1 edge case: Documented as intentionally broad +- JS exec() regex: Tightened to require `child_process.` prefix + +--- + +## Phase 2A: Concept Matching ✅ + +- **2A.1 Leaf-Based Matching**: `ConceptIndex` with tail-path matching (last 2 segments + predicate) +- **2A.2 Alias Resolution**: Wired `AliasStore` into `QueryEngine.execute()` with `resolve_aliases: bool` +- **2A.3 Auto-Alias Creation**: Auto-creates aliases when code and authority share leaf names + +--- + +## Phase 1: Authoritative Corpus Expansion ✅ + +Expanded from 11 hardcoded assertions to pluggable corpus system. + +- **1.1 CorpusBuilder Trait** ✅ — name, scheme, default_tier, build, requires_network +- **1.2 RFC Ingester** ✅ — HTTP fetching, RFC 2119 keyword parsing, 8 RFC-specific parsers +- **1.3 OWASP Ingester** ✅ — GitHub raw content, 9 cheat sheet parsers +- **1.4 Vendor Docs** ✅ — PostgreSQL, Redis, reqwest, hyper, Go net/http, tokio-postgres, SQLx +- **1.5 Hardcoded Refactor** ✅ — Original 11 assertions as `HardcodedCorpusBuilder` +- **1.6 CLI Integration** ✅ — `aphoria corpus build/list`, `--only`, `--offline`, `--clear-cache` +- **1.7 Error Handling** ✅ — Per-source graceful degradation + +**Files:** `corpus/mod.rs`, `corpus/hardcoded.rs`, `corpus/rfc.rs`, `corpus/owasp.rs`, `corpus/vendor.rs` + +--- + +## Phase 3: Skill Integration ✅ + +- **3.1 Claude Code Skill** ✅ — `/aphoria scan`, `scan --fix`, `ack`, `status`, `diff`, `init`, `baseline` +- **3.2 Agent Pre-Flight Hook** ✅ — `--exit-code` (2=BLOCK, 1=FLAG, 0=clean), `--strict` +- **3.3 Alias Suggestion** ✅ — Auto-alias creation from Phase 2A.3 + +--- + +## Phase 4: Full-Cycle Pre-Commit (Scan + Sync) ✅ + +Bidirectional knowledge sync: extract → check → classify → update → gate. + +- **4A Observational Claims** ✅ — `--sync` records novel claims as Tier 4 observations +- **4B Self-Conflict Detection** ✅ — Drift detection with `Verdict::Drift` +- **4C Diff-Only Scanning** ✅ — `--staged` for fast pre-commit hooks +- **4D Enhanced Ack** ✅ — `--reason`, `aphoria update` for policy changes +- **4E Hosted Mode** ✅ — Team aggregation via central StemeDB server, `HostedClient` + +--- + +## Phase 4.5: Ephemeral Scan Mode ✅ + +40x faster scans by skipping Episteme storage. Default mode ~0.25s, persistent ~1-2s. + +- `ScanMode` enum (Ephemeral default, Persistent opt-in with `--persist`) +- `EphemeralDetector` — in-memory corpus + ConceptIndex +- `check_conflicts_pure()` extracted as standalone function + +--- + +## Phase 5: Research Agent Loop ✅ + +- **5.1 Gap Detection** ✅ — `detect_gaps()` compares claims against ConceptIndex +- **5.2 Gap Storage** ✅ — JSON-backed persistent storage with eligibility tracking +- **5.3 Quality Validation** ✅ — Source attribution, normative language, vague content detection +- **5.4 Research Execution** ✅ — HTTP fetching, normative extraction, confidence scoring +- **5.5 CLI Integration** ✅ — `aphoria research run/status/gaps` +- **5.6 Community Corpus** ✅ — Opt-in anonymous pattern sharing with privacy-preserving anonymization +- **5.7 Security Extractors** ✅ — weak_crypto, command_injection, sql_injection + +--- + +## Phase 6: Federated Policy & Trust Packs ✅ + +- **6.1 Trust Pack Format** ✅ — rkyv serialization, Ed25519 signing +- **6.2 Policy Management** ✅ — Local and remote loading with caching +- **6.3 Core Integration** ✅ — EphemeralDetector + LocalEpisteme policy ingestion +- **6.4 CLI Commands** ✅ — `aphoria policy export`, auto-loading + +--- + +## Phase 6.5: Trust Pack Extensions ✅ + +- **6.5.1 Predicate Aliases** ✅ — `enabled` ↔ `required` ↔ `mandatory` ↔ `enforced` +- **6.5.2 Pack Signing Key Rotation** ✅ — `aphoria policy resign`, signature chain audit trail + +--- + +## Phase 7: Declarative Extractors ✅ + +TOML-defined custom extractors without Rust code. + +- **7.1 Core Types** ✅ — `DeclarativeExtractorDef`, `DeclarativeExtractor` +- **7.2 Configuration** ✅ — `[[extractors.declarative]]` in aphoria.toml +- **7.3 Validation** ✅ — ReDoS protection, confidence validation +- **7.4 Registry Integration** ✅ — Enable/disable, Trust Pack integration +- **7.5 Error Handling** ✅ +- **7.6 Tests** ✅ — 22 unit + 7 integration tests + +--- + +## Phase 7.5: LLM-in-the-Loop Extraction ✅ + +Gemini-powered semantic extraction for high-value files. + +- **7.5.1 LLM Extractor** ✅ — `GeminiClient`, structured JSON output +- **7.5.2 Selective Triggering** ✅ — `is_high_value_file()`, token budget +- **7.5.3 Cost Controls** ✅ — BLAKE3 caching, budget enforcement +- **7.5.4 Configuration** ✅ — `[llm]` section in aphoria.toml + +--- + +## Phase 7.6: Pattern Learning Store ✅ + +Remember patterns LLM finds for promotion to declarative extractors. + +- **7.6.1 Schema** ✅ — `LearnedPattern`, `ClaimTemplate`, `ValueType` +- **7.6.2 PatternStore** ✅ — JSON-backed, RwLock thread safety, Levenshtein dedup +- **7.6.3 Normalization** ✅ — Version/boolean/number/string placeholder replacement +- **7.6.4 Configuration** ✅ — `[learning]` section +- **7.6.5 Scan Integration** ✅ — Project hash, record/update patterns + +--- + +## Phase 7.7: Pattern → Extractor Promotion ✅ + +Learned patterns become declarative extractors via LLM regex generation. + +- **7.7.1 Pipeline** ✅ — `PromotionPipeline`, `RegexGenerator`, `ExtractorValidator`, `YamlWriter` +- **7.7.2 Regex Generation** ✅ — Multi-example prompt, ReDoS safety +- **7.7.3 Validation** ✅ — Positive tests, timing validation +- **7.7.4 Human Review** ✅ — `aphoria extractors review/stats/candidates/promote` +- **7.7.5 Extractor Output** ✅ — YAML files in `.aphoria/extractors/learned/` + +--- + +## Phase 7.8: LLM Prompt Evaluation ✅ + +Golden fixtures with precision/recall metrics and regression detection. + +- **7.8.1 Fixture Format** ✅ — TOML-based with `must_contain`/`must_not_contain` +- **7.8.2 Claim Matching** ✅ — Tail-path matching, type coercion +- **7.8.3 Metrics** ✅ — Precision/Recall/F1, per-category breakdown +- **7.8.4 Harness** ✅ — Live/Cached/Mock modes, regression detection +- **7.8.5 Reports** ✅ — Table, JSON, Markdown +- **7.8.6 CLI** ✅ — `aphoria eval run/baseline/update-baseline/list-fixtures/validate-fixtures` +- **7.8.7 Seed Fixtures** ✅ — 10 fixtures across tls, jwt, secrets, auth, negative, edge + +--- + +## Phase 8: Enterprise Extractor Improvements ✅ + +42 extractors total. Enterprise-grade detection for production codebases. + +- **8.1 High-Entropy Secrets** ✅ — Shannon entropy, known prefixes (AWS/Stripe/GitHub/GitLab/Slack) +- **8.2 Framework Extractors (10)** ✅ — Spring, Django, Express, Rails, ASP.NET, Laravel, FastAPI, Next.js, Flask, NestJS +- **8.3 Config Deep Parsing** ✅ — YAML/JSON/TOML tree walking, 11 security rules +- **8.4 Semantic TLS Version** ✅ — Cross-language const detection, Terraform, Kubernetes +- **8.5 ORM SQL Injection** ✅ — Django/SQLAlchemy/GORM/ActiveRecord/Prisma/Sequelize +- **8.6 Path Traversal** ✅ +- **8.7 Unvalidated Redirects** ✅ +- **8.8 Weak Password** ✅ +- **8.9 Security Headers** ✅ +- **8.10 Insecure Deserialization** ✅ +- **8.11 SSRF** ✅ + +--- + +## Phase 9: Autonomous Extractor Generation ✅ + +Fully self-improving extraction system. + +- **9.1 Autonomous Promotion** ✅ — >0.95 confidence, >10 projects, full audit trail +- **9.2 Shadow Mode Testing** ✅ — Isolated metrics, graduation gate, FP tracking +- **9.3 Auto-Rollback** ✅ — FP rate >15% triggers automatic rollback +- **9.4 Cross-Project Learning** ✅ — Privacy-preserving pattern sync, community extractors +- **9.5 Extractor Versioning** ✅ — Changelogs, rollback, A/B comparison + +--- + +## Phase 10.1: Acknowledgment Expiry ✅ + +Time-limited exceptions with `--expires` flag. + +- `--expires 90d` or `--expires 2026-12-31` (ISO 8601) +- Expired acks resurface as BLOCK +- Preserved for audit trail per patent claim 25 +- All report formatters show expiry info + +**Files:** `src/expiry.rs`, `cli.rs`, `report/*.rs` + +--- + +## Phase 11: Evidence-Based Authority ✅ + +Evidence levels (ProductSpec > Standard > Research > Commit-only) with evidence-aware graduation. + +- **11.1 Types** ✅ — `EvidenceLevel`, `PatternEvidence` with ADR/spec/RFC references +- **11.2 Detection** ✅ — Commit message parsing, ADR/spec file detection +- **11.3 Graduation** ✅ — Thresholds vary by evidence (ProductSpec: 1 usage, Commit-only: 10) +- **11.4 Display** ✅ — Evidence chain in output, `--evidence` filter + +**Files:** `src/evidence/mod.rs`, `evidence/types.rs`, `evidence/detection.rs` + +--- + +## Phase 12: Knowledge Scope Hierarchy ✅ + +Organization → Team → Project scope levels with inheritance. + +- **12.1 Scope Types** ✅ — `ScopeLevel` enum, `ScopeConfig` +- **12.2 Inheritance** ✅ — Security: no opt-out, Conventions: override with justification +- **12.3 Override Workflow** ✅ — Justification + evidence required +- **12.4 Cross-Scope Queries** ✅ — `--scope org/team/project`, `--exclude-inherited` + +**Files:** `src/scope/mod.rs`, `scope/config.rs`, `scope/resolver.rs`, `scope/override_record.rs`, `scope/store.rs` + +--- + +## Phase 13: Knowledge Lifecycle Management ✅ + +Active → Deprecated → Superseded → Archived lifecycle for patterns. + +- **13.1 Status Types** ✅ — `KnowledgeStatus` enum with history tracking +- **13.2 Deprecation** ✅ — `aphoria deprecate` with `--reason`, `--superseded-by`, `--sunset-date` +- **13.3 Migration Guidance** ✅ — Warnings in scan output, links to replacements +- **13.4 Migration Dashboard** ✅ — `aphoria migrations status`, progress tracking, export + +**Files:** `src/lifecycle/mod.rs`, `lifecycle/store.rs`, `lifecycle/migration.rs` + +--- + +## Phase 16: Ignore & Exclusion System ✅ + +Clean scans by excluding test fixtures and intentional patterns. + +- **16.1 Glob Patterns** ✅ — `globset` with `**`, `*`, `?` support +- **16.2 `.aphoriaignore`** ✅ — Gitignore-style patterns, merged with aphoria.toml +- **16.3 Inline Comments** ✅ — `// aphoria:ignore`, `ignore-next-line`, `ignore-block` +- **16.4 Ack Export/Import** ✅ — `.aphoria/acks.toml`, version-controllable + +--- + +## The Self-Learning Vision (Complete) + +``` +Phase 7: Declarative Extractors ✅ + ↓ +Phase 7.5: LLM-in-the-Loop (Gemini semantic extraction) ✅ + ↓ +Phase 7.6: Pattern Learning (remember what LLM finds) ✅ + ↓ +Phase 7.7: Pattern Promotion (patterns → extractors) ✅ + ↓ +Phase 7.8: LLM Prompt Evaluation (measure & improve) ✅ + ↓ +Phase 8: Enterprise Extractors (42 total) ✅ + ↓ +Phase 9: Autonomous Generation (fully self-improving) ✅ +``` + +## Milestone Summary (Completed) + +| Phase | Deliverable | Status | +|-------|-------------|--------| +| 0 | ConceptPath in StemeDB | ✅ | +| 2 | Aphoria CLI (scan, report, ack) | ✅ | +| 2A | Concept matching (leaf, alias, auto-alias) | ✅ | +| 1 | Authoritative corpus expansion | ✅ | +| 3 | Claude Code skill + hooks | ✅ | +| 4 | Full-cycle pre-commit (sync, drift, staged, hosted) | ✅ | +| 4.5 | Ephemeral scan mode (40x faster) | ✅ | +| 5 | Research agent loop + community corpus | ✅ | +| 6 | Federated Policy & Trust Packs | ✅ | +| 6.5 | Trust Pack Extensions | ✅ | +| 7 | Declarative Extractors | ✅ | +| 7.5 | LLM-in-the-Loop Extraction | ✅ | +| 7.6 | Pattern Learning Store | ✅ | +| 7.7 | Pattern → Extractor Promotion | ✅ | +| 7.8 | LLM Prompt Evaluation | ✅ | +| 8 | Enterprise Extractors (42 total) | ✅ | +| 9 | Autonomous Extractor Generation | ✅ | +| 10.1 | Acknowledgment Expiry | ✅ | +| 11 | Evidence-Based Authority | ✅ | +| 12 | Knowledge Scope Hierarchy | ✅ | +| 13 | Knowledge Lifecycle Management | ✅ | +| 16 | Ignore & Exclusion System | ✅ | diff --git a/applications/aphoria/roadmap.md b/applications/aphoria/roadmap.md index 6768a98..4309f90 100644 --- a/applications/aphoria/roadmap.md +++ b/applications/aphoria/roadmap.md @@ -1,2601 +1,34 @@ # Aphoria Roadmap ---- - -## Phase 0: StemeDB Foundation ✅ - -> **Tracked in:** [roadmap.md § 5D. Concept Hierarchy](../../roadmap.md) - -Changes to the core database that Aphoria depends on. Shipped as **Phase 5D** of the main StemeDB roadmap. - -| Aphoria Phase 0 | StemeDB Phase 5D | Status | -|-----------------|------------------|--------| -| 0.1 ConceptPath Type | 5D.1 ConceptPath Type | ✅ | -| 0.2 ConceptPath in Assertion | (implicit in 5D.1) | ✅ | -| 0.3 Hierarchical Index | 5D.4 Hierarchical Query | ✅ | -| 0.4 Alias Store | 5D.3 Alias Store + 5D.5 Alias Resolution | ✅ | -| 0.5 Source Class Inference | 5D.6 Source Class Inference | ✅ | -| 0.6 Concept API Endpoints | 5D.7 Concept API Endpoints | ✅ | - -**Spec:** [docs/specs/concept-hierarchy.md](../../docs/specs/concept-hierarchy.md) +> Completed phases archived in [`roadmap-archive.md`](./roadmap-archive.md) --- -## Phase 2: CLI Core ✅ +## Status Overview -> Phase 2 was built before Phase 1 (authoritative corpus expansion). The CLI pipeline works end-to-end with a bootstrapped corpus of 11 hardcoded assertions covering TLS, JWT, CORS, secrets, and rate limiting. +| Phase | Deliverable | Status | +|-------|-------------|--------| +| 0–9, 11–13, 16 | Core CLI, Extractors (42), LLM, Learning, Enterprise, Lifecycle | ✅ Archived | +| 10 | UX & Enterprise Polish | 🔄 Partial (10.1 ✅, 10.2–10.3 ⬜) | +| 14 | Governance Workflows | 🎯 Current | +| 15 | Evidence Source Integration | ⬜ Future | +| A6 | AST-Aware Observation & Claim Verification | ⬜ Future | -| Task | Status | -|------|--------| -| 2.1 Project Walker | ✅ `walker/mod.rs`, `walker/path_mapper.rs`, `walker/language.rs` | -| 2.2 Extractors (10) | ✅ `tls_verify`, `jwt_config`, `hardcoded_secrets`, `timeout_config`, `dep_versions`, `cors_config`, `rate_limit`, `weak_crypto`, `command_injection`, `sql_injection` | -| 2.3 Ingestion Bridge | ✅ `bridge.rs` — BLAKE3 hashing, Ed25519 signing, claim→assertion conversion | -| 2.4 Conflict Query | ✅ `episteme.rs` — LocalEpisteme with check_conflicts() | -| 2.5 Report Output | ✅ `report/` — table (comfy-table), JSON, SARIF 2.1.0, markdown | -| 2.6 Acknowledge Command | ✅ `lib.rs` acknowledge() | -| Baseline & Diff | ✅ `lib.rs` set_baseline(), show_diff() | -| Status Command | ✅ `lib.rs` show_status() | +### Current State -183 tests pass. Clippy and fmt clean. - -### Phase 2 Code Quality Fixes ✅ - -Code review improvements to extractors: - -| Issue | Fix | Status | -|-------|-----|--------| -| DES/RC4 concept path misclassification | Split `check_pattern()` into `check_hash_pattern()` and `check_encryption_pattern()`; DES/RC4 now use `crypto/encryption/algorithm` path | ✅ | -| SHA1 edge case undocumented | Added comments and test documenting that SHA1 detection is intentionally broad (triggers for git hashes, etc.) | ✅ | -| JS exec() regex overly broad | Tightened regex to require `child_process.` prefix or non-word/non-dot preceding character; prevents `RegExp.exec()` false positives | ✅ | - ---- - -## Phase 2A: Concept Matching ✅ - -> **Status:** Complete. Tail-path matching (2A.1), alias-aware queries (2A.2), and auto-alias creation (2A.3) all implemented. - -### 2A.1 Leaf-Based Concept Matching (Aphoria-side fix) ✅ - -Implemented in `episteme.rs` via `ConceptIndex`: -- `make_key(subject, predicate)` extracts tail 2 path segments + predicate -- `build(assertions)` creates in-memory index keyed by tail path -- `lookup(subject, predicate)` finds matching authoritative assertions -- `check_conflicts()` uses `ConceptIndex` instead of `QueryEngine` for cross-scheme matching - -Integration tests prove TLS and JWT conflicts are detected correctly. - -### 2A.2 Alias Resolution in QueryEngine (StemeDB-side fix) ✅ - -Wired `AliasStore` into `QueryEngine.execute()`: -- Added `resolve_aliases: bool` field to `Query` (defaults to `false`) -- Added `alias_store: Option>` to `QueryEngine` -- Added `.with_alias_store()` builder method -- When `resolve_aliases: true`, expands subject via `AliasStore.resolve_all()` before index lookup -- Added `fetch_by_subjects()` and `fetch_by_subjects_predicate()` for multi-subject deduplication -- Modified `Query.matches()` to skip subject filtering when aliases are resolved -- Skips fast path (MV lookup) when `resolve_aliases: true` -- Gracefully degrades when no alias store is configured - -7 unit tests in `engine/tests/alias_resolution.rs`. This is the architecturally correct long-term fix that complements leaf matching. - -### 2A.3 Auto-Alias Creation ✅ - -When Aphoria ingests authoritative assertions and code claims that share leaf names, automatically create aliases: -- `code://rust/myapp/tls/cert_verification` ↔ `rfc://5246/tls/cert_verification` -- `code://rust/myapp/auth/jwt/audience_validation` ↔ `rfc://7519/jwt/audience_validation` - -This bridges 2A.1 (leaf matching) with 2A.2 (alias resolution) — leaf matching identifies candidates, aliases persist the relationship. - -**Implementation:** -- Added `auto_create_aliases: bool` config option to `AliasConfig` (defaults to `true`) -- Added `AliasOrigin::AutoDetected` variant to `stemedb-core` for tracking auto-created aliases -- Wired `GenericAliasStore` into `LocalEpisteme` for alias persistence -- In `check_conflicts()`, when a code claim matches an authoritative claim by leaf, calls `AliasStore.set_alias()` to persist the relationship with `AliasOrigin::AutoDetected` -- Alias creation is idempotent (skips if alias already exists) -- 4 unit tests verify: alias creation on conflict, no creation when disabled, correct origin, idempotency - ---- - -## Phase 1: Authoritative Corpus Expansion ✅ - -> Expanded from 11 hardcoded assertions to a pluggable corpus system with RFC, OWASP, and Vendor sources. - -### Architecture - -``` -┌─────────────────────────────────────────────────────────────────┐ -│ aphoria corpus build │ -│ │ -│ ┌──────────────┐ ┌──────────────┐ ┌───────────────────────┐ │ -│ │ RFC Ingester │ │ OWASP │ │ Vendor Bootstrapper │ │ -│ │ (Tier 0) │ │ Ingester │ │ (Tier 2) │ │ -│ │ │ │ (Tier 1) │ │ │ │ -│ └──────┬───────┘ └──────┬───────┘ └───────────┬───────────┘ │ -│ │ │ │ │ -│ └─────────────────┼──────────────────────┘ │ -│ ▼ │ -│ ┌─────────────────┐ │ -│ │ CorpusRegistry │ │ -│ └────────┬────────┘ │ -│ ▼ │ -│ ┌─────────────────┐ │ -│ │ LocalEpisteme │ │ -│ │ ingest_ │ │ -│ │ authoritative() │ │ -│ └─────────────────┘ │ -└─────────────────────────────────────────────────────────────────┘ -``` - -### 1.1 CorpusBuilder Trait ✅ - -| Task | Status | -|------|--------| -| `CorpusBuilder` trait | ✅ `corpus/mod.rs` — name, scheme, default_tier, build, requires_network | -| `CorpusRegistry` | ✅ Manages multiple builders, build_all(), list_builders() | -| `CorpusBuildResult` | ✅ Stats per builder, total assertions, success/fail/skip counts | - -### 1.2 RFC Ingester ✅ - -| Task | Status | -|------|--------| -| `RfcCorpusBuilder` | ✅ `corpus/rfc.rs` | -| HTTP fetching | ✅ Via `ureq`, cached to `~/.cache/aphoria/rfc-cache/` | -| RFC 2119 keyword parsing | ✅ MUST, MUST NOT, SHOULD, SHALL extraction | -| RFC-specific parsers | ✅ JWT (7519), OAuth (6749), Bearer (6750), TLS 1.3 (8446), TLS BCP (7525), TOTP (6238), Basic Auth (7617), HTTP (9110) | -| Concept mapping | ✅ `rfc://{number}/{topic}` at Tier 0 (Regulatory) | - -### 1.3 OWASP Ingester ✅ - -| Task | Status | -|------|--------| -| `OwaspCorpusBuilder` | ✅ `corpus/owasp.rs` | -| HTTP fetching | ✅ From GitHub raw content, cached to `~/.cache/aphoria/owasp-cache/` | -| Markdown parsing | ✅ MUST/SHOULD statements, section context | -| Cheat sheet parsers | ✅ Authentication, JWT, TLS, Secrets, Input Validation, Session, CSRF, Password Storage, HTTP Headers | -| Concept mapping | ✅ `owasp://cheatsheet/{topic}/{claim}` at Tier 1 (Clinical) | - -### 1.4 Vendor Docs ✅ - -| Task | Status | -|------|--------| -| `VendorCorpusBuilder` | ✅ `corpus/vendor.rs` | -| PostgreSQL claims | ✅ pool_size, idle_timeout, ssl_mode | -| Redis claims | ✅ timeout, max_retries, tls | -| reqwest claims | ✅ cert_verification, connect_timeout, request_timeout | -| hyper claims | ✅ keep_alive_timeout, max_concurrent_streams | -| Go net/http claims | ✅ read_timeout, write_timeout, idle_timeout, min_tls_version | -| tokio-postgres claims | ✅ pool_size, ssl_mode | -| SQLx claims | ✅ max_connections, idle_timeout | -| Concept mapping | ✅ `vendor://{product}/{topic}/{claim}` at Tier 2 (Observational) | - -### 1.5 Hardcoded Refactor ✅ - -| Task | Status | -|------|--------| -| `HardcodedCorpusBuilder` | ✅ `corpus/hardcoded.rs` — original 11 assertions | -| `create_authoritative_assertion()` | ✅ Made public in `episteme.rs` for corpus builders | - -### 1.6 CLI Integration ✅ - -| Task | Status | -|------|--------| -| `aphoria corpus build` | ✅ Fetches and ingests from all sources | -| `--only rfc,owasp,vendor` | ✅ Filter to specific sources | -| `--offline` | ✅ Skip network-requiring sources | -| `--clear-cache` | ✅ Clear cache before building | -| `aphoria corpus list` | ✅ List available corpus sources | -| `CorpusConfig` | ✅ cache_dir, include_*, rfc_list options | - -### 1.7 Error Handling ✅ - -| Task | Status | -|------|--------| -| `RfcFetch` error | ✅ Per-RFC fetch failures with context | -| `OwaspFetch` error | ✅ Per-cheat-sheet fetch failures with context | -| `CorpusBuild` error | ✅ General corpus build failures | -| Graceful degradation | ✅ Continue with other sources if one fails | - -**Files:** `corpus/mod.rs`, `corpus/hardcoded.rs`, `corpus/rfc.rs`, `corpus/owasp.rs`, `corpus/vendor.rs` - ---- - -## Phase 3: Skill Integration ✅ - -> Complete. Aphoria is now usable in Claude Code agent workflows. - -### 3.1 Claude Code Skill ✅ - -| Task | Status | -|------|--------| -| `skill/SKILL.md` | ✅ Comprehensive skill definition with all commands | -| `/aphoria scan` | ✅ Scan project, show conflicts grouped by verdict | -| `/aphoria scan --fix` | ✅ Interactive fix workflow | -| `/aphoria ack` | ✅ Acknowledge conflicts as intentional | -| `/aphoria status` | ✅ Show status and baseline | -| `/aphoria diff` | ✅ Show changes since baseline | -| `/aphoria init` | ✅ Initialize Aphoria | -| `/aphoria baseline` | ✅ Set baseline | -| `skill/install.sh` | ✅ Install script for `~/.claude/skills/aphoria/` | - -**Files:** `skill/SKILL.md`, `skill/install.sh`, `skill/hooks.json` - -### 3.2 Agent Pre-Flight Hook ✅ - -| Task | Status | -|------|--------| -| `--exit-code` flag | ✅ Returns 2 for BLOCK, 1 for FLAG only, 0 for clean | -| `--strict` flag | ✅ Lower thresholds (FLAG at 0.3, BLOCK at 0.5) | -| Hook template | ✅ `skill/hooks.json` with PreCommit and PrePush examples | - -**Usage:** -```json -{ - "hooks": { - "PreCommit": [{"command": "aphoria scan --format sarif --exit-code"}], - "PrePush": [{"command": "aphoria scan --strict --exit-code"}] - } -} -``` - -### 3.3 Alias Suggestion Workflow ✅ - -Auto-alias creation is now automatic (Phase 2A.3). When Aphoria scans: -1. Tail-path matching finds authoritative assertions -2. Aliases are auto-created with `AliasOrigin::AutoDetected` -3. Future queries use the alias automatically - -The skill documents the suggestion flow for manual alias management: -- **y (Accept)**: Creates alias -- **n (Reject)**: Records intentional difference -- **defer**: Flags for later review - ---- - -## Phase 4: Full-Cycle Pre-Commit (Scan + Sync) ✅ - -> **Vision:** The pre-commit hook is a **bidirectional knowledge sync**, not just a read-only linter. Every commit extracts claims, checks authority, detects drift from prior observations, and records new observations back. - -**Spec:** [uat/2026-02-04-full-cycle-precommit-vision.md](uat/2026-02-04-full-cycle-precommit-vision.md) - -``` -┌─────────────────────────────────────────────────────────────┐ -│ PRE-COMMIT FLOW │ -├─────────────────────────────────────────────────────────────┤ -│ 1. EXTRACT → What claims does this code make? │ -│ 2. CHECK → Against authority + own prior claims │ -│ 3. CLASSIFY → Authority conflict | Self conflict | Novel │ -│ 4. UPDATE → Record observations to local Episteme │ -│ 5. GATE → Exit code (BLOCK=2, FLAG=1, PASS=0) │ -└─────────────────────────────────────────────────────────────┘ -``` - -### 4.1 Git Pre-Commit Hook ✅ - -All flags needed for pre-commit integration are implemented: - -```bash -#!/bin/sh -# .git/hooks/pre-commit -aphoria scan --staged --sync --exit-code -``` - -Or using pre-commit framework: - -```yaml -repos: - - repo: local - hooks: - - id: aphoria - name: Aphoria Truth Sync - entry: aphoria scan --staged --sync --exit-code - language: system - pass_filenames: false -``` - -### 4.2 Baseline Mode ✅ - -Already implemented in Phase 2. - -### 4A: Observational Claims ✅ - -Record code claims as Tier 4 (Community) assertions when no authority conflict exists: - -| Task | Status | -|------|--------| -| `sync: bool` in ScanArgs | ✅ `types/command.rs` | -| `observations_recorded: usize` in ScanResult | ✅ `types/result.rs` | -| `--sync` CLI flag | ✅ `cli.rs` — requires `--persist` | -| `claim_to_observation()` | ✅ `bridge.rs` — creates Tier 4 (Community, 0.3 weight) assertions | -| `ingest_observations()` in LocalEpisteme | ✅ `episteme/local.rs` — writes to WAL + predicate index | -| Scan flow integration | ✅ `scan.rs` — splits claims by conflict status, writes novel claims as observations | -| Handler validation | ✅ `handlers.rs` — `--sync requires --persist` error | -| Report output | ✅ `report/table.rs`, `report/json.rs` — shows observation count | -| Tests | ✅ 5 new tests for observation write-back | - -``` -Code: connection_pool.max_size = 25 -Authority: (nothing) -Action: Record as Tier 4 observation (project memory) -``` - -**Usage:** -```bash -# Scan with observation write-back -aphoria scan --persist --sync - -# Output: -# Recorded 45 observations (project memory) -``` - -### 4B: Self-Conflict Detection ✅ - -Detect drift from the project's own prior observations: - -| Task | Status | -|------|--------| -| Query prior claims before conflict check | ✅ `fetch_observations_for_concept()` | -| Compare current vs stored observations | ✅ `check_drift()` compares values | -| Report changes as SELF-CONFLICT | ✅ DriftResult with prior/current values | -| New verdict: `Drift` (distinct from Block/Flag) | ✅ `Verdict::Drift` | -| Drift reporting in all formats | ✅ table, json, markdown, sarif | -| Exit code includes drift | ✅ `--exit-code` returns 1 for drift | - -``` -Prior: db/pool_size = 25 (recorded 2026-01-15) -Now: db/pool_size = 100 -Result: DRIFT — "You changed pool_size from 25 to 100. Intentional?" -``` - -**Files:** `types/result.rs`, `types/verdict.rs`, `episteme/local.rs`, `scan.rs`, `report/*.rs` - -### 4C: Diff-Only Scanning ✅ - -Fast scanning for pre-commit hooks: - -| Task | Status | -|------|--------| -| `FileSource` enum (All, Staged) | ✅ `types/command.rs` | -| `--staged` flag (git diff --cached) | ✅ `cli.rs`, `handlers.rs` | -| `walker/git.rs` git utilities | ✅ `find_repo_root()`, `get_staged_files()` | -| `walk_staged_files()` | ✅ `walker/mod.rs` — filters to scan root, applies same filters | -| Scan dispatch by file_source | ✅ `scan.rs` | -| Error handling (NotGitRepo, GitCommand) | ✅ `error.rs` | -| Tests | ✅ 9 tests in `tests/staged_scanning.rs` | -| Target: < 500ms for staged-only | ✅ | - -**Files:** `types/command.rs`, `walker/git.rs`, `walker/mod.rs`, `scan.rs`, `cli.rs`, `handlers.rs`, `error.rs` - -**Usage:** -```bash -# Pre-commit hook (fast, staged files only) -aphoria scan --staged --exit-code - -# Full cycle with observation sync -aphoria scan --staged --persist --sync --exit-code -``` - -### 4D: Enhanced Ack ✅ - -Acknowledgments with rationale and policy updates: - -| Task | Status | -|------|--------| -| `--reason "text"` flag | ✅ `cli.rs` — required on `ack`, `bless`, `update` commands | -| Store rationale in assertion metadata | ✅ `policy_ops.rs` — stored in value/description fields | -| `aphoria update` for intentional drift | ✅ `policy_ops.rs` — creates `policy_update` assertion | -| Policy update assertions | ✅ `types/mod.rs` — `predicates::POLICY_UPDATE` | - -**Files:** `cli.rs`, `handlers.rs`, `policy_ops.rs`, `types/command.rs`, `types/mod.rs` - -```bash -$ aphoria ack db/pool_size --reason "Scaling for Black Friday" -$ aphoria update db/pool_size 100 --reason "New baseline after load test" -``` - -### 4E: Hosted Mode ✅ - -Organizations run their own StemeDB server and all team members automatically sync observations: - -| Task | Status | -|------|--------| -| `HostedConfig` in config.rs | ✅ `url`, `project_id`, `team_id`, `sync_mode`, `offline_fallback`, `api_key_env` | -| `SyncMode` enum | ✅ `remote-only` (default), `local-and-remote` | -| `OfflineFallback` enum | ✅ `skip` (default), `fail`, `queue` | -| `HostedClient` HTTP client | ✅ `hosted.rs` — retry logic, auth headers, observation push | -| `POST /v1/aphoria/observations` endpoint | ✅ Server receives observations with project/team metadata | -| Scan integration | ✅ Auto-enables sync when `[hosted]` configured | -| `Hosted(String)` error variant | ✅ For connection/auth failures | -| Graceful offline fallback | ✅ Based on `offline_fallback` config | -| Tests | ✅ Config parsing, client creation, assertion conversion | - -```toml -# aphoria.toml -[hosted] -url = "https://episteme.acme.corp" # Enables hosted mode -project_id = "billing-service" # Optional, defaults to [project.name] -team_id = "platform-team" # Optional, for multi-team servers -sync_mode = "remote-only" # "remote-only" | "local-and-remote" -offline_fallback = "skip" # "skip" | "fail" | "queue" -api_key_env = "APHORIA_API_KEY" # Env var for auth token -``` - -**Architecture:** -``` -┌──────────────┐ ┌──────────────┐ ┌──────────────┐ -│ Developer A │ │ Developer B │ │ Developer C │ -│ aphoria scan │ │ aphoria scan │ │ aphoria scan │ -└──────┬───────┘ └──────┬───────┘ └──────┬───────┘ - │ │ │ - └─────────────────┼─────────────────┘ - ▼ - ┌─────────────────────┐ - │ Team StemeDB Server │ - │ POST /v1/aphoria/ │ - │ observations │ - └─────────────────────┘ - │ - ▼ - Aggregated team patterns -``` - -**Files:** `config.rs`, `hosted.rs`, `scan.rs`, `error.rs`, `lib.rs`, `crates/stemedb-api/src/handlers/aphoria.rs`, `crates/stemedb-api/src/dto/aphoria.rs` - ---- - -## Phase 4.5: Ephemeral Scan Mode ✅ - -> Performance optimization: 40x faster scans by skipping Episteme storage when persistence isn't needed. - -### Problem - -Every `aphoria scan` was slow because it initialized the full Episteme stack: -- WAL recovery (O(n) on every startup) -- Dual backend initialization (fjall + redb) -- Store and index initialization - -But conflict detection is actually 100% in-memory — it never reads from the KV store. The authoritative corpus is built fresh each time, and code claims are extracted fresh each scan. - -### Solution - -Added `ScanMode` enum with two modes: - -| Mode | Use Case | Storage | Performance | -|------|----------|---------|-------------| -| **Ephemeral** (default) | CI, pre-commit, quick checks | None | ~0.25 seconds | -| **Persistent** | Baseline/diff tracking, alias creation | WAL + store | ~1-2 seconds | - -### Implementation ✅ - -| Task | Status | -|------|--------| -| `ScanMode` enum | ✅ `types.rs` — Ephemeral (default), Persistent | -| `EphemeralDetector` struct | ✅ `episteme/mod.rs` — in-memory corpus + ConceptIndex | -| `check_conflicts_pure()` | ✅ Extracted as standalone function for reuse | -| Mode-based dispatch in `run_scan()` | ✅ Uses `EphemeralDetector` for Ephemeral, `LocalEpisteme` for Persistent | -| `--persist` CLI flag | ✅ `main.rs` — opt-in to persistent mode | -| Tests for both modes | ✅ `test_ephemeral_scan_no_storage_created`, `test_persistent_scan_creates_storage`, `test_scan_modes_produce_same_conflicts` | - -### Usage - -```bash -# Fast ephemeral scan (default) — no storage created -aphoria scan . - -# Persistent scan — enables baseline, diff, auto-alias features -aphoria scan . --persist -``` - -### Performance - -| Mode | Time | Storage | -|------|------|---------| -| Ephemeral | ~0.25s | None | -| Persistent | ~1-2s | WAL + store directories | - -**Files:** `types.rs`, `episteme/mod.rs`, `lib.rs`, `main.rs`, `tests.rs` - ---- - -## Phase 5: Research Agent Loop ✅ - -> Research agent fills gaps in authoritative coverage by researching official documentation. - -### 5.1 Gap Detection ✅ - -| Task | Status | -|------|--------| -| `Gap` struct | ✅ `research/gap_detector.rs` — concept_path, topic, predicate, source info | -| `detect_gaps()` | ✅ Compares claims against ConceptIndex, identifies missing coverage | -| Topic normalization | ✅ Extracts last 2 path segments for cross-scheme matching | -| Deduplication | ✅ Deduplicates gaps by topic+predicate key | - -### 5.2 Gap Storage ✅ - -| Task | Status | -|------|--------| -| `GapRecord` | ✅ `research/gap_store.rs` — tracking metadata, project count, research status | -| `GapStore` | ✅ JSON-backed persistent storage with atomic saves | -| Project tracking | ✅ Records which projects reported each gap | -| Research eligibility | ✅ `is_eligible_for_research()` with threshold and cooldown | -| Gap pruning | ✅ `prune_old_gaps()` removes stale entries | - -### 5.3 Quality Validation ✅ - -| Task | Status | -|------|--------| -| `QualityValidator` | ✅ `research/quality.rs` — validates researched claims | -| Source attribution | ✅ Checks for authoritative domains (rfc-editor, owasp, vendor docs) | -| Normative language | ✅ Verifies MUST/SHOULD/SHALL keywords present | -| Vague content detection | ✅ Rejects "it depends", "typically", etc. | -| Consistency scoring | ✅ Detects conflicting claims on same subject | -| `QualityReport` | ✅ Detailed per-claim validation results | -| `filter_passed()` | ✅ Returns only claims meeting quality threshold | - -### 5.4 Research Execution ✅ - -| Task | Status | -|------|--------| -| `Researcher` | ✅ `research/researcher.rs` — orchestrates research pipeline | -| `DocumentationSource` | ✅ Configurable sources with URL patterns and topics | -| Default sources | ✅ Redis, PostgreSQL, Go, Rust, OWASP, Kafka, MongoDB | -| Content fetching | ✅ HTTP with timeout and size limits | -| Normative extraction | ✅ Regex-based MUST/SHOULD/SHALL extraction | -| Section tracking | ✅ Extracts heading context for attribution | -| Confidence scoring | ✅ Based on keyword strength, statement length, content size | - -### 5.5 CLI Integration ✅ - -| Task | Status | -|------|--------| -| `aphoria research run` | ✅ Run research agent with configurable threshold | -| `aphoria research status` | ✅ Show gap statistics and research progress | -| `aphoria research gaps` | ✅ List gaps by project count | -| `--threshold` | ✅ Minimum projects before researching (default: 3) | -| `--strict` | ✅ Use strict quality validation | -| `--prune` | ✅ Remove stale gaps before researching | -| `--ready` | ✅ Show only gaps ready for research | - -**Files:** `research/mod.rs`, `research/gap_detector.rs`, `research/gap_store.rs`, `research/quality.rs`, `research/researcher.rs`, `research/tests.rs` - -### 5.7 Security Extractors ✅ - -Extended Phase 2 extractors with OWASP-aligned security vulnerability detection: - -| Extractor | Detects | Languages | -|-----------|---------|-----------| -| `weak_crypto` | MD5, SHA1, DES, RC4 usage | Rust, Go, Python, JS/TS | -| `command_injection` | Shell execution, os.system, subprocess shell=True | Rust, Go, Python, JS/TS | -| `sql_injection` | String concatenation in SQL queries | Rust, Go, Python, JS/TS | - -**Concept paths:** -- `crypto/hashing/algorithm` — MD5, SHA1 -- `crypto/encryption/algorithm` — DES, RC4 -- `os/command/input`, `os/shell_mode` — command injection -- `db/query/input` — SQL injection - -### 5.6 Community Corpus Contributions ✅ - -> Users can opt in to contribute patterns anonymously to a central corpus, enabling community consensus to adjust default thresholds. - -| Task | Status | -|------|--------| -| `CommunityConfig` | ✅ `config/mod.rs` — enabled (false), anonymize (true), exclude, include, min_confidence | -| `AnonymizedObservation` | ✅ `community/types.rs` — privacy-preserving observation without file/line/text | -| `CommunityObjectValue` | ✅ `community/types.rs` — serde-compatible version of ObjectValue | -| `PatternAggregate` | ✅ `community/types.rs` — server-side aggregation with project counts | -| `anonymize_claim()` | ✅ `community/anonymizer.rs` — wildcards project names, strips file/line, rounds timestamps | -| `compute_anon_hash()` | ✅ Hash computed WITHOUT file/line/text (privacy-critical) | -| `wildcard_project_path()` | ✅ `code://rust/myapp/tls` → `code://rust/*/tls` | -| `--community-preview` flag | ✅ `cli.rs` — dry-run showing what WOULD be shared | -| `PatternAggregateStore` | ✅ `stemedb-storage` — server-side pattern aggregation | -| Project deduplication | ✅ Uses project_hash to prevent double-counting | -| `POST /v1/aphoria/community/observations` | ✅ Push anonymized observations | -| `GET /v1/aphoria/patterns` | ✅ Retrieve high-confidence community patterns | - -**Privacy Model:** -- Project names wildcarded: `myapp` → `*` -- File paths, line numbers, matched text NEVER shared -- Timestamps rounded to hour (k-anonymity) -- Server receives `project_hash`, not raw project names -- `enabled` defaults to `false` (explicit opt-in required) -- `anonymize` defaults to `true` (privacy-preserving by default) - -**Usage:** -```bash -# Preview what would be shared (no network) -aphoria scan --community-preview - -# Enable in aphoria.toml: -[community] -enabled = true -anonymize = true -min_confidence = 0.8 -exclude = ["vendor://acme/internal/*"] - -# Scan with sync to share patterns -aphoria scan --persist --sync -``` - -**Files:** `community/mod.rs`, `community/types.rs`, `community/anonymizer.rs`, `config/mod.rs`, `cli.rs`, `handlers.rs`, `stemedb-storage/src/pattern_aggregate_store/` - ---- - -## Phase 6: Federated Policy & Trust Packs ✅ - -> Allow teams to define their own authoritative truths and distribute them as signed Trust Packs. This enables "Enterprise Grade" compliance across distributed teams. - -### 6.1 Trust Pack Format ✅ - -| Task | Status | -|------|--------| -| `TrustPack` schema | ✅ `policy.rs` — Assertions, Aliases, Metadata, Signature | -| `PackHeader` | ✅ Name, version, issuer, timestamp | -| Serialization | ✅ `rkyv` for zero-copy efficiency | -| Signing | ✅ `ed25519-dalek` signing and verification | - -### 6.2 Policy Management ✅ - -| Task | Status | -|------|--------| -| `PolicyManager` | ✅ Loads local and remote (HTTP/HTTPS) policies | -| Caching | ✅ Caches remote policies in `~/.cache/aphoria/policies/` | -| `aphoria.toml` config | ✅ `policies` list support | - -### 6.3 Core Integration ✅ - -| Task | Status | -|------|--------| -| `EphemeralDetector` integration | ✅ Ingests policies into memory corpus/index | -| `check_conflicts_pure` update | ✅ Resolves policy aliases before authoritative lookup | -| `LocalEpisteme` export helpers | ✅ `fetch_acknowledgments`, `fetch_manual_aliases` | - -### 6.4 CLI Commands ✅ - -| Task | Status | -|------|--------| -| `aphoria policy export` | ✅ Exports local `ack` decisions as a Trust Pack | -| `aphoria scan` policy loading | ✅ Auto-loads policies from config | - -**Files:** `policy.rs`, `config.rs`, `episteme/mod.rs`, `lib.rs`, `main.rs` - ---- - -## Phase 6.5: Trust Pack Extensions ✅ - -> Enhancements to Trust Packs for semantic predicate matching and key management. - -### 6.5.1 Predicate Aliases ✅ - -**Status:** Complete -**Implemented:** 2026-02-06 - -**User Story:** -> As a security architect, when my policy uses `required=true` but the extractor emits `enabled=true`, I need them to match semantically. - -**Problem:** -- Policy blesses: `code://standard/tls/cert_verification` with predicate `required`, value `true` -- Extractor emits: `code://config/tls/cert_verification` with predicate `enabled`, value `false` -- Tail-path matching finds the concept (`tls/cert_verification`) ✓ -- But predicates differ: `required` vs `enabled` — no conflict detected ✗ - -**Solution:** - -| Task | Description | -|------|-------------| -| `predicate_aliases` field | Add to Trust Pack schema | -| Default aliases | `enabled` ↔ `required` ↔ `mandatory` ↔ `enforced` | -| ConceptIndex update | Check aliases during lookup | -| Pack-defined aliases | Allow packs to specify custom alias sets | - -**Trust Pack Schema Extension:** -```toml -# In Trust Pack -[predicate_aliases] -security_enabled = ["enabled", "required", "mandatory", "enforced", "active"] -version_minimum = ["min_version", "minimum_version", "tls_min_version"] -``` - -**Implementation Plan:** -1. Add `predicate_aliases: HashMap>` to `TrustPack` -2. Store aliases alongside assertions during import -3. Update `ConceptIndex.make_key()` to normalize predicates via aliases -4. Match during conflict detection: if `predicate_a` aliases to `predicate_b`, treat as same concept - -### 6.5.2 Pack Signing Key Rotation ✅ - -**Status:** Complete -**Implemented:** 2026-02-06 - -**User Story:** -> As a security admin, when our signing key is rotated, I need to re-sign all packs without losing policy content. - -**Problem:** -- Trust Packs are signed with Ed25519 keys -- When keys are rotated (security best practice), existing packs become unverifiable -- Need to re-sign packs with new key while preserving content hash - -**Solution:** - -| Task | Description | -|------|-------------| -| `aphoria policy resign` | CLI command to re-sign pack with new key | -| Content hash preservation | Keep `content_hash` unchanged, only update signature | -| Key rotation audit | Log key rotation events | -| Old signature archival | Optionally keep old signature for audit trail | - -**CLI:** -```bash -# Re-sign pack with new key -aphoria policy resign my-standards.pack --key-file new-private-key.pem - -# Re-sign with signature chain (audit trail) -aphoria policy resign my-standards.pack --key-file new-key.pem --chain-signatures -``` - -**Trust Pack Schema Extension:** -```rust -pub struct TrustPack { - // Existing fields... - pub signature: Signature, - - // New field for key rotation audit - pub signature_chain: Option>, -} - -pub struct SignatureRecord { - pub issuer_public_key: [u8; 32], - pub signature: Signature, - pub signed_at: DateTime, - pub reason: Option, // "Key rotation", "Security incident", etc. -} -``` - -### 6.5.3 Priority - -| Feature | Priority | Trigger | -|---------|----------|---------| -| Predicate Aliases | Medium | Enterprise feedback showing predicate naming conflicts | -| Key Rotation | Low | Enterprise security key management requirements | - -**Documented in:** [uat/future-scenarios.md](uat/future-scenarios.md) - ---- - -## Phase 7: Declarative Extractors ✅ - -> Enable users to define new extractors in config/policy files (TOML) without writing Rust code. This removes the recompilation bottleneck for custom pattern enforcement. - -**User Outcome:** "I added a custom extractor to my aphoria.toml that detects our company's deprecated API patterns. Now every scan flags files using the old pattern without me writing any Rust code." - -### 7.1 Core Types ✅ - -| Task | Status | -|------|--------| -| `DeclarativeExtractorDef` | ✅ `extractors/declarative.rs` — name, description, languages, pattern, claim, confidence | -| `DeclarativeClaimDef` | ✅ subject, predicate, value specification | -| `DeclarativeValue` enum | ✅ MatchedText, Boolean, Text variants | -| `DeclarativeExtractor` | ✅ Compiled extractor with `Extractor` trait impl | - -### 7.2 Configuration ✅ - -| Task | Status | -|------|--------| -| `ExtractorConfig.declarative` | ✅ `config/mod.rs` — `Vec` | -| TOML parsing | ✅ Serde deserialization with `#[serde(untagged)]` for value types | -| Example config | ✅ Documented in module and config docs | - -**Example aphoria.toml:** -```toml -[[extractors.declarative]] -name = "deprecated_api_v1" -description = "Detects usage of deprecated v1 API endpoints" -languages = ["go", "rust", "python"] -pattern = '/api/v1/\w+' -claim.subject = "api/deprecated_endpoint" -claim.predicate = "version" -claim.value = "v1" -confidence = 1.0 - -[[extractors.declarative]] -name = "legacy_encryption" -description = "Detects legacy encryption algorithms" -languages = ["rust", "go", "python", "javascript"] -pattern = '(?i)blowfish|twofish|cast5' -claim.subject = "crypto/encryption/algorithm" -claim.predicate = "algorithm" -claim.value_from_match = true -confidence = 0.9 -``` - -### 7.3 Validation & Security ✅ - -| Task | Status | -|------|--------| -| Name validation | ✅ Non-empty required | -| Subject/predicate validation | ✅ Non-empty required | -| Confidence validation | ✅ Must be 0.0-1.0 | -| Regex validation | ✅ Compiled at load time, not scan time | -| ReDoS protection | ✅ `RegexBuilder` with 10MB size limits | -| Language parsing | ✅ `Language::from_str()` with `FromStr` trait | -| Graceful failure | ✅ Invalid extractors logged as warnings, don't block others | - -### 7.4 Registry Integration ✅ - -| Task | Status | -|------|--------| -| Module export | ✅ `extractors/mod.rs` — public types | -| Registry registration | ✅ `ExtractorRegistry::new()` loads from config | -| Enable/disable support | ✅ Declarative extractors respect `disabled` list | -| Runtime addition | ✅ `add_from_definitions()` for Trust Pack integration | - -### 7.5 Error Handling ✅ - -| Task | Status | -|------|--------| -| `DeclarativeExtractor` error variant | ✅ `error.rs` — name + message | -| Validation errors | ✅ Clear messages for each failure mode | -| Structured logging | ✅ `tracing::warn!` for compilation failures | - -### 7.6 Tests ✅ - -| Task | Status | -|------|--------| -| Unit tests | ✅ 22 tests in `declarative.rs` | -| Registry tests | ✅ 7 tests for integration | -| Validation tests | ✅ Empty name, subject, predicate; invalid confidence, regex, language | -| Extraction tests | ✅ Boolean, text, matched_text value types | -| Deserialization tests | ✅ TOML parsing for all value types | - -**Files:** `extractors/declarative.rs`, `extractors/mod.rs`, `config/mod.rs`, `types/language.rs`, `error.rs` - ---- - -## Phase 7.5: LLM-in-the-Loop Extraction ✅ - -> Use LLM (Gemini) to extract claims semantically during persistent scans. This fills gaps that regex extractors can't catch, providing immediate value while the learning system builds up pattern knowledge. - -### Vision - -``` -Code file → Regex extractors → Claims found - ↓ - High-value files (auth, config, crypto) - ↓ - LLM Extractor → Additional semantic claims - ↓ - Combined claims → Conflict detection -``` - -### 7.5.1 LLM Extractor Implementation ✅ - -| Task | Status | -|------|--------| -| `GeminiClient` struct | ✅ `llm/client.rs` — Gemini API client using ureq | -| `LlmExtractor` struct | ✅ `llm/extractor.rs` — orchestrates extraction with budget tracking | -| Prompt engineering | ✅ Security-focused extraction prompt with structured JSON output | -| Response parsing | ✅ Parse Gemini's JSON response into `ExtractedClaim` format | -| Error handling | ✅ Graceful degradation when API unavailable or key missing | - -### 7.5.2 Selective Triggering ✅ - -| Task | Status | -|------|--------| -| `is_high_value_file()` | ✅ `llm/extractor.rs` — auth/, config/, crypto/, security/, secrets/, certs/, ssl/, tls/, keys/, credentials/ directories | -| High-value file names | ✅ secret, password, credential, token, auth, login, session, jwt, tls, ssl, cert, key, config, settings, security, crypto, encrypt, decrypt, oauth, saml, ldap, api_key, apikey, access_key, private | -| Token budget | ✅ `max_tokens_per_scan` (default 50k), `max_tokens_per_file` (default 4k) | -| Skip conditions | ✅ Only runs when regex extractors found nothing AND file is high-value | - -### 7.5.3 Cost Controls ✅ - -| Task | Status | -|------|--------| -| Token tracking | ✅ `Arc` for thread-safe budget tracking across files | -| BLAKE3 caching | ✅ `llm/cache.rs` — content hash + model + prompt version for cache key | -| Cache location | ✅ `~/.cache/aphoria/llm-cache/` | -| Budget enforcement | ✅ `within_budget()` check before each LLM call | - -### 7.5.4 Configuration ✅ - -```toml -# aphoria.toml -[llm] -enabled = true # Enable LLM extraction (default: false) -provider = "gemini" # Only "gemini" supported -# model defaults to DEFAULT_LLM_MODEL (currently "gemini-3-flash-preview") -api_key_env = "GEMINI_API_KEY" # Environment variable for API key -max_tokens_per_scan = 50000 # Budget per scan -max_tokens_per_file = 4000 # Budget per file (for max_output_tokens) -high_value_only = true # Only use on auth/config/crypto files -cache_responses = true # Cache by content hash -timeout_secs = 60 # API timeout -min_confidence = 0.7 # Filter claims below this confidence -``` - -**Files:** `llm/mod.rs`, `llm/client.rs`, `llm/extractor.rs`, `llm/cache.rs`, `config/mod.rs`, `scan.rs`, `error.rs` - ---- - -## Phase 7.6: Pattern Learning Store ✅ - -> When LLM extracts something that regex extractors missed, remember the pattern. Track which patterns recur across projects to identify candidates for promotion to declarative extractors. - -### Vision - -``` -LLM extracts claim from code - ↓ -Pattern not in learned store? - ↓ -Store: { example_code, claim, project_hash } - ↓ -Same pattern seen in 5+ projects? - ↓ -Flag for promotion to declarative extractor -``` - -### 7.6.1 LearnedPattern Schema ✅ - -| Task | Status | -|------|--------| -| `ValueType` enum | ✅ `learning/types.rs` — Text, Number, Boolean | -| `ClaimTemplate` struct | ✅ `learning/types.rs` — subject_template, predicate, value_type, description | -| `LearnedPattern` struct | ✅ `learning/types.rs` — full schema with timestamps, project hashes, confidence tracking | -| Serde serialization | ✅ JSON serialization with chrono timestamps | -| Tests | ✅ 5 unit tests for types | - -### 7.6.2 PatternStore Implementation ✅ - -| Task | Status | -|------|--------| -| `PatternStore` trait | ✅ `learning/store.rs` — abstract storage interface | -| `LocalPatternStore` | ✅ JSON-backed local storage at `~/.aphoria/learning/patterns.json` | -| `RwLock` thread safety | ✅ Write-through cache with in-memory HashMap | -| Deduplication | ✅ `find_similar()` with Levenshtein similarity threshold 0.8 | -| Pruning | ✅ `prune_stale()` removes patterns not seen in N days | -| Tests | ✅ 8 unit tests for store operations | - -### 7.6.3 Pattern Normalization ✅ - -| Task | Status | -|------|--------| -| `normalize_pattern()` | ✅ `learning/normalizer.rs` — replaces literals with placeholders | -| Version detection | ✅ `"1.0"`, `"TLSv1.2"` → `` | -| Boolean detection | ✅ `true`/`false` → `` | -| Number detection | ✅ Standalone numbers → `` | -| String detection | ✅ Remaining quoted strings → `` | -| `pattern_similarity()` | ✅ Levenshtein distance normalized to 0.0-1.0 | -| Tests | ✅ 17 unit tests for normalization | - -### 7.6.4 Configuration ✅ - -```toml -# aphoria.toml -[learning] -enabled = true # Enable pattern learning (default: false) -store = "local" # "local" | "hosted" -min_confidence = 0.7 # Minimum LLM confidence to learn -prune_after_days = 90 # Remove patterns not seen in N days - -[learning.promotion] -min_projects = 5 # Projects needed before promotion -min_confidence = 0.8 # Average confidence needed -auto_promote = false # Require human approval (Phase 7.7) -``` - -### 7.6.5 Scan Integration ✅ - -| Task | Status | -|------|--------| -| Initialize pattern store | ✅ `scan.rs` — only in persistent mode with learning enabled | -| Project hash computation | ✅ BLAKE3 hash for privacy-preserving project identification | -| Record LLM-extracted claims | ✅ After LLM extraction, record patterns meeting min_confidence | -| Update existing patterns | ✅ Merge observations when similar pattern found | -| Logging | ✅ Reports patterns_recorded count on scan completion | - -### 7.6.6 Error Handling ✅ - -| Task | Status | -|------|--------| -| `LearningStore` error variant | ✅ `error.rs` — for storage/cache failures | -| Graceful degradation | ✅ Store failures logged, don't block scan | - -**Files:** `learning/mod.rs`, `learning/types.rs`, `learning/normalizer.rs`, `learning/store.rs`, `config/mod.rs`, `scan.rs`, `error.rs`, `lib.rs` - -**Tests:** 30 tests covering types, normalization, and store operations. - ---- - -## Phase 7.6 (Legacy Documentation) - -> **Note:** The following is the original spec for reference. See above for implemented status. - -### Original Schema (Reference) - -```rust -/// A pattern learned from LLM extraction that could become a declarative extractor. -#[derive(Debug, Clone, Serialize, Deserialize)] -pub struct LearnedPattern { - /// Unique identifier - pub id: Uuid, - - /// Example code that triggered this pattern - pub example_code: String, - - /// Normalized pattern (variables replaced with placeholders) - /// e.g., "const TLS_MIN_VERSION = \"1.0\"" → "const TLS_MIN_VERSION = " - pub normalized_pattern: String, - - /// The claim this pattern produces - pub claim_template: ClaimTemplate, - - /// Language this pattern applies to - pub language: Language, - - /// When first seen - pub first_seen: DateTime, - - /// When last seen - pub last_seen: DateTime, - - /// Projects that have this pattern (hashed for privacy) - pub project_hashes: HashSet, - - /// Total occurrences across all projects - pub occurrences: u32, - - /// Average LLM confidence when extracting this - pub avg_confidence: f32, - - /// Has this been promoted to a declarative extractor? - pub promoted: bool, - - /// If promoted, the extractor ID - pub promoted_to: Option, -} - -/// Template for generating claims from a learned pattern. -#[derive(Debug, Clone, Serialize, Deserialize)] -pub struct ClaimTemplate { - pub subject_template: String, // "tls/min_version" - pub predicate: String, // "version" - pub value_type: ValueType, // String, Boolean, Number - pub description_template: String, -} -``` - -### Original PatternStore Trait (Reference) - -```rust -pub trait PatternStore: Send + Sync { - /// Record a pattern learned from LLM extraction - fn record_pattern(&self, pattern: &LearnedPattern) -> Result<()>; - - /// Find existing pattern matching this example - fn find_similar(&self, normalized: &str, language: Language, threshold: f32) -> Option; - - /// Get patterns ready for promotion (threshold met) - fn get_promotion_candidates(&self, min_projects: usize, min_confidence: f32) -> Vec; - - /// Mark pattern as promoted - fn mark_promoted(&self, id: &Uuid, extractor_name: &str) -> Result<()>; - - /// Prune old patterns - async fn prune_stale(&self, max_age_days: u32) -> Result; -} -``` - -### 7.6.3 Pattern Normalization ⬜ - -| Task | Description | -|------|-------------| -| Variable extraction | Identify literals that vary (versions, names, values) | -| Placeholder insertion | Replace literals with typed placeholders | -| Similarity scoring | Compare normalized patterns for dedup | - -```rust -fn normalize_pattern(code: &str, claim: &ExtractedClaim) -> String { - // "const TLS_MIN = \"1.0\"" → "const TLS_MIN = " - // "pool_size: 25" → "pool_size: " - // "verify_ssl: false" → "verify_ssl: " -} - -fn similarity_score(a: &str, b: &str) -> f32 { - // Levenshtein distance normalized to 0.0-1.0 - // Patterns with score > 0.8 are considered duplicates -} -``` - -### 7.6.4 Integration with Scan ⬜ - -```rust -// In scan.rs, after LLM extraction -for claim in llm_claims { - // Check if this is a new pattern - if let Some(existing) = pattern_store.find_similar(&claim.matched_text, language).await { - // Update existing pattern - pattern_store.increment_occurrence(&existing.id, project_hash).await?; - } else { - // Record new pattern - let pattern = LearnedPattern::from_claim(&claim, &code_context, project_hash); - pattern_store.record_pattern(&pattern).await?; - } -} -``` - -### 7.6.5 Configuration ⬜ - -```toml -# aphoria.toml -[learning] -enabled = true # Enable pattern learning -store = "local" # "local" | "hosted" -min_confidence = 0.7 # Minimum LLM confidence to learn -prune_after_days = 90 # Remove patterns not seen in N days - -[learning.promotion] -min_projects = 5 # Projects needed before promotion -min_confidence = 0.8 # Average confidence needed -auto_promote = false # Require human approval (Phase 7.7) -``` - -**Files:** `learning/mod.rs`, `learning/pattern.rs`, `learning/store.rs`, `learning/normalize.rs` - ---- - -## Phase 7.7: Pattern → Extractor Promotion ✅ - -> High-frequency learned patterns get promoted to declarative extractors. This closes the learning loop: patterns discovered by LLM become permanent, fast regex extractors. - -### Vision - -``` -LearnedPattern (5+ projects, >0.8 confidence) - ↓ -Claude: "Generate regex for this pattern" - ↓ -Candidate declarative extractor - ↓ -Validate against stored examples - ↓ -Human review (optional) → Approve/Reject - ↓ -Merge to project's .aphoria/extractors/ -``` - -### 7.7.1 Promotion Pipeline ✅ - -| Task | Status | -|------|--------| -| `PromotionPipeline` | ✅ `promotion/pipeline.rs` — orchestrates full promotion flow | -| `RegexGenerator` | ✅ `promotion/regex_gen.rs` — Gemini LLM integration | -| `ExtractorValidator` | ✅ `promotion/validator.rs` — ReDoS detection, timing validation | -| `YamlWriter` | ✅ `promotion/writer.rs` — outputs to `.aphoria/extractors/learned/` | -| `InteractiveReviewer` | ✅ `promotion/review.rs` — CLI review workflow | -| `PromotionCandidate` | ✅ `promotion/types.rs` | -| `ValidationResult` | ✅ `promotion/types.rs` | - -```rust -pub struct PromotionPipeline { - pattern_store: Arc, - llm_client: ClaudeClient, - validator: ExtractorValidator, -} - -impl PromotionPipeline { - /// Get patterns ready for promotion - pub async fn get_candidates(&self) -> Vec { - let patterns = self.pattern_store - .get_promotion_candidates(5, 0.8) - .await?; - - patterns.into_iter() - .map(|p| self.generate_candidate(p)) - .collect() - } - - /// Generate declarative extractor from pattern - async fn generate_candidate(&self, pattern: LearnedPattern) -> PromotionCandidate { - // Ask Claude to generate regex - let regex = self.llm_client.generate_regex(&pattern).await?; - - // Build declarative extractor - let extractor = DeclarativeExtractor { - name: pattern.id.to_string(), - language: pattern.language, - pattern: regex, - claim: pattern.claim_template.clone(), - source: ExtractorSource::Learned { - pattern_id: pattern.id, - projects: pattern.project_hashes.len(), - }, - }; - - // Validate against examples - let validation = self.validator.validate(&extractor, &pattern).await; - - PromotionCandidate { pattern, extractor, validation } - } -} -``` - -### 7.7.2 Regex Generation ✅ - -| Task | Status | -|------|--------| -| Multi-example prompt | ✅ Includes all examples in generation prompt | -| Regex safety | ✅ ReDoS detection prevents catastrophic backtracking | -| Test coverage | ✅ Validates against stored examples | - -```rust -async fn generate_regex(examples: &[String], claim: &ClaimTemplate) -> Result { - let prompt = format!( - "Generate a regex pattern that matches all these code examples:\n\n{}\n\n\ - The regex should extract the value for claim: {}\n\ - Requirements:\n\ - - Must match ALL examples\n\ - - Use named capture groups for extracted values\n\ - - Avoid catastrophic backtracking (no nested quantifiers)\n\ - - Return ONLY the regex, no explanation", - examples.join("\n---\n"), - claim.subject_template - ); - - let response = claude.message(&prompt).await?; - validate_regex_safety(&response)?; - Ok(response) -} -``` - -### 7.7.3 Validation Suite ✅ - -| Task | Status | -|------|--------| -| Positive tests | ✅ Must match all stored examples | -| ReDoS detection | ✅ Detects catastrophic backtracking patterns | -| Performance test | ✅ Timing validation with configurable threshold | -| False positive check | ⬜ Deferred to Phase 9 (sample codebase FP testing) | - -```rust -pub struct ExtractorValidator { - sample_codebases: Vec, // Known-good projects for FP testing -} - -impl ExtractorValidator { - pub async fn validate( - &self, - extractor: &DeclarativeExtractor, - pattern: &LearnedPattern - ) -> ValidationResult { - let mut result = ValidationResult::default(); - - // Must match all positive examples - for example in &pattern.examples { - if !extractor.matches(example) { - result.positive_failures.push(example.clone()); - } - } - - // Must not have excessive false positives - for codebase in &self.sample_codebases { - let fps = self.count_false_positives(extractor, codebase).await; - if fps > 10 { - result.false_positive_warning = true; - } - } - - // Must be fast - let duration = self.benchmark(extractor); - if duration > Duration::from_millis(100) { - result.performance_warning = true; - } - - result - } -} -``` - -### 7.7.4 Human Review Gate ✅ - -| Task | Status | -|------|--------| -| `aphoria extractors review` | ✅ CLI to review pending promotions | -| `aphoria extractors stats` | ✅ Show pattern store statistics | -| `aphoria extractors candidates` | ✅ List promotion candidates | -| `aphoria extractors promote` | ✅ Promote pattern to extractor | -| Approval workflow | ✅ Approve, reject, or skip via InteractiveReviewer | -| Rejection tracking | ⬜ Deferred to Phase 9 (rejection reason persistence) | -| Auto-approve mode | ⬜ Deferred to Phase 9 (>0.95 confidence auto-promote) | - -```bash -$ aphoria extractors review - -Pending promotions: 3 - -[1/3] Pattern: tls_min_version_const - Examples: 47 (across 8 projects) - Confidence: 0.91 - - Generated regex: (?i)(tls|ssl)_?(min|minimum)_?version\s*[:=]\s*["']?(1\.[01])["']? - - Sample matches: - const TLS_MIN_VERSION = "1.0" ✓ matches - TLS_MINIMUM_VERSION: "1.1" ✓ matches - ssl_min_version = "1.2" ✓ matches (TLS 1.2 is safe, false positive?) - - [a]pprove [r]eject [e]dit [s]kip [q]uit: _ -``` - -### 7.7.5 Extractor Output ✅ - -Promoted patterns become declarative extractors in `.aphoria/extractors/learned/`: - -```yaml -# .aphoria/extractors/learned/tls_min_version_const.yaml -# Auto-generated from learned pattern. DO NOT EDIT. -# Pattern ID: 550e8400-e29b-41d4-a716-446655440000 -# Learned from: 8 projects, 47 occurrences -# Confidence: 0.91 -# Promoted: 2026-02-10 - -name: "tls_min_version_const" -language: ["rust", "go", "python", "javascript", "typescript"] -pattern: '(?i)(tls|ssl)_?(min|minimum)_?version\s*[:=]\s*["\']?(1\.[01])["\']?' -claim: - subject: "tls/min_version" - predicate: "version" - value_capture: 1 # Capture group for version - description: "TLS minimum version set to deprecated {value}" -metadata: - source: "learned" - pattern_id: "550e8400-e29b-41d4-a716-446655440000" - projects: 8 - occurrences: 47 - confidence: 0.91 -``` - -### 7.7.6 Configuration ✅ - -```toml -# aphoria.toml -[promotion] -enabled = true # Enable promotion pipeline -auto_promote = false # Require human approval -output_dir = ".aphoria/extractors/learned" -min_confidence = 0.8 # Minimum to consider -min_projects = 5 # Projects needed before promotion -require_validation = true # Must pass validation suite -``` - -**Files:** `promotion/mod.rs`, `promotion/pipeline.rs`, `promotion/regex_gen.rs`, `promotion/validator.rs`, `promotion/review.rs`, `promotion/writer.rs`, `promotion/types.rs`, `handlers/extractors.rs` - -**Tests:** 43 tests covering pipeline, validation, regex generation, and YAML output. - ---- - -## Phase 9: Autonomous Extractor Generation ✅ - -> The system generates, tests, and deploys extractors without human approval for high-confidence patterns. This is the endgame: a fully self-improving extraction system. - -### Vision - -``` -Learned pattern exceeds autonomous threshold (>0.95 confidence, >10 projects) - ↓ -Auto-generate extractor - ↓ -Validate against comprehensive test suite - ↓ -A/B test: run new extractor in shadow mode - ↓ -If FP rate < 5%: auto-deploy - ↓ -If FP rate spikes: auto-rollback -``` - ---- - -## Phase 7.8: LLM Prompt Evaluation ✅ - -> Measure and improve LLM extraction quality through golden fixtures and regression detection. Essential for prompt engineering without breaking existing quality. - -### Vision - -``` -Golden Fixtures (TOML) Evaluation Harness - ├── tls-001: verify=False ├── Load fixtures - ├── jwt-001: algorithm=none --> ├── Run extraction (live/cached/mock) - └── secrets-001: hardcoded key ├── Match against expectations - ├── Compute precision/recall/F1 - └── Compare to baseline (regression detection) -``` - -### 7.8.1 Fixture Format ✅ - -| Task | Status | -|------|--------| -| `Fixture` type | ✅ `eval/fixture.rs` — TOML-based test cases | -| `ExpectedClaim` | ✅ Subject/predicate/value expectations | -| `must_contain` | ✅ Claims that MUST be extracted (recall) | -| `must_not_contain` | ✅ Claims that MUST NOT appear (precision) | -| `FixtureLoader` | ✅ Load fixtures from directory tree | -| `CorpusManifest` | ✅ Corpus metadata + baseline metrics | -| Validation | ✅ Duplicate ID, empty content, missing expectations | - -```toml -# tests/llm_fixtures/tls/tls-001-disabled-verification.toml -[metadata] -id = "tls-001" -name = "TLS verification disabled in Python requests" -category = "tls" -language = "python" - -[input] -filename = "api_client.py" -content = """ -response = requests.get(url, verify=False) -""" - -[expected] -must_contain = [ - { subject = "tls/cert_verification", predicate = "enabled", value = false } -] -must_not_contain = [ - { subject = "tls/cert_verification", predicate = "enabled", value = true } -] -``` - -### 7.8.2 Claim Matching ✅ - -| Task | Status | -|------|--------| -| `ClaimMatcher` | ✅ `eval/matcher.rs` — Flexible claim comparison | -| Tail-path matching | ✅ Last 2 segments for subject comparison | -| Type coercion | ✅ Boolean↔string ("true"/"yes"), number↔string | -| Confidence thresholds | ✅ Optional min_confidence per expectation | -| `count_false_positives()` | ✅ Detect unexpected claims | - -### 7.8.3 Metrics Computation ✅ - -| Task | Status | -|------|--------| -| `Metrics` | ✅ `eval/metrics.rs` — Aggregate evaluation metrics | -| Precision/Recall/F1 | ✅ Standard information retrieval metrics | -| Per-category breakdown | ✅ Metrics by fixture category | -| Cost estimation | ✅ Token-based cost tracking | -| `BaselineComparison` | ✅ Compare current run to stored baseline | -| Regression detection | ✅ Flag if F1/precision/recall drop > threshold | - -### 7.8.4 Evaluation Harness ✅ - -| Task | Status | -|------|--------| -| `EvalHarness` | ✅ `eval/harness.rs` — Orchestrates evaluation runs | -| `EvalMode::Live` | ✅ Real LLM API calls | -| `EvalMode::Cached` | ✅ Use cached responses (deterministic CI) | -| `EvalMode::Mock` | ✅ No LLM, tests harness itself | -| `EvalVerdict` | ✅ Pass, Regression, Review, Error | -| `update_baseline()` | ✅ Save current metrics as new baseline | - -### 7.8.5 Report Generation ✅ - -| Task | Status | -|------|--------| -| `Report` | ✅ `eval/report.rs` — Multi-format output | -| Table format | ✅ Terminal tables with color-coded results | -| JSON format | ✅ Machine-readable for CI/CD integration | -| Markdown format | ✅ Documentation and PR comments | -| Failed fixture details | ✅ Shows unmatched expectations with rationale | - -### 7.8.6 CLI Commands ✅ - -| Task | Status | -|------|--------| -| `aphoria eval run` | ✅ Run evaluation against fixtures | -| `aphoria eval baseline` | ✅ Show current baseline metrics | -| `aphoria eval update-baseline` | ✅ Update baseline (--force required) | -| `aphoria eval list-fixtures` | ✅ List available fixtures by category | -| `aphoria eval validate-fixtures` | ✅ Validate fixture format | -| `--fail-on-regression` | ✅ Exit code 1 if regression detected | -| `--threshold` | ✅ Configurable regression threshold (default 5%) | -| `--mode` | ✅ live, cached, or mock | - -```bash -# Run evaluation in mock mode -aphoria eval run --fixtures tests/llm_fixtures --mode mock - -# CI: fail on regression -aphoria eval run --mode cached --fail-on-regression --threshold 0.05 - -# Update baseline after prompt improvements -aphoria eval update-baseline --fixtures tests/llm_fixtures --force - -# List fixtures by category -aphoria eval list-fixtures --category tls -``` - -### 7.8.7 Seed Fixtures ✅ - -| Category | Fixture | Description | -|----------|---------|-------------| -| tls | tls-001 | Python requests verify=False | -| tls | tls-002 | Node.js TLSv1 deprecated protocol | -| jwt | jwt-001 | Algorithm 'none' allowed | -| jwt | jwt-002 | Go WithoutClaimsValidation | -| secrets | secrets-001 | Hardcoded API key | -| secrets | secrets-002 | High-entropy JWT in config | -| auth | auth-001 | Debug authentication bypass | -| negative | negative-001 | Safe TLS config (no findings expected) | -| negative | negative-002 | Env-loaded secrets (no findings expected) | -| edge | edge-001 | Empty file edge case | - -**Files:** `eval/mod.rs`, `eval/fixture.rs`, `eval/matcher.rs`, `eval/metrics.rs`, `eval/harness.rs`, `eval/report.rs`, `handlers/eval.rs`, `cli.rs`, `tests/llm_fixtures/` - -**Documentation:** [docs/llm-optimization/](docs/llm-optimization/index.md) — Full optimization playbook with decision trees, research templates, and baseline tracking. - ---- - -### 9.1 Autonomous Promotion ✅ - -| Task | Description | Status | -|------|-------------|--------| -| `AutonomousConfig` | Configuration with kill switch (enabled: false default) | ✅ | -| High-confidence threshold | Skip human review for >0.95 confidence | ✅ | -| Project threshold | Require >10 projects for autonomous | ✅ | -| Validation strictness | Zero failures, zero warnings required | ✅ | -| `should_auto_promote()` | Decision logic on `PromotionCandidate` | ✅ | -| `auto_promotion_blockers()` | Explains why pattern can't be auto-promoted | ✅ | -| `AutonomousAuditLog` | JSONL audit trail for all decisions | ✅ | -| `smart_auto_promote_all()` | Pipeline integration with audit logging | ✅ | -| YAML header enhancement | "AUTO-PROMOTED" + "Approved by: autonomous" | ✅ | -| CLI command | `aphoria extractors auto-promote [--dry-run]` | ✅ | - -**Safety Features:** -- Kill switch: `enabled: false` by default (opt-in only) -- Auditability: All decisions logged to `~/.aphoria/audit/autonomous-decisions.jsonl` -- Reversibility: Can delete YAML + reset pattern.promoted -- Blast radius: One pattern = one YAML file -- Traceability: YAML header shows approval source - -**Files:** `config/types/autonomous.rs`, `promotion/audit.rs`, `promotion/types.rs`, `promotion/pipeline.rs`, `promotion/writer.rs`, `handlers/extractors.rs` - -**Configuration:** -```toml -[autonomous] -enabled = true # Master switch (default: false) -min_confidence = 0.95 # Stricter than standard 0.8 -min_projects = 10 # Stricter than standard 5 -require_zero_failures = true -require_zero_warnings = true -audit_log = true -audit_dir = "~/.aphoria/audit/" -``` - -**CLI Usage:** -```bash -# Preview what would be auto-promoted -aphoria extractors auto-promote --dry-run - -# Run autonomous promotion -aphoria extractors auto-promote - -# Override thresholds -aphoria extractors auto-promote --min-confidence 0.97 --min-projects 15 -``` - -### 9.2 Shadow Mode Testing ✅ - -| Task | Description | Status | -|------|-------------|--------| -| `ShadowConfig` | Configuration for shadow mode (min_scans, max_fp_rate, rollback_threshold) | ✅ | -| `ShadowTest`, `ShadowStatus`, `ShadowMetrics` | Core types for tracking shadow extractors | ✅ | -| `ShadowStore` | JSONL persistence for tests, matches, and decisions | ✅ | -| `ShadowExtractorRegistry` | Loads shadow extractors from learned/ directory | ✅ | -| `ShadowExecutor` | Runs shadow extractors during scans, stores matches separately | ✅ | -| `FeedbackCollector` | TP/FP feedback collection and metrics update | ✅ | -| `GraduationManager` | Shadow → production promotion and rollback logic | ✅ | -| CLI commands | `shadow-status`, `feedback`, `graduate`, `rollback` | ✅ | - -**Safety Features:** -- Shadow isolation: Matches stored separately, not in production output -- Metrics transparency: FP rate visible via `shadow-status` -- Graduation gate: Must meet min_scans (100) + max_fp_rate (5%) + feedback exists -- Manual control: `rollback` command for immediate removal -- Audit trail: All decisions logged to `decisions.jsonl` - -**Files:** `shadow/mod.rs`, `shadow/types.rs`, `shadow/store.rs`, `shadow/registry.rs`, `shadow/executor.rs`, `shadow/feedback.rs`, `shadow/graduation.rs`, `handlers/shadow.rs`, `config/types/shadow.rs` - -**Configuration:** -```toml -[shadow] -enabled = true # Shadow mode on by default -min_scans = 100 # Scans before graduation eligible -max_fp_rate = 0.05 # Maximum FP rate for graduation -rollback_threshold = 0.15 # FP rate that triggers rollback -retention_days = 30 # Days to retain shadow data -``` - -**CLI Usage:** -```bash -# View shadow test status -aphoria extractors shadow-status [-v] - -# Provide TP/FP feedback on matches -aphoria extractors feedback [--limit 10] - -# Graduate shadow test to production -aphoria extractors graduate [--force] - -# Rollback a shadow test -aphoria extractors rollback --reason "too many FPs" -``` - -**Tests:** 44 tests covering types, store, registry, executor, feedback, graduation, and auto-rollback. - -### 9.3 Auto-Rollback ✅ - -| Task | Description | Status | -|------|-------------|--------| -| `auto_rollback_enabled` config | Toggle to enable/disable auto-rollback (default: true) | ✅ | -| Feedback-time check | Auto-rollback triggered immediately after FP feedback | ✅ | -| `FeedbackWithRollback` return | `record_feedback()` returns rollback info | ✅ | -| `AutoRollbackResult` | Track checked count, rolled back names, errors | ✅ | -| CLI command | `aphoria extractors auto-check` for manual batch checking | ✅ | -| Audit trail | Decision logged as `ShadowDecisionKind::AutoRollback` | ✅ | -| YAML deletion | Extractor file deleted from learned/ on rollback | ✅ | - -**Safety Features:** -- Toggle: `auto_rollback_enabled` can disable feature for testing or manual-only workflows -- Threshold configurable: `rollback_threshold` in config (default: 15%) -- Minimum reviews: Requires 10+ reviewed matches before auto-rollback triggers -- Audit trail: All auto-rollback decisions logged to `decisions.jsonl` -- CLI fallback: `auto-check` command for manual verification - -**Files:** `shadow/feedback.rs`, `shadow/graduation.rs`, `config/types/shadow.rs`, `handlers/shadow.rs`, `cli.rs` - -**Configuration:** -```toml -[shadow] -enabled = true -auto_rollback_enabled = true # NEW: Enable automatic rollback (default: true) -rollback_threshold = 0.15 # FP rate that triggers auto-rollback -``` - -**CLI Usage:** -```bash -# Automatic: Rollback happens immediately when feedback pushes FP rate over threshold -aphoria extractors feedback --limit 10 -# If FP rate exceeds 15%, you'll see: -# ⚠️ AUTO-ROLLBACK TRIGGERED: - -# Manual batch check: Scan all active tests and rollback any over threshold -aphoria extractors auto-check -# Output: "⚠️ Auto-rolled back 1 of 5 shadow test(s): ..." -``` - -**Tests:** 3 new tests covering auto-rollback triggering, disabled toggle, and threshold boundary. - -### 9.4 Cross-Project Learning ✅ - -| Task | Description | Status | -|------|-------------|--------| -| Hosted pattern sync | Patterns from all projects aggregate on server | ✅ | -| Global promotion | Promote patterns seen across many orgs | ✅ | -| Privacy preservation | Only normalized patterns shared, no code | ✅ | -| Opt-in distribution | Orgs can opt-in to receive community extractors | ✅ | - -``` -Org A: Pattern seen in 3 projects → shared to hosted -Org B: Same pattern in 5 projects → shared to hosted -Org C: Same pattern in 4 projects → shared to hosted - ↓ -Hosted aggregates: 12 projects total - ↓ -Promotes to community extractor - ↓ -All orgs receive new extractor (if opted in) -``` - -**Implementation:** -- `CrossProjectConfig` with opt-in flags (`contribute_patterns`, `receive_community`) -- `PatternSyncer` for uploading anonymized patterns to hosted server -- `CommunityExtractorLoader` for pulling community extractors as YAML files -- BLAKE3 hashing for pattern deduplication and org anonymization -- Privacy guarantees: `normalized_pattern` shared, but NOT `example_code` or `project_hashes` -- CLI commands: `aphoria patterns sync`, `aphoria patterns status`, `aphoria patterns pull-community` - -**Files:** `config/types/cross_project.rs`, `community/pattern_syncer.rs`, `community/extractor_loader.rs`, `handlers/patterns.rs` - -**Tests:** 7 new tests covering pattern hashing, subject exclusion, anonymization, and extractor loading. - -### 9.5 Extractor Versioning ✅ - -| Task | Description | Status | -|------|-------------|--------| -| Version tracking | Track which version caught which issues | ✅ `ExtractorVersion` + `VersionStore` | -| Changelog | Record changes between versions | ✅ `ExtractorChangelog` + `ChangelogEntry` | -| Rollback support | Revert to previous version | ✅ `aphoria extractors rollback-version` | -| A/B metrics | Compare versions side-by-side | ✅ `aphoria extractors compare` + `compute_metrics_delta()` | -| CLI commands | versions, compare, rollback-version | ✅ Full CLI implementation | -| Tests | Unit tests for all components | ✅ 15+ version/changelog tests | - -**Files:** -- `promotion/version.rs` - Core types (`ExtractorVersion`, `ChangelogEntry`, `MetricsDelta`, `ExtractorChangelog`, `VersionStore`) -- `promotion/writer.rs` - Versioned YAML output (`write_versioned()`) -- `promotion/types.rs` - Version field in `PromotionMetadata` -- `handlers/extractors.rs` - CLI handlers (`handle_versions`, `handle_compare`, `handle_rollback_version`) -- `cli.rs` - CLI commands (`Versions`, `Compare`, `RollbackVersion`) - -**CLI Usage:** -```bash -# List versions -aphoria extractors versions learned_tls_min_version -# Version History: learned_tls_min_version -# Version Date Changes -# ------------------------------------------------------------ -# 2 2026-03-15 Added support for YAML configs -# 1 2026-02-01 Initial promotion from learned pattern - -# Compare versions -aphoria extractors compare learned_tls_min_version -a 1 -b 2 -# Comparison: learned_tls_min_version v1 vs v2 -# Matches +15% -# False Positives -3% - -# Rollback -aphoria extractors rollback-version learned_tls_min_version --version 1 --reason "v2 edge case bug" -# Rolled back learned_tls_min_version to v1 -``` - -**YAML Output:** -```yaml -# Generated from learned pattern. Review before editing. -# Pattern ID: a1b2c3d4-e5f6-7890-abcd-ef1234567890 -# Version: 2 (previous: 1) -# Promoted: 2026-03-15 14:30:00 UTC - -name: learned_tls_min_version -description: TLS minimum version set to deprecated value -version: 2 -previous_version: 1 -languages: - - rust - - go -pattern: '(?i)tls_?min_?(version)?\s*[:=]\s*["\']?(?P1\.[01])["\']?' -claim: - subject: tls/min_version - predicate: version - value_from_match: true -confidence: 0.97 -metadata: - source: learned - pattern_id: a1b2c3d4-e5f6-7890-abcd-ef1234567890 - version: 2 -changelog: - - version: 2 - date: 2026-03-15 - changes: "Added support for YAML configs" - metrics: - matches: "+15%" - false_positives: "-3%" - - version: 1 - date: 2026-02-01 - changes: "Initial promotion from learned pattern" -``` - -### 9.6 Configuration ⬜ - -```toml -# aphoria.toml -[autonomous] -enabled = false # Opt-in to autonomous mode -min_confidence = 0.95 # Higher threshold for auto -min_projects = 10 # More evidence required -shadow_scans = 100 # Scans before promotion -max_fp_rate = 0.05 # Auto-rollback threshold - -[autonomous.distribution] -receive_community = true # Receive community extractors -contribute_patterns = true # Share patterns to community -``` - -**Files:** `autonomous/mod.rs`, `autonomous/shadow.rs`, `autonomous/rollback.rs`, `autonomous/distribution.rs` - ---- - -## Milestone Summary - -| Phase | Deliverable | Depends On | Status | -|-------|-------------|------------|--------| -| 0 | ConceptPath in StemeDB | concept-hierarchy spec | ✅ | -| 2 | Aphoria CLI (scan, report, ack) | Phase 0 | ✅ | -| 2A | Concept matching (leaf, alias, auto-alias) | Phase 2 | ✅ | -| 1 | Authoritative corpus expansion | Phase 0 | ✅ | -| 3 | Claude Code skill + hooks | Phase 2A | ✅ | -| 4.5 | Ephemeral scan mode (40x faster) | Phase 2 | ✅ | -| 5 | Research agent loop | Phase 3 | ✅ | -| 6 | Federated Policy & Trust Packs | Phase 4.5 | ✅ | -| **6.5** | **Trust Pack Extensions (Predicate Aliases, Key Rotation)** | Phase 6 | ✅ | -| 4A | Observational claims (Tier 4 write-back) | Phase 6 | ✅ | -| 4B | Self-conflict detection (drift) | Phase 4A | ✅ | -| 4C | Diff-only scanning (--staged) | Phase 4B | ✅ | -| 4E | Hosted mode (team aggregation) | Phase 4C | ✅ | -| 4D | Enhanced ack (--reason, policy updates) | Phase 4C | ✅ | -| 5.6 | Community Corpus Contributions | Phase 4E | ✅ | -| 7 | Declarative Extractors | Phase 6 | ✅ | -| **7.5** | **LLM-in-the-Loop Extraction (Gemini)** | Phase 7 | ✅ | -| **7.6** | **Pattern Learning Store** | Phase 7.5 | ✅ | -| **7.7** | **Pattern → Extractor Promotion** | Phase 7.6 | ✅ | -| **7.8** | **LLM Prompt Evaluation** | Phase 7.5 | ✅ | -| 8 | Enterprise Extractors (8.1-8.11) | Phase 7.5 | ✅ | -| **8.2** | **Framework-Specific Extractors (10 frameworks)** | Phase 8 | ✅ | -| **9.1** | **Autonomous Promotion** | Phase 8 | ✅ | -| **9.2** | **Shadow Mode Testing** | Phase 9.1 | ✅ | -| **9.3** | **Auto-Rollback** | Phase 9.2 | ✅ | -| **9.4** | **Cross-Project Learning** | Phase 9.1 | ✅ | -| **9.5** | **Extractor Versioning** | Phase 9.4 | ✅ | - -**Current state:** -- Phases 0-3, 4.5, 4A-4E, 5, 5.6, 6, 7, 7.5, 7.6, 7.7, 7.8, 8, 9.1, 9.2, 9.3, 9.4, 9.5 complete (clippy clean) +- 42 built-in extractors + declarative custom extractors - Full corpus: RFC, OWASP, Vendor sources -- **36 extractors** including: - - Security: weak_crypto, command_injection, sql_injection, high_entropy_secrets, auth_bypass, insecure_cookies, path_traversal, unvalidated_redirects, weak_password, security_headers, insecure_deserialization, ssrf, orm_injection, xxe - - Framework-specific: django, express, flask, fastapi, nestjs, nextjs, spring, laravel, rails, aspnet -- Trust Packs: signed policy bundles with import/export -- Ephemeral mode: 40x faster for CI -- Observation write-back: `--sync` records novel claims as Tier 4 project memory -- **Autonomous promotion**: High-confidence patterns (>0.95, 10+ projects) can skip human review with full audit trail -- **Shadow mode testing**: Auto-promoted extractors run in shadow mode to measure FP rate before graduation -- **Auto-rollback**: Shadow extractors exceeding FP threshold (15%) are automatically rolled back -- Drift detection: Detects changes from prior observations -- Staged scanning: `--staged` flag for fast pre-commit hooks -- Hosted mode: Team aggregation via central StemeDB server -- Enhanced ack: `--reason` flag, `aphoria update` for policy changes -- Community Corpus: Opt-in anonymous pattern sharing with privacy-preserving anonymization -- Declarative Extractors: TOML-defined custom extractors without Rust code -- LLM Extraction: Gemini-powered semantic claim extraction for high-value files -- Pattern Learning: LLM-extracted claims recorded for promotion to declarative extractors -- Pattern Promotion: CLI workflow to promote learned patterns to declarative extractors with Gemini regex generation and validation -- **LLM Prompt Evaluation**: Golden fixtures with precision/recall metrics, baseline comparison, and regression detection for prompt engineering -- **Cross-Project Learning**: Privacy-preserving pattern sync to hosted server, community extractor pull, BLAKE3-based deduplication, opt-in sharing with `CrossProjectConfig` -- **Extractor Versioning**: Version tracking with changelogs, safe rollback to previous versions, A/B metrics comparison between versions via `VersionStore` - -**Phase 9 Complete!** Autonomous Generation pipeline is fully self-improving. - -### The Self-Learning Vision - -``` -Phase 7: Declarative Extractors (foundation) ✅ COMPLETE - ↓ -Phase 7.5: LLM-in-the-Loop (Gemini semantic extraction) ✅ COMPLETE - ↓ -Phase 7.6: Pattern Learning (remember what LLM finds) ✅ COMPLETE - ↓ -Phase 7.7: Pattern Promotion (patterns → extractors) ✅ COMPLETE - ↓ -Phase 7.8: LLM Prompt Evaluation (measure & improve) ✅ COMPLETE - ↓ -Phase 8: Enterprise Extractors (36 total) ✅ COMPLETE - ├── 8.1: High-entropy secrets ✅ - ├── 8.2: Framework extractors (10 frameworks) ✅ - ├── 8.3: Config deep parsing ✅ - ├── 8.4-8.11: Security patterns ✅ - ↓ -Phase 9: Autonomous Generation (fully self-improving) ✅ COMPLETE - ├── 9.1: Autonomous Promotion ✅ COMPLETE - ├── 9.2: Shadow Mode Testing ✅ COMPLETE - ├── 9.3: Auto-Rollback ✅ COMPLETE - ├── 9.4: Cross-Project Learning ✅ COMPLETE - └── 9.5: Extractor Versioning ✅ COMPLETE -``` - -**The endgame:** Every PR teaches Aphoria. After a month, it knows your security patterns better than your team does. - -### Bidirectional Knowledge Sync (Complete) - -The pre-commit hook is now a bidirectional knowledge sync: -1. **4A** ✅: Record code claims as Tier 4 observations (project memory) -2. **4B** ✅: Detect drift from prior observations (self-conflict) -3. **4C** ✅: Fast diff-only scanning for pre-commit hooks (`--staged`) -4. **4E** ✅: Team aggregation via hosted StemeDB server -5. **4D** ✅: Enhanced ack with rationale and policy updates - -This transforms Aphoria from a linter into a learning system that builds institutional memory per-project and collective intelligence across teams via hosted mode. +- Ephemeral mode (~0.25s), persistent mode with drift detection +- Observation/claim distinction (A1–A5 complete, see main `roadmap.md`) +- `aphoria verify run|map` for claim verification +- 10 claims dogfooded in `.aphoria/claims.toml` +- Self-improving: LLM extraction → pattern learning → autonomous promotion → shadow testing → auto-rollback --- -## Phase 8: Enterprise Extractor Improvements ✅ +## Phase 10: UX & Enterprise Polish (Partial) -> **Goal:** Transform extractors from "toy examples" to enterprise-grade detection that catches real violations in production codebases. - -### Current State Audit - -| Extractor | Languages | Strengths | Weaknesses | -|-----------|-----------|-----------|------------| -| `tls_verify` | 8 | Multi-lang, configs | Misses custom wrappers | -| `tls_version` | 8 | API patterns | Misses semantic (const = "1.0") | -| `hardcoded_secrets` | 8 | Placeholders, test files | No entropy detection | -| `weak_crypto` | 5 | MD5/SHA1/DES/RC4 | SHA1 false positives, misses bcrypt cost | -| `sql_injection` | 5 | Interpolation patterns | Misses ORM unsafe methods | -| `jwt_config` | 8 | alg:none, skip sig | Library-specific gaps | -| `cors_config` | 8 | Wildcard + credentials | Misses dynamic origin reflection | -| `rate_limit` | 8 | Basic patterns | Limited depth | -| `timeout_config` | 8 | Basic patterns | Limited depth | -| `command_injection` | 5 | exec/system calls | Indirect injection | -| `dep_versions` | 3 | Version parsing | No CVE correlation | - -**Enterprise Reality:** Current extractors catch ~30% of real-world security misconfigurations. Config files are highest value (patterns consistent), code is lowest (semantic understanding required). - ---- - -### 8.1 High-Entropy Secret Detection ✅ - -**Impact:** HIGH | **Effort:** MEDIUM | **Status:** Complete - -| Task | Status | -|------|--------| -| `HighEntropySecretsExtractor` | ✅ `extractors/high_entropy_secrets.rs` | -| Shannon entropy algorithm | ✅ `shannon_entropy()` with 4.5 threshold | -| Charset variety check | ✅ 0.4 minimum variety ratio | -| Known secret prefixes | ✅ AWS (AKIA), Stripe (sk_live_, sk_test_), GitHub (ghp_, gho_), GitLab (glpat-), Slack (xox[baprs]-) | -| High-entropy context patterns | ✅ api_key, secret, token, credential, auth_key contexts | -| False positive exclusions | ✅ UUIDs, git SHAs (40-char hex), file hashes (64-char hex) | -| Test file confidence reduction | ✅ 0.6 confidence for test files | -| Tests | ✅ 10+ tests covering all patterns | - -**Configuration:** -```toml -# aphoria.toml -[extractors.entropy] -min_entropy = 4.5 # Shannon entropy threshold -min_charset_variety = 0.4 # Unique chars / length ratio -min_length = 20 # Minimum string length -max_length = 200 # Maximum string length -``` - -**Languages:** Rust, Go, Python, JavaScript, TypeScript, YAML, TOML, JSON, Dotenv - ---- - -### 8.2 Framework-Specific Extractors ✅ - -**Impact:** HIGH | **Effort:** HIGH | **Status:** Complete - -**Research Document:** [`docs/architecture/framework-security-extractors.md`](./docs/architecture/framework-security-extractors.md) - -All 10 framework-specific extractors implemented and tested: - -| Framework | Extractor | Languages | Tests | -|-----------|-----------|-----------|-------| -| Spring Boot | `spring_security` | Java, YAML, Properties | 7 | -| Django | `django_security` | Python | 7 | -| Express.js | `express_security` | JavaScript, TypeScript | 5 | -| Rails | `rails_security` | Ruby, YAML | 6 | -| ASP.NET Core | `aspnet_security` | C# (via regex), JSON | 6 | -| Laravel | `laravel_security` | PHP (via regex) | 5 | -| FastAPI | `fastapi_security` | Python | 5 | -| Next.js | `nextjs_security` | JavaScript, TypeScript | 5 | -| Flask | `flask_security` | Python | 6 | -| NestJS | `nestjs_security` | TypeScript | 5 | - -**Total:** 10 extractors, 57+ tests, 100+ patterns - -**Files:** `extractors/{django,express,flask,fastapi,nestjs,nextjs,spring,laravel,rails,aspnet}_security.rs` - -#### 8.2.1 Spring Boot Security -```yaml -# application.yml misconfigs -security: - basic: - enabled: false # Auth disabled - csrf: - enabled: false # CSRF disabled - headers: - frame-options: DISABLE # Clickjacking -``` - -```java -// Java code patterns -@EnableWebSecurity -public class Config extends WebSecurityConfigurerAdapter { - http.csrf().disable(); // CSRF disabled - http.authorizeRequests().antMatchers("/**").permitAll(); // Auth bypass -} -``` - -#### 8.2.2 Django Security -```python -# settings.py misconfigs -DEBUG = True # Debug in production -ALLOWED_HOSTS = ['*'] # All hosts -CSRF_COOKIE_SECURE = False # Insecure cookies -SESSION_COOKIE_SECURE = False -``` - -#### 8.2.3 Express.js Security -```javascript -// Missing security middleware -app.use(helmet()); // helmet() should exist -app.use(cors({ origin: '*', credentials: true })); // CORS + creds -app.disable('x-powered-by'); // Should be disabled -``` - -#### 8.2.4 Rails Security -```ruby -# config/environments/production.rb -config.force_ssl = false # Should be true -config.action_dispatch.cookies_same_site_protection = :none -``` - ---- - -### 8.3 Config File Deep Parsing ✅ - -**Impact:** HIGH | **Effort:** MEDIUM | **Status:** Complete - -| Task | Status | -|------|--------| -| `ConfigValue` enum | ✅ `extractors/config_parser.rs` | -| YAML/JSON/TOML parsers | ✅ Using `serde_yaml`, `serde_json`, `toml` | -| Tree walker with path tracking | ✅ `walk_config()` with dot-path | -| `ConfigSecurityExtractor` | ✅ `extractors/config_security.rs` | -| Security rules (11 rules) | ✅ TLS, CSRF, debug, password, cookies, CORS, rate limit | -| Dev file exclusion | ✅ Skip debug warnings in dev/test configs | -| Tests | ✅ 26 tests for parsing + security rules | - -**Patterns now caught (nested to any depth):** -- `*.tls.verify: false` — TLS verification disabled -- `*.insecure_skip_verify: true` — Skip verification enabled -- `*.security.enabled: false` — Security disabled -- `*.csrf.enabled: false` — CSRF protection disabled -- `debug: true` — Debug mode (only in production files) -- `*.password.min_length < 8` — Weak password policy -- `*.cookie.secure: false` — Cookie secure flag disabled -- `*.cookie.httpOnly: false` — Cookie httpOnly disabled -- `*.cors.allow_origin: "*"` — CORS allows all origins -- `*.rate_limit.enabled: false` — Rate limiting disabled - -**Languages:** YAML, JSON, TOML - ---- - -### 8.4 Semantic TLS Version Detection ✅ - -**Impact:** MEDIUM | **Effort:** MEDIUM | **Status:** Complete - -| Task | Status | -|------|--------| -| Add `Language::Terraform` variant | ✅ `types/language.rs` | -| Semantic pattern (cross-language) | ✅ Catches `TLS_MIN_VERSION = "1.0"` with type annotations | -| Environment variable pattern | ✅ `.env` files with `TLS_MIN_VERSION=1.0` | -| Terraform HCL pattern | ✅ `min_tls_version = "TLS1_0"` | -| Kubernetes camelCase pattern | ✅ `minTLSVersion: VersionTLS10` | -| False positive prevention | ✅ TLS 1.2/1.3 not flagged | -| Tests | ✅ 16 new tests (27 total for TLS extractor) | - -**Patterns now caught:** -- `const TLS_MIN_VERSION: &str = "1.0";` (Rust with type annotation) -- `let sslVersion = "TLSv1";` (JavaScript camelCase) -- `TLS_MINIMUM_VERSION = "1.1"` (Python assignment) -- `TLS_MIN_VERSION=1.0` (dotenv) -- `export SSL_VERSION=TLSv1` (shell export) -- `min_tls_version = "TLS1_0"` (Terraform) -- `minTLSVersion: VersionTLS10` (Kubernetes YAML) - -**Languages:** Rust, Go, Python, TypeScript, JavaScript, Yaml, Toml, Json, Terraform, Dotenv - ---- - -### 8.5 ORM SQL Injection Detection ✅ - -**Impact:** MEDIUM | **Effort:** MEDIUM | **Status:** Complete - -| Task | Status | -|------|--------| -| `OrmInjectionExtractor` | ✅ `extractors/orm_injection.rs` | -| Django .raw() with interpolation | ✅ `f"SELECT..."`, `.format()` patterns | -| Django .extra() with interpolation | ✅ `where=["...{}...".format()]` | -| SQLAlchemy text() with interpolation | ✅ `text(f"SELECT...")` | -| SQLAlchemy execute() with f-string | ✅ `execute(f"...")` | -| Sequelize raw query | ✅ `` sequelize.query(`...${...}`) `` | -| TypeORM where() | ✅ `` .where(`...${...}`) `` | -| GORM Raw() with Sprintf | ✅ `.Raw(fmt.Sprintf(...))` | -| Prisma $queryRawUnsafe | ✅ `` $queryRawUnsafe(`...${...}`) `` | -| Tests | ✅ 8+ tests covering all patterns | - -**Languages:** Python, JavaScript, TypeScript, Go - -Current `sql_injection` catches raw string interpolation but misses ORM escape hatches: - -```python -# SQLAlchemy -db.execute(text(f"SELECT * FROM users WHERE id = {user_id}")) -User.query.filter(text("name = '" + name + "'")) - -# Django -User.objects.raw("SELECT * FROM users WHERE id = %s" % user_id) -User.objects.extra(where=["name = '%s'" % name]) -``` - -```javascript -// Sequelize -sequelize.query(`SELECT * FROM users WHERE id = ${userId}`); -Model.findAll({ where: sequelize.literal(`id = ${id}`) }); - -// Prisma -prisma.$queryRawUnsafe(`SELECT * FROM users WHERE id = ${id}`); -``` - -```ruby -# ActiveRecord -User.where("name = '#{name}'") -User.find_by_sql("SELECT * FROM users WHERE id = #{id}") -``` - ---- - -### 8.6 Authentication Bypass Patterns ✅ - -**Impact:** HIGH | **Effort:** MEDIUM | **Status:** Complete - -| Task | Status | -|------|--------| -| `AuthBypassExtractor` | ✅ `extractors/auth_bypass.rs` | -| Hardcoded admin credentials | ✅ `username == "admin" && password == "..."` patterns | -| Debug auth headers | ✅ X-Debug-Auth, X-Internal-Auth, X-Admin-Auth | -| Skip auth env vars | ✅ SKIP_AUTH, BYPASS_AUTH, NO_AUTH, DEBUG_AUTH | -| Backdoor patterns | ✅ `if username == "backdoor"`, `if user == "test"` | -| Default credentials | ✅ admin/admin, root/root, test/test, guest/guest | -| Test file confidence reduction | ✅ 0.5 confidence for test files | -| Tests | ✅ 11+ tests covering all patterns | - -**Detected patterns:** -```python -# Hardcoded credentials -if username == "admin" and password == "admin": - -# Debug auth headers -if request.headers.get("X-Debug-Auth") == "secret": - -# Skip auth env vars -if os.environ.get("SKIP_AUTH") == "true": -``` - -**Languages:** Python, JavaScript, TypeScript, Go, Rust - ---- - -### 8.7 Insecure Deserialization ✅ - -**Impact:** HIGH | **Effort:** MEDIUM | **Status:** Complete - -| Task | Status | -|------|--------| -| `InsecureDeserializationExtractor` | ✅ `extractors/insecure_deserialization.rs` | -| Python pickle (critical) | ✅ `pickle.load()`, `pickle.loads()`, `Unpickler()` | -| Python yaml.load without SafeLoader | ✅ Detects missing SafeLoader | -| Python marshal | ✅ `marshal.load()`, `marshal.loads()` | -| Python eval/exec with user input | ✅ `eval(request...)`, `exec(user...)` | -| JavaScript node-serialize | ✅ `require('node-serialize')`, `.unserialize()` | -| Go gob decoder | ✅ `gob.NewDecoder()`, `gob.Decode()` | -| Java ObjectInputStream (polyglot) | ✅ `ObjectInputStream`, `readObject()` | -| Tests | ✅ 10+ tests covering all patterns | - -**Languages:** Python, JavaScript, TypeScript, Go - -Unsafe deserialization of untrusted data: - -```python -# Python -pickle.loads(user_input) -yaml.load(user_input) # Without Loader=SafeLoader -eval(user_input) -exec(user_input) -``` - -```java -// Java -ObjectInputStream ois = new ObjectInputStream(userInput); -ois.readObject(); // Dangerous! -``` - -```ruby -# Ruby -Marshal.load(user_input) -YAML.load(user_input) # Should use safe_load -``` - ---- - -### 8.8 Path Traversal Patterns ✅ - -**Impact:** MEDIUM | **Effort:** LOW | **Status:** Complete - -| Task | Status | -|------|--------| -| `PathTraversalExtractor` | ✅ `extractors/path_traversal.rs` | -| Python open/read/write with user input | ✅ `open(request...)`, `read(params...)` | -| Python os.path.join with user input | ✅ `os.path.join(base, request...)` | -| JavaScript fs operations | ✅ `fs.readFile(req...)`, `fs.writeFile(params...)` | -| JavaScript path.join/resolve | ✅ `path.join(base, req.query...)` | -| JavaScript res.sendFile | ✅ `res.sendFile(req.params...)` | -| Go filepath operations | ✅ `filepath.Join(base, r...)`, `os.Open(req...)` | -| Rust path operations | ✅ `Path::new(request...)`, `std::fs::read(user...)` | -| Traversal literals | ✅ `../`, `%2e%2e` URL-encoded patterns | -| Tests | ✅ 8+ tests covering all patterns | - -**Languages:** Python, JavaScript, TypeScript, Go, Rust - -File operations with user input: - -```python -# Python -open(user_input) -os.path.join(base, user_input) # Doesn't prevent ../ -shutil.copy(user_input, dest) -``` - -```javascript -// JavaScript -fs.readFile(userInput) -path.join(base, userInput) // Doesn't prevent ../ -res.sendFile(userInput) -``` - ---- - -### 8.9 SSRF Patterns ✅ - -**Impact:** HIGH | **Effort:** MEDIUM | **Status:** Complete - -| Task | Status | -|------|--------| -| `SsrfExtractor` | ✅ `extractors/ssrf.rs` | -| Python requests library | ✅ `requests.get(url)`, `requests.post(target)` | -| Python urllib | ✅ `urllib.request.urlopen(url)` | -| Python httpx | ✅ `httpx.get(url)`, `AsyncClient` | -| JavaScript fetch | ✅ `fetch(url)`, `fetch(req.query...)` | -| JavaScript axios | ✅ `axios.get(url)`, `axios.post(target)` | -| JavaScript got | ✅ `got(url)` | -| Go http.Get/Post | ✅ `http.Get(url)`, `http.NewRequest(...)` | -| Rust reqwest | ✅ `reqwest::get(url)`, `reqwest::Client` | -| URL sink patterns | ✅ `proxy_url`, `webhook_url`, `callback_url` from request | -| Tests | ✅ 10+ tests covering all patterns | - -**Languages:** Python, JavaScript, TypeScript, Go, Rust - -HTTP requests with user-controlled URLs: - -```python -# Python -requests.get(user_url) -urllib.request.urlopen(user_input) -``` - -```javascript -// JavaScript -fetch(userUrl) -axios.get(userUrl) -http.get(userUrl) -``` - -```go -// Go -http.Get(userURL) -client.Do(req) // Where req.URL is user-controlled -``` - ---- - -### 8.10 Missing Security Headers ✅ - -**Impact:** MEDIUM | **Effort:** LOW | **Status:** Complete - -| Task | Status | -|------|--------| -| `SecurityHeadersExtractor` | ✅ `extractors/security_headers.rs` | -| X-Frame-Options disabled | ✅ `X-Frame-Options: none`, `ALLOWALL` | -| X-Content-Type-Options disabled | ✅ `X-Content-Type-Options: disabled` | -| X-XSS-Protection disabled | ✅ `X-XSS-Protection: false` | -| Django SECURE_* settings | ✅ `SECURE_BROWSER_XSS_FILTER = False`, etc. | -| YAML headers disabled | ✅ `x_frame_options: false`, `hsts: no` | -| CSP disabled or unsafe | ✅ `unsafe-inline`, `unsafe-eval` directives | -| HSTS disabled | ✅ `Strict-Transport-Security: none`, `hsts_seconds = 0` | -| Tests | ✅ 7+ tests covering all patterns | - -**Languages:** Python, JavaScript, TypeScript, Go, YAML, JSON, TOML - -Detect when security headers are explicitly removed or not set: - -```python -# Response headers missing -response.headers.pop('X-Content-Type-Options') -response.headers['X-Frame-Options'] = 'ALLOWALL' -``` - -```javascript -// Express without helmet -app.use(cors()); // CORS without other security -// No app.use(helmet()) found -``` - ---- - -### 8.11 Insecure Cookie Flags ✅ - -**Impact:** MEDIUM | **Effort:** LOW | **Status:** Complete - -| Task | Status | -|------|--------| -| `InsecureCookiesExtractor` | ✅ `extractors/insecure_cookies.rs` | -| Missing Secure flag | ✅ `secure=False`, `secure: false` | -| Missing HttpOnly flag | ✅ `httponly=False`, `httpOnly: false` | -| SameSite=None without Secure | ✅ `sameSite: 'none'`, `SameSite=None` | -| Django settings | ✅ SESSION_COOKIE_SECURE, CSRF_COOKIE_SECURE = False | -| Go cookie patterns | ✅ `Secure: false`, `HttpOnly: false` | -| Rust actix-web patterns | ✅ `.secure(false)`, `.http_only(false)` | -| Test file confidence reduction | ✅ 0.5 confidence for test files | -| Tests | ✅ 8+ tests covering all patterns | - -**Detected patterns:** -```python -# Python/Flask/Django -response.set_cookie('session', value, secure=False) -SESSION_COOKIE_SECURE = False -``` - -```javascript -// JavaScript/Express -res.cookie('session', value, { httpOnly: false }); -res.cookie('auth', value, { sameSite: 'none' }); -``` - -**Languages:** Python, JavaScript, TypeScript, Go, Rust, Ruby, YAML - ---- - -### 8.12 Unvalidated Redirects ✅ - -**Impact:** MEDIUM | **Effort:** LOW | **Status:** Complete - -| Task | Status | -|------|--------| -| `UnvalidatedRedirectsExtractor` | ✅ `extractors/unvalidated_redirects.rs` | -| Python redirect with user input | ✅ `redirect(request.GET['next'])`, `HttpResponseRedirect(url)` | -| Python Flask redirect | ✅ `redirect(request.args.get(...))` | -| JavaScript res.redirect | ✅ `res.redirect(req.query.next)` | -| JavaScript window.location | ✅ `window.location = url`, `location.href = params...` | -| Go http.Redirect | ✅ `http.Redirect(w, r, r.Query...)` | -| URL parameter patterns | ✅ `redirect_url`, `return_url`, `next`, `goto` from request | -| Tests | ✅ 7+ tests covering all patterns | - -**Languages:** Python, JavaScript, TypeScript, Go - -Open redirect vulnerabilities: - -```python -# Python -return redirect(request.args.get('next')) -return redirect(request.GET['url']) -``` - -```javascript -// JavaScript -res.redirect(req.query.redirect); -window.location = userInput; -window.location.href = params.url; -``` - ---- - -### 8.13 XXE (XML External Entity) ✅ - -**Impact:** HIGH | **Effort:** MEDIUM | **Status:** Complete - -| Task | Status | -|------|--------| -| `XxeExtractor` | ✅ `extractors/xxe.rs` | -| Python lxml/etree | ✅ `etree.parse()`, `lxml.fromstring()` | -| Python xml.etree.ElementTree | ✅ `ET.parse()`, `ET.fromstring()` | -| Python xml.dom.minidom | ✅ `minidom.parse()`, `minidom.parseString()` | -| Python xml.sax | ✅ `xml.sax.parse()`, `xml.sax.make_parser()` | -| JavaScript xml2js | ✅ `xml2js.parseString()`, `xml2js.Parser()` | -| JavaScript libxmljs | ✅ `libxmljs.parseXml()` | -| Go encoding/xml | ✅ `xml.Unmarshal()`, `xml.NewDecoder()` | -| Java patterns (polyglot) | ✅ `DocumentBuilderFactory`, `SAXParser`, `XMLReader` | -| DTD entity declarations | ✅ ``, `` | -| defusedxml detection | ✅ Lower confidence when defusedxml is imported | -| Tests | ✅ 9+ tests covering all patterns | - -**Languages:** Python, JavaScript, TypeScript, Go - -Unsafe XML parsing: - -```python -# Python -etree.parse(user_input) # Without disabling entities -xml.etree.ElementTree.parse(user_input) -``` - -```java -// Java -DocumentBuilderFactory.newInstance() // Without setFeature to disable XXE -SAXParserFactory.newInstance() // Without secure processing -``` - ---- - -### 8.14 Weak Password Requirements ✅ - -**Impact:** MEDIUM | **Effort:** LOW | **Status:** Complete - -| Task | Status | -|------|--------| -| `WeakPasswordExtractor` | ✅ `extractors/weak_password.rs` | -| Minimum length < 8 | ✅ `password_min_length: 6`, `minLength: 4` | -| Bcrypt cost < 10 | ✅ `bcrypt_cost = 8`, `hash_rounds = 5` | -| Simple length checks | ✅ `len(password) >= 6` in code | -| Complexity disabled | ✅ `require_special_chars: false`, `require_uppercase = false` | -| Number requirement disabled | ✅ `require_numbers: no`, `require_digit = 0` | -| Tests | ✅ 7+ tests covering all patterns | - -**Languages:** Python, JavaScript, TypeScript, Go, Rust, YAML, JSON, TOML - -Password validation that's too weak: - -```python -# Python -if len(password) >= 4: # Too short -if len(password) >= 6: # Still weak -MIN_PASSWORD_LENGTH = 6 # Config too low -``` - -```javascript -// JavaScript -if (password.length >= 4) -const MIN_LENGTH = 6; -/^.{4,}$/ // Regex allows 4+ chars -``` - ---- - -### 8.15 LLM-Assisted Extraction (Future) ⬜ - -**Impact:** VERY HIGH | **Effort:** VERY HIGH - -Use Claude to understand code semantically: - -```rust -// Pseudo-implementation -async fn extract_with_llm(code: &str, file: &str) -> Vec { - let prompt = format!( - "Analyze this code for security issues. Return JSON with:\n\ - - concept_path: security concept (e.g., 'tls/cert_verification')\n\ - - predicate: what aspect (e.g., 'enabled')\n\ - - value: the value found\n\ - - confidence: 0.0-1.0\n\ - - description: why this is an issue\n\n\ - Code:\n```\n{}\n```", - code - ); - - let response = claude_api.message(&prompt).await?; - parse_claims_from_llm_response(&response) -} -``` - -**When to use:** -- High-value files (auth, crypto, config) -- After regex extractors find nothing -- For code review mode (not CI) - -**Considerations:** -- Cost per scan -- Latency -- Rate limits -- Privacy (code leaves machine) - ---- - -### Implementation Priority - -| Phase | Extractors | Impact | Effort | Enterprise Value | Status | -|-------|------------|--------|--------|------------------|--------| -| **8.1** | High-entropy secrets | HIGH | MEDIUM | Catches real leaked secrets | ✅ | -| **8.2** | Framework-specific | HIGH | HIGH | Spring/Django/Express coverage | ✅ | -| **8.3** | Config deep parsing | HIGH | MEDIUM | Nested YAML/JSON understanding | ✅ | -| **8.4** | Semantic TLS | MEDIUM | MEDIUM | Catches const TLS_MIN = "1.0" | ✅ | -| **8.5** | ORM SQL injection | MEDIUM | MEDIUM | SQLAlchemy, Django, Sequelize | ✅ | -| **8.6** | Auth bypass | HIGH | MEDIUM | Backdoors, hardcoded creds | ✅ | -| **8.7** | Deserialization | HIGH | MEDIUM | pickle, Marshal, eval | ✅ | -| **8.8** | Path traversal | MEDIUM | LOW | ../../../etc/passwd | ✅ | -| **8.9** | SSRF | HIGH | MEDIUM | Internal network access | ✅ | -| **8.10** | Security headers | MEDIUM | LOW | Missing helmet(), CSP | ✅ | -| **8.11** | Cookie flags | MEDIUM | LOW | httpOnly, secure, sameSite | ✅ | -| **8.12** | Open redirects | MEDIUM | LOW | Phishing via redirect | ✅ | -| **8.13** | XXE | HIGH | MEDIUM | XML entity injection | ✅ | -| **8.14** | Weak passwords | MEDIUM | LOW | MIN_LENGTH = 4 | ✅ | -| **8.15** | LLM extraction | VERY HIGH | VERY HIGH | Semantic understanding | ✅ (Phase 7.5) | - -**Phase 8 Complete (8.1-8.14):** All extractors implemented including 10 framework-specific extractors (Spring, Django, Express, Rails, ASP.NET, Laravel, FastAPI, Next.js, Flask, NestJS). - ---- - -### Success Metrics - -| Metric | Current | Target | How to Measure | -|--------|---------|--------|----------------| -| Detection rate (known vulns) | ~30% | >70% | Run against OWASP benchmark | -| False positive rate | Unknown | <10% | Manual review of 100 findings | -| Config file coverage | Regex only | Full parse | Structure-aware extraction | -| Framework coverage | 0 | 4 major | Spring, Django, Express, Rails | -| Enterprise pilot feedback | N/A | >4/5 | Post-pilot survey | - ---- - -## Phase 10: UX & Enterprise Polish ⬜ - -> **Goal:** Address enterprise buyer feedback from pilot demos. Close gaps between pitch claims and actual functionality. -> **Source:** Skeptical buyer review of `applications/aphoria-pitch/` materials. - -### 10.1 Acknowledgment Expiry ✅ - -**Impact:** HIGH | **Effort:** MEDIUM | **Priority:** P1 - -Add `--expires` flag to `aphoria ack` command for time-limited exceptions. - -| Task | Status | -|------|--------| -| Add `expires_at: Option` to `AcknowledgmentInfo` struct (ISO 8601 format) | ✅ | -| Add `--expires` CLI flag to `Commands::Ack` in `cli.rs` | ✅ | -| Parse durations: `--expires 90d`, `--expires 2026-12-31` (ISO 8601 date only) | ✅ | -| Filter expired acks in `check_conflicts()` | ✅ | -| Show "Ack expired, resurfaces as BLOCK" in output | ✅ | -| Add expiry to JSON export for audit trail | ✅ | -| Tests for expiry parsing and behavior | ✅ | - -**Implementation Notes:** -- Created `src/expiry.rs` module with `parse_expiry()`, `is_expired()`, and `format_expiry()` functions -- Ack payloads stored as JSON with `{reason, expires_at}` for backwards compatibility -- Legacy plain-text acks treated as permanent (no expiry) -- Expired acks preserved for audit trail per patent claim 25 -- Updated all report formatters (table, JSON, markdown) to show expiry info - -**CLI changes (`cli.rs`):** -```rust -Ack { - concept_path: String, - #[arg(short, long)] - reason: String, - /// Optional expiry (e.g., "90d", "2026-12-31") - #[arg(long)] - expires: Option, -}, -``` - -**Usage:** -```bash -# Expire after 90 days -aphoria ack code://go/auth/tls/cert_verification \ - --reason "Integration test environment" \ - --expires 90d - -# Expire on specific date (ISO 8601) -aphoria ack code://go/auth/tls/cert_verification \ - --reason "Legacy migration - ends Q2" \ - --expires 2026-12-31 -``` - -**Output after expiry:** -``` -BLOCK code://go/auth/tls/cert_verification - Your code: TLS certificate verification is disabled (main.go:12) - Note: Previous acknowledgment expired 2026-12-31 - Action: Re-acknowledge or fix the issue -``` - -**Enterprise Value:** "Exceptions don't become permanent." SOC 2 auditors love time-limited exceptions because they force periodic review. - ---- +> 10.1 Acknowledgment Expiry ✅ — archived ### 10.2 Human-Readable Signer Names ⬜ @@ -2609,313 +42,17 @@ Map issuer hex IDs to human-readable team names in output. | Add `contact: Option` to `PackHeader` (Slack channel, email) | ⬜ | | Update `policy export/import` to preserve new fields | ⬜ | | Show "Signed by Platform Security Team" instead of hex in output | ⬜ | -| Show contact info in conflict output | ⬜ | | Backward-compat: gracefully handle packs without new fields | ⬜ | -**Output with signer name:** -``` -BLOCK code://go/auth/tls/cert_verification - Your code: TLS certificate verification is disabled (main.go:12) - Source: Acme Security Standard v3.2 (Platform Security Team) - Contact: #security-policy - Action: Fix or acknowledge with: aphoria ack --reason "..." -``` - -**Enterprise Value:** Developers know who to contact. Auditors see clear attribution. - ---- - ### 10.3 Speed Benchmarks ⬜ **Impact:** LOW | **Effort:** LOW | **Priority:** P3 -Document and automate speed benchmark testing. - | Task | Status | |------|--------| | Create `benchmarks/` directory with test corpora | ⬜ | -| Automate `time aphoria scan` on standard corpus | ⬜ | -| Document test conditions in benchmark results | ⬜ | | Add `aphoria scan --benchmark` flag for self-test | ⬜ | -| Include benchmarks in CI (optional, non-blocking) | ⬜ | - -**Usage:** -```bash -# Run benchmark on current directory -aphoria scan --benchmark - -# Output includes timing breakdown -Benchmark Results: - Files scanned: 767 - Lines of code: 187,918 - Claims extracted: 722 - Conflicts found: 186 - Total time: 652ms - - File discovery: 45ms - - Extraction: 487ms - - Conflict query: 120ms -``` - -**Enterprise Value:** "Show me the benchmark on a 100K-line codebase" → `aphoria scan --benchmark` - ---- - -### Phase 10 Completion Criteria - -| Metric | Target | -|--------|--------| -| Ack expiry working with 90d default | ✓ | -| Demo output matches pitch slides exactly | ✓ | -| Buyer can see who signed a policy (name, not hex) | ✓ | -| Buyer can see how to contact policy owner | ✓ | -| Speed benchmarks documented and reproducible | ✓ | - - ---- - -## Phase 11: Evidence-Based Authority ✅ - -> **Vision:** Authority comes from evidence, not titles. Merit over tenure. - -**Problem:** All patterns treated equally. A random commit carries the same weight as a pattern backed by RFC research and product specs. - -**Principle:** The system rewards documentation, not tenure. - -### Evidence Levels - -| Level | Example | Authority Weight | Graduation Threshold | -|-------|---------|------------------|---------------------| -| ProductSpec | `specs/api-design.md → REQ-API-001` | 0.95 | 1 usage | -| Standard | RFC 7519, OWASP A03:2021 | 0.85 | 3 usages | -| Research | ADR-042, docs/decision-log.md | 0.70 | 5 usages | -| Commit | Just code, no context | 0.40 | 10 usages | - -### 11.1 Evidence Level Types ✅ - -| Task | Status | -|------|--------| -| Create `src/evidence/mod.rs` module | ✅ | -| Define `EvidenceLevel` enum (Commit, Research, Standard, ProductSpec) | ✅ | -| Implement `authority_weight()` method | ✅ | -| Add evidence level to `LearnedPattern` struct | ✅ | -| Update pattern display to show evidence level | ✅ | - -### 11.2 Evidence Source Detection ✅ - -| Task | Status | -|------|--------| -| Create `EvidenceSource` enum | ✅ | -| Implement commit message parsing for RFC/standard references | ✅ | -| Implement ADR file detection (docs/adr/*.md patterns) | ✅ | -| Implement spec file detection (specs/*.md, *.spec.md) | ✅ | -| Add `PatternEvidence::detect()` auto-detection | ✅ | - -### 11.3 Evidence-Aware Graduation ✅ - -| Task | Status | -|------|--------| -| Update `GraduationManager` thresholds based on evidence | ✅ | -| ProductSpec: 1 usage → promotion candidate | ✅ | -| Standard: 3 usages → promotion candidate | ✅ | -| Research: 5 usages → promotion candidate | ✅ | -| Commit-only: 10 usages → promotion candidate | ✅ | -| Add evidence boost to shadow mode evaluation | ✅ | - -### 11.4 Evidence Display ✅ - -| Task | Status | -|------|--------| -| Update `aphoria patterns show` to display evidence chain | ✅ | -| Show evidence level badge in table/JSON output | ✅ | -| Show linked sources (ADR, spec, RFC) in conflict output | ✅ | -| Add `--evidence` flag to filter patterns by evidence level | ✅ | - -### Phase 11 Completion Criteria - -| Metric | Target | -|--------|--------| -| Evidence detection working for 4 source types | ✅ | -| Graduation thresholds vary by evidence level | ✅ | -| Pattern display shows evidence chain | ✅ | -| ProductSpec-backed patterns graduate with 1 usage | ✅ | - -### Implementation Notes - -**Files Created:** -- `src/evidence/mod.rs` - Module exports with flow documentation -- `src/evidence/types.rs` - `EvidenceLevel`, `EvidenceSource`, `PatternEvidence` types -- `src/evidence/detection.rs` - `EvidenceDetector` with regex-based parsing - -**Files Modified:** -- `src/learning/types.rs` - Added `evidence` field to `LearnedPattern` -- `src/learning/store.rs` - Added `get_all_patterns()`, `get_pattern_by_id()` -- `src/shadow/types.rs` - Added `evidence_level`, `evidence_sources` to `ShadowTest` -- `src/shadow/graduation.rs` - Added `effective_min_scans()`, `meets_evidence_aware_criteria()` -- `src/cli.rs` - Added `Show` variant to `PatternCommands` -- `src/handlers/patterns.rs` - Implemented `handle_pattern_show()` - -**Tests:** 29 evidence tests + 15 graduation tests passing (817 total) - ---- - -## Phase 12: Knowledge Scope Hierarchy ✅ - -> **Vision:** Knowledge applies at the right level - org, team, or project. - -**Problem:** All knowledge exists at one flat level. No way to say "this applies org-wide" vs "this is just our team's preference." - -### Scope Levels - -``` -Organization Level (applies to all teams) -├── Security policies (TLS, auth, secrets) - NO opt-out -├── Compliance requirements (GDPR, SOC 2) -└── Architecture decisions (API gateway, event bus) - -Team Level (applies to team's projects) -├── Coding conventions (naming, error handling) -├── Technology choices (frameworks, libraries) -└── Domain patterns (payment flows, user lifecycle) - -Project Level (applies to single project) -├── Local overrides (justified exceptions) -├── Experimental patterns (not yet proven) -└── Context-specific decisions -``` - -### 12.1 Scope Level Types ✅ - -| Task | Status | -|------|--------| -| Create `src/scope/mod.rs` module | ✅ | -| Define `ScopeLevel` enum (Organization, Team, Project) | ✅ | -| Add `scope_level` and `scope_id` to `LearnedPattern` | ✅ | -| Add `ScopeConfig` to `.aphoria.toml` | ✅ | -| Implement `--scope` flag for CLI commands | ✅ | - -### 12.2 Scope Inheritance ✅ - -| Task | Status | -|------|--------| -| Implement inheritance resolution (project → team → org) | ✅ | -| Security policies: auto-apply, no opt-out | ✅ | -| Conventions: auto-apply, teams can override with justification | ✅ | -| Observations: never inherited, team-specific only | ✅ | -| Add `ScopedKnowledge` struct with `inherited_from` chain | ✅ | - -### 12.3 Scope Override Workflow ✅ - -| Task | Status | -|------|--------| -| Implement `aphoria scope override` command | ✅ | -| Require justification for overrides | ✅ | -| Require evidence link (spec, ADR, ticket) for overrides | ✅ | -| Store override audit trail | ✅ | -| Show overrides in SOC 2 reports | ⬜ | - -### 12.4 Cross-Scope Queries ✅ - -| Task | Status | -|------|--------| -| `aphoria patterns --scope org` (org-level only) | ✅ | -| `aphoria patterns --scope team --exclude-inherited` | ✅ | -| `aphoria patterns --scope project --only-local` | ✅ | -| Show scope in pattern list output | ✅ | - -### Phase 12 Completion Criteria - -| Metric | Target | -|--------|--------| -| 3 scope levels working (org/team/project) | ✅ | -| Inheritance resolution correct | ✅ | -| Overrides require justification + evidence | ✅ | -| Cross-scope queries functional | ✅ | - -**Implementation Notes:** -- `src/scope/mod.rs` - ScopeLevel, ScopeId, ScopeContext with inheritance chain -- `src/scope/config.rs` - ScopeConfig for aphoria.toml -- `src/scope/resolver.rs` - ScopeResolver with Replace/Merge/NoInherit policies -- `src/scope/override_record.rs` - ScopeOverride with OverrideValue, expiration -- `src/scope/store.rs` - OverrideStore with persistence to ~/.aphoria/scope/ -- `src/handlers/scope.rs` - CLI command handlers (status, override, list, remove) - -**Tests:** 884 tests passing, all scope tests passing - ---- - -## Phase 13: Knowledge Lifecycle Management ✅ - -> **Vision:** Knowledge ages. Patterns can be deprecated and superseded. - -**Problem:** Knowledge exists forever. No way to deprecate patterns or track evolution. - -### Knowledge Status - -``` -Active → Pattern is current, enforced -Deprecated → Pattern is being phased out, migration guidance provided -Superseded → Pattern replaced by another, link to replacement -Archived → Pattern removed from active use, historical only -``` - -### 13.1 Knowledge Status Types ✅ - -| Task | Status | -|------|--------| -| Create `src/lifecycle/mod.rs` module | ✅ | -| Define `KnowledgeStatus` enum | ✅ | -| Add `Deprecated` variant with reason, superseded_by, sunset_date | ✅ | -| Add `KnowledgeLifecycle` struct with status history | ✅ | -| Store lifecycle in pattern metadata | ✅ | - -### 13.2 Deprecation Command ✅ - -| Task | Status | -|------|--------| -| Implement `aphoria deprecate ` command | ✅ | -| Require `--reason` flag | ✅ | -| Optional `--superseded-by ` | ✅ | -| Optional `--sunset-date ` | ✅ | -| Notify connected teams on deprecation | ⬜ | - -### 13.3 Migration Guidance ✅ - -| Task | Status | -|------|--------| -| Show deprecation warning in scan output | ✅ | -| Link to superseding pattern when available | ✅ | -| Show migration guide/ADR when linked | ✅ | -| FLAG (not BLOCK) deprecated pattern usage | ✅ | -| Track migration progress across projects | ✅ | - -### 13.4 Migration Tracking Dashboard ✅ - -| Task | Status | -|------|--------| -| Implement `aphoria migrations status` command | ✅ | -| Show progress by team (X/Y endpoints migrated) | ✅ | -| Show days remaining until sunset | ✅ | -| Show blockers (acknowledged exceptions) | ✅ | -| Export migration status for reporting | ✅ | - -### Phase 13 Completion Criteria - -| Metric | Target | -|--------|--------| -| Deprecation command working | ✅ | -| Deprecated patterns show warning in scan | ✅ | -| Migration tracking across projects | ✅ | -| SOC 2 report includes migration status | ⬜ | - -**Implementation Notes:** -- `src/lifecycle/mod.rs` - KnowledgeStatus, KnowledgeLifecycle, StatusTransition -- `src/lifecycle/store.rs` - LifecycleStore for persistence -- `src/lifecycle/migration.rs` - MigrationStore, MigrationProgress tracking -- `src/handlers/lifecycle.rs` - CLI handlers for deprecate, archive, reactivate, history, list -- `src/handlers/lifecycle.rs` - Migration handlers for status, export, blockers -- `KnowledgeLifecycle` added to `LearnedPattern` for pattern-level lifecycle tracking - -**Tests:** 884 tests passing (35 lifecycle-specific tests) +| Document test conditions in benchmark results | ⬜ | --- @@ -2923,8 +60,6 @@ Archived → Pattern removed from active use, historical only > **Vision:** Clear approval paths for pattern promotion with audit trails. -**Problem:** Governance is binary: manual review or >0.95 auto-promote. No structured approval workflows. - ### 14.1 Approval Workflow Definition ⬜ | Task | Status | @@ -2948,7 +83,7 @@ Archived → Pattern removed from active use, historical only | Task | Status | |------|--------| -| `aphoria governance pending` - list pending approvals | ⬜ | +| `aphoria governance pending` — list pending approvals | ⬜ | | `aphoria governance approve --comment "..."` | ⬜ | | `aphoria governance reject --reason "..."` | ⬜ | | `aphoria governance escalate ` | ⬜ | @@ -2959,27 +94,16 @@ Archived → Pattern removed from active use, historical only | Task | Status | |------|--------| | Full audit log for all governance actions | ⬜ | -| `aphoria audit trail --pattern ` - show timeline | ⬜ | +| `aphoria audit trail --pattern ` — show timeline | ⬜ | | Export governance history for auditors | ⬜ | | Include approver identity and timestamp | ⬜ | -### Phase 14 Completion Criteria - -| Metric | Target | -|--------|--------| -| Multi-stage approval working | ✓ | -| Approval/reject with comments | ✓ | -| Full audit trail exportable | ✓ | -| SOC 2 evidence includes approval chain | ✓ | - --- ## Phase 15: Evidence Source Integration ⬜ > **Vision:** ADRs, specs, and standards automatically link to patterns. -**Problem:** Evidence sources aren't automatically detected. Developers must manually reference them. - ### 15.1 ADR Auto-Detection ⬜ | Task | Status | @@ -3004,7 +128,6 @@ Archived → Pattern removed from active use, historical only | Task | Status | |------|--------| -| Create `src/evidence/standards.rs` | ⬜ | | Parse RFC references (RFC 7519) | ⬜ | | Parse OWASP references (OWASP A03:2021) | ⬜ | | Parse NIST references (NIST SP 800-53) | ⬜ | @@ -3015,78 +138,103 @@ Archived → Pattern removed from active use, historical only | Task | Status | |------|--------| | Show full evidence chain in pattern output | ⬜ | -| Link to source files (ADR, spec) | ⬜ | -| Show external standard references | ⬜ | | `aphoria patterns --by-evidence` grouping | ⬜ | -### Phase 15 Completion Criteria - -| Metric | Target | -|--------|--------| -| ADR auto-detection working | ✓ | -| Spec file linking working | ✓ | -| Standard references extracted | ✓ | -| Evidence chain visible in output | ✓ | - --- -## Phase 16: Ignore & Exclusion System ✅ +## Phase A6: AST-Aware Observation & Claim Verification ⬜ -> **Vision:** Clean scans by properly excluding test fixtures and intentional vulnerabilities. +> Evolved from the "Scout & Judge" proposal (2026-02-05). The original focused on LLM cost reduction via AST snippet extraction. Reframed through the observations/claims distinction: the **Scout** produces structurally richer observations that regex can't, and the **Judge** verifies authored claims against code rather than classifying security issues. -**Problem:** Scans show 210 conflicts but ~102 are test fixtures/demos. Current `exclude` only supports prefix matching, no `.aphoriaignore` file, no inline comments, no ack export. +### Why This Matters -### 16.1 Glob Pattern Matching ✅ +The 42 regex extractors work well for direct pattern matching (~0.25s). But they can't follow indirection: + +```python +# Regex sees `requests.get(url, verify=should_verify)` — no match +# AST sees `should_verify = False` in scope — match +should_verify = False +requests.get(url, verify=should_verify) +``` + +And they can't verify authored claims. When a claim says "Wallet MUST NOT derive Clone", regex can find `#[derive(` but can't determine scope or negation semantics. An AST-aware scout + LLM judge can. + +### A6.1 Tree-sitter Infrastructure ⬜ | Task | Status | |------|--------| -| Replace `starts_with()` with `globset` in `walker/mod.rs` | ✅ | -| Support `**` recursive, `*` wildcard, `?` single char | ✅ | -| Document glob syntax in module docs | ✅ | -| Add tests for pattern matching edge cases | ✅ | -| Backwards compatibility with prefix patterns | ✅ | +| Add `tree-sitter` + language grammars to `Cargo.toml` | ⬜ | +| Create `src/scout/mod.rs` module | ⬜ | +| `src/scout/engine.rs` — parse files, run SCM queries | ⬜ | +| `CandidateSnippet` type with structural context | ⬜ | +| `src/scout/queries/` — `.scm` query files per category/language | ⬜ | +| Language support: Python, Go, Rust, JavaScript/TypeScript | ⬜ | -### 16.2 `.aphoriaignore` File ✅ +```rust +pub struct CandidateSnippet { + pub file_path: String, + pub language: Language, + pub start_line: usize, + pub end_line: usize, + pub code: String, + pub context_variables: HashMap, + pub query_id: String, +} +``` + +### A6.2 Scout as Observation Producer ⬜ + +AST-aware ROI detection for patterns regex can't follow. | Task | Status | |------|--------| -| Create `walker/ignore_file.rs` module | ✅ | -| Load `.aphoriaignore` from project root | ✅ | -| Parse gitignore-style patterns with comments | ✅ | -| Merge with `aphoria.toml` excludes | ✅ | -| Support all comment styles (`#`, `//`, etc.) | ✅ | +| Variable indirection tracking (assign → use across lines) | ⬜ | +| Context expansion: function scope, variable defs, comments | ⬜ | +| Deduplication with existing regex extractors | ⬜ | +| SCM queries for TLS, secrets, auth, crypto categories | ⬜ | +| Integration: run scout after regex, drop overlaps, combine | ⬜ | -### 16.3 Inline Ignore Comments ✅ +**Key design:** Scout runs alongside (not instead of) regex extractors. Regex handles 90% at zero cost; scout handles the indirection cases regex misses. + +### A6.3 Judge as Claim Verifier ⬜ + +LLM receives focused snippet + authored claim → structured verdict. | Task | Status | |------|--------| -| Create `extractors/ignore_comments.rs` module | ✅ | -| `// aphoria:ignore` same-line suppression | ✅ | -| `// aphoria:ignore-next-line` next-line suppression | ✅ | -| `// aphoria:ignore-block` / `// aphoria:end-ignore` block suppression | ✅ | -| Support multiple comment styles (Rust, Python, C, SQL) | ✅ | -| Integrate with `ExtractorRegistry.extract_all()` | ✅ | +| Refactor `LlmExtractor` to accept `CandidateSnippet` + `AuthoredClaim` | ⬜ | +| Verification prompt: "Does this code satisfy this claim?" | ⬜ | +| Structured output: `{ verdict: PASS|FAIL|UNCERTAIN, evidence: "..." }` | ⬜ | +| Wire into `aphoria verify` Direction 2 (walk claims, verify in code) | ⬜ | +| Maps to `Extractor::verify()` from vision-gaps | ⬜ | -### 16.4 Acknowledgment Export/Import ✅ +**Token efficiency:** Snippet (~100 tokens) vs whole file (~2000 tokens) = 95% cost reduction per verification. + +### A6.4 Scout for Claim Suggestion ⬜ + +Scout identifies ROIs without matching authored claims, feeds context to `aphoria-suggest`. | Task | Status | |------|--------| -| Create `ack_file.rs` module | ✅ | -| `aphoria ack export` — export to `.aphoria/acks.toml` | ✅ | -| `aphoria ack import` — import from `.aphoria/acks.toml` | ✅ | -| Preserve expiry and reason fields | ✅ | -| Skip duplicates on import | ✅ | -| Version-controllable TOML format | ✅ | +| Identify ROIs with no matching claim in `.aphoria/claims.toml` | ⬜ | +| Enrich context for skill: snippet + function name + surrounding comments | ⬜ | +| Feed to `aphoria-suggest` skill for claim drafting | ⬜ | -### Phase 16 Completion Criteria +### A6.5 Evaluation ⬜ -| Metric | Target | -|--------|--------| -| Glob patterns working in `exclude` | ✅ | -| `.aphoriaignore` respected | ✅ | -| Inline comments suppress findings | ✅ | -| Acks exportable to version control | ✅ | -| CLI commands for ack export/import | ✅ | +| Task | Status | +|------|--------| +| Scout recall: "Did scout find the vulnerable line in fixture?" | ⬜ | +| Judge precision: "Given snippet + claim, did LLM classify correctly?" | ⬜ | +| Cost metric: `tokens_per_verification` vs monolithic approach | ⬜ | +| Parallel run: shadow mode alongside regex for tuning | ⬜ | + +### Phase A6 Priority + +Lower priority than A5 flywheel completion and Phase 14 governance. Build when: +1. Regex extractors hit limits on specific indirection patterns +2. `aphoria verify` Direction 2 needs LLM-backed verification +3. `aphoria-suggest` needs richer context than regex observations provide --- @@ -3118,12 +266,3 @@ Archived → Pattern removed from active use, historical only ## Enterprise Simulation UAT See: `uat/enterprise-simulation-uat.md` - -6-month simulation covering: -- Month 1: Platform team adopts, baseline patterns captured -- Month 2: Payments team joins, cross-team patterns emerge -- Month 3: New hire guided by existing patterns -- Month 4: Mobile team joins, org-level promotion -- Month 5: API versioning deprecated, migration tracked -- Month 6: SOC 2 audit evidence generated - diff --git a/applications/aphoria/src/baseline.rs b/applications/aphoria/src/baseline.rs index 7badcf4..43c23a6 100644 --- a/applications/aphoria/src/baseline.rs +++ b/applications/aphoria/src/baseline.rs @@ -50,6 +50,7 @@ pub async fn show_diff(config: &AphoriaConfig) -> Result { file_source: crate::types::FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let result = run_scan(args, config).await?; diff --git a/applications/aphoria/src/bridge.rs b/applications/aphoria/src/bridge.rs index 98cac42..ffc5398 100644 --- a/applications/aphoria/src/bridge.rs +++ b/applications/aphoria/src/bridge.rs @@ -1,4 +1,4 @@ -//! Bridge between ExtractedClaim and Episteme Assertion. +//! Bridge between Observation and Episteme Assertion. //! //! Converts claims extracted from source code into Episteme assertions //! that can be ingested into the knowledge graph. @@ -10,31 +10,67 @@ use stemedb_core::types::{ }; use tracing::instrument; -use crate::types::ExtractedClaim; +use crate::types::{parse_authority_tier, AuthoredClaim, Observation}; -/// Convert an ExtractedClaim to an Episteme Assertion. +/// Convert an Observation to an Episteme Assertion. /// /// The assertion is signed with the provided keypair and timestamped. /// Uses `SourceClass::Expert` (Tier 3) for code-extracted claims. #[instrument(skip(signing_key), fields(concept_path = %claim.concept_path, predicate = %claim.predicate))] pub fn claim_to_assertion( - claim: &ExtractedClaim, + claim: &Observation, signing_key: &SigningKey, timestamp: u64, ) -> Assertion { claim_to_assertion_with_tier(claim, signing_key, timestamp, SourceClass::Expert) } -/// Convert an ExtractedClaim to a Tier 4 (Community) observation. +/// Map observation confidence to appropriate tier. +/// +/// Observations (extracted patterns) are assigned tiers based on confidence: +/// - High confidence (≥0.9): Tier 4 (Community, weight 0.3) +/// - Low confidence (<0.9): Tier 5 (Anecdotal, weight 0.1) +/// +/// This is different from authored claims which use explicit authority tiers. +pub fn observation_to_tier(confidence: f32) -> SourceClass { + if confidence >= 0.9 { + SourceClass::Community // Tier 4 + } else { + SourceClass::Anecdotal // Tier 5 + } +} + +/// Convert an observation (Observation) to an Episteme Assertion. +/// +/// Observations are pattern matches from extractors. Unlike authored claims, +/// they lack provenance and consequences. The tier is determined by confidence: +/// - High confidence (≥0.9) → Tier 4 (Community, 0.3 weight) +/// - Low confidence (<0.9) → Tier 5 (Anecdotal, 0.1 weight) +/// +/// This replaces the fixed Tier 3 mapping previously used for code extractions. +#[instrument(skip(signing_key), fields(concept_path = %claim.concept_path, predicate = %claim.predicate, confidence = %claim.confidence))] +pub fn observation_to_assertion( + claim: &Observation, + signing_key: &SigningKey, + timestamp: u64, +) -> Assertion { + let tier = observation_to_tier(claim.confidence); + claim_to_assertion_with_tier(claim, signing_key, timestamp, tier) +} + +/// Convert an Observation to a Tier 4 (Community) observation. +/// +/// **Deprecated:** Use `observation_to_assertion()` which maps confidence to tier. /// /// Used for claims that have no authority conflict — these become "project memory" /// that persists across commits and enables future drift detection. /// /// Observations are lower-weight assertions (Tier 4, 0.3 authority weight) that /// record what the code actually does without making authoritative claims. +#[deprecated(since = "0.9.0", note = "Use observation_to_assertion() for confidence-based tier mapping")] #[instrument(skip(signing_key), fields(concept_path = %claim.concept_path, predicate = %claim.predicate))] pub fn claim_to_observation( - claim: &ExtractedClaim, + claim: &Observation, signing_key: &SigningKey, timestamp: u64, ) -> Assertion { @@ -43,7 +79,7 @@ pub fn claim_to_observation( /// Internal helper to create assertions with a specific source class. fn claim_to_assertion_with_tier( - claim: &ExtractedClaim, + claim: &Observation, signing_key: &SigningKey, timestamp: u64, source_class: SourceClass, @@ -91,6 +127,81 @@ fn claim_to_assertion_with_tier( } } +/// Convert an `AuthoredClaim` to an Episteme Assertion. +/// +/// Unlike extractor-produced assertions, authored claims carry full provenance: +/// - `source_class` is derived from the claim's `authority_tier` field +/// - `source_metadata` includes provenance, invariant, consequence, and evidence +/// - `parent_hash` is computed from the `supersedes` field if present +/// - `lifecycle` is `Approved` (authored claims are already reviewed) +#[instrument(skip(signing_key), fields(id = %claim.id, concept_path = %claim.concept_path))] +pub fn authored_claim_to_assertion( + claim: &AuthoredClaim, + signing_key: &SigningKey, + timestamp: u64, +) -> Result { + let source_class = parse_authority_tier(&claim.authority_tier)?; + + let source_metadata = serde_json::json!({ + "authored": true, + "claim_id": claim.id, + "provenance": claim.provenance, + "invariant": claim.invariant, + "consequence": claim.consequence, + "evidence": claim.evidence, + "category": claim.category, + "created_by": claim.created_by, + "created_at": claim.created_at, + "tool": "aphoria", + "tool_version": env!("CARGO_PKG_VERSION"), + }); + + // Source hash from claim ID (stable, deterministic) + let source_hash = compute_authored_claim_hash(&claim.id); + + // Compute parent hash from superseded claim ID if present + let parent_hash = + claim.supersedes.as_ref().map(|sid| compute_authored_claim_hash(sid)); + + // Sign subject:predicate + let message = format!("{}:{}", claim.concept_path, claim.predicate); + let signature = signing_key.sign(message.as_bytes()); + let verifying_key = signing_key.verifying_key(); + + let signature_entry = SignatureEntry { + agent_id: verifying_key.to_bytes(), + signature: signature.to_bytes(), + timestamp, + version: 1, + }; + + Ok(Assertion { + subject: claim.concept_path.clone(), + predicate: claim.predicate.clone(), + object: claim.value.to_object_value(), + parent_hash, + source_hash, + source_class, + visual_hash: None, + epoch: None, + source_metadata: serde_json::to_vec(&source_metadata).ok(), + lifecycle: LifecycleStage::Approved, + signatures: vec![signature_entry], + confidence: 1.0, // Authored claims have full confidence + timestamp, + hlc_timestamp: HlcTimestamp::default(), + vector: None, + }) +} + +/// Compute a deterministic hash from an authored claim ID. +fn compute_authored_claim_hash(claim_id: &str) -> Hash { + let mut hasher = Hasher::new(); + hasher.update(b"authored-claim:"); + hasher.update(claim_id.as_bytes()); + *hasher.finalize().as_bytes() +} + /// Compute the content hash of an assertion for deduplication. #[allow(dead_code)] pub fn compute_assertion_hash(assertion: &Assertion) -> Hash { @@ -160,7 +271,7 @@ mod tests { #[test] fn test_claim_to_assertion() { - let claim = ExtractedClaim { + let claim = Observation { concept_path: "code://rust/myapp/tls/cert_verification".to_string(), predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), @@ -186,8 +297,71 @@ mod tests { } #[test] + fn test_observation_to_tier_high_confidence() { + assert_eq!(observation_to_tier(1.0), SourceClass::Community); + assert_eq!(observation_to_tier(0.95), SourceClass::Community); + assert_eq!(observation_to_tier(0.9), SourceClass::Community); + assert_eq!(observation_to_tier(0.9).tier(), 4); + assert!((observation_to_tier(0.9).authority_weight() - 0.3).abs() < f32::EPSILON); + } + + #[test] + fn test_observation_to_tier_low_confidence() { + assert_eq!(observation_to_tier(0.89), SourceClass::Anecdotal); + assert_eq!(observation_to_tier(0.5), SourceClass::Anecdotal); + assert_eq!(observation_to_tier(0.1), SourceClass::Anecdotal); + assert_eq!(observation_to_tier(0.5).tier(), 5); + assert!((observation_to_tier(0.5).authority_weight() - 0.1).abs() < f32::EPSILON); + } + + #[test] + fn test_observation_to_assertion_high_confidence() { + let observation = Observation { + concept_path: "code://rust/myapp/tls/cert_verification".to_string(), + predicate: "enabled".to_string(), + value: ObjectValue::Boolean(true), + file: "src/client.rs".to_string(), + line: 42, + matched_text: "verify_certs = true".to_string(), + confidence: 0.95, + description: "TLS verification enabled".to_string(), + }; + + let key = generate_signing_key(); + let assertion = observation_to_assertion(&observation, &key, 1706832000); + + assert_eq!(assertion.source_class, SourceClass::Community); // Tier 4 + assert_eq!(assertion.source_class.tier(), 4); + assert!((assertion.source_class.authority_weight() - 0.3).abs() < f32::EPSILON); + assert_eq!(assertion.confidence, 0.95); + } + + #[test] + fn test_observation_to_assertion_low_confidence() { + let observation = Observation { + concept_path: "code://rust/myapp/config/timeout".to_string(), + predicate: "value".to_string(), + value: ObjectValue::Number(30.0), + file: "src/config.rs".to_string(), + line: 15, + matched_text: "timeout = 30".to_string(), + confidence: 0.7, + description: "Timeout configuration".to_string(), + }; + + let key = generate_signing_key(); + let assertion = observation_to_assertion(&observation, &key, 1706832000); + + assert_eq!(assertion.source_class, SourceClass::Anecdotal); // Tier 5 + assert_eq!(assertion.source_class.tier(), 5); + assert!((assertion.source_class.authority_weight() - 0.1).abs() < f32::EPSILON); + assert_eq!(assertion.confidence, 0.7); + } + + #[test] + #[allow(deprecated)] fn test_claim_to_observation_sets_tier4() { - let claim = ExtractedClaim { + let claim = Observation { concept_path: "code://rust/myapp/logging/level".to_string(), predicate: "value".to_string(), value: ObjectValue::Text("debug".to_string()), @@ -215,8 +389,9 @@ mod tests { } #[test] + #[allow(deprecated)] fn test_claim_to_observation_preserves_metadata() { - let claim = ExtractedClaim { + let claim = Observation { concept_path: "code://rust/myapp/db/pool_size".to_string(), predicate: "value".to_string(), value: ObjectValue::Number(10.0), @@ -245,7 +420,7 @@ mod tests { #[test] fn test_assertion_hash_deterministic() { - let claim = ExtractedClaim { + let claim = Observation { concept_path: "code://rust/myapp/tls/cert_verification".to_string(), predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), @@ -275,4 +450,106 @@ mod tests { // Same key should be loaded assert_eq!(key1.to_bytes(), key2.to_bytes()); } + + #[test] + fn test_authored_claim_to_assertion() { + use crate::types::authored_claim::{AuthoredValue, ClaimStatus}; + + let claim = AuthoredClaim { + id: "wallet-seqcst-001".to_string(), + concept_path: "maxwell/wallet/atomics/ordering".to_string(), + predicate: "required_ordering".to_string(), + value: AuthoredValue::Text("SeqCst".to_string()), + comparison: Default::default(), + provenance: "Safety analysis".to_string(), + invariant: "All wallet atomics MUST use SeqCst".to_string(), + consequence: "Double-spend race condition".to_string(), + authority_tier: "expert".to_string(), + evidence: vec!["ADR-003".to_string()], + category: "safety".to_string(), + status: ClaimStatus::Active, + supersedes: None, + created_by: "jml".to_string(), + created_at: "2026-02-08T12:00:00Z".to_string(), + updated_at: None, + }; + + let key = generate_signing_key(); + let assertion = + authored_claim_to_assertion(&claim, &key, 1706832000).expect("convert"); + + assert_eq!(assertion.subject, "maxwell/wallet/atomics/ordering"); + assert_eq!(assertion.predicate, "required_ordering"); + assert_eq!(assertion.object, ObjectValue::Text("SeqCst".to_string())); + assert_eq!(assertion.source_class, SourceClass::Expert); + assert_eq!(assertion.confidence, 1.0); + assert!(assertion.parent_hash.is_none()); + assert_eq!(assertion.lifecycle, LifecycleStage::Approved); + + // Verify metadata includes provenance fields + let metadata: serde_json::Value = + serde_json::from_slice(assertion.source_metadata.as_ref().expect("metadata")) + .expect("parse"); + assert_eq!(metadata["authored"], true); + assert_eq!(metadata["claim_id"], "wallet-seqcst-001"); + assert_eq!(metadata["provenance"], "Safety analysis"); + assert_eq!(metadata["invariant"], "All wallet atomics MUST use SeqCst"); + } + + #[test] + fn test_authored_claim_with_supersedes() { + use crate::types::authored_claim::{AuthoredValue, ClaimStatus}; + + let claim = AuthoredClaim { + id: "wallet-ordering-v2".to_string(), + concept_path: "maxwell/wallet/atomics/ordering".to_string(), + predicate: "required_ordering".to_string(), + value: AuthoredValue::Text("Acquire".to_string()), + comparison: Default::default(), + provenance: "Updated safety analysis".to_string(), + invariant: "Wallet atomics should use Acquire".to_string(), + consequence: "Performance degradation".to_string(), + authority_tier: "expert".to_string(), + evidence: vec![], + category: "safety".to_string(), + status: ClaimStatus::Active, + supersedes: Some("wallet-seqcst-001".to_string()), + created_by: "jml".to_string(), + created_at: "2026-02-08T13:00:00Z".to_string(), + updated_at: None, + }; + + let key = generate_signing_key(); + let assertion = + authored_claim_to_assertion(&claim, &key, 1706832000).expect("convert"); + + assert!(assertion.parent_hash.is_some()); + } + + #[test] + fn test_authored_claim_invalid_tier() { + use crate::types::authored_claim::{AuthoredValue, ClaimStatus}; + + let claim = AuthoredClaim { + id: "bad-tier".to_string(), + concept_path: "test/path".to_string(), + predicate: "test".to_string(), + value: AuthoredValue::Bool(true), + comparison: Default::default(), + provenance: "test".to_string(), + invariant: "test".to_string(), + consequence: "test".to_string(), + authority_tier: "invalid_tier".to_string(), + evidence: vec![], + category: "safety".to_string(), + status: ClaimStatus::Active, + supersedes: None, + created_by: "test".to_string(), + created_at: "2026-02-08T12:00:00Z".to_string(), + updated_at: None, + }; + + let key = generate_signing_key(); + assert!(authored_claim_to_assertion(&claim, &key, 1706832000).is_err()); + } } diff --git a/applications/aphoria/src/claim_store.rs b/applications/aphoria/src/claim_store.rs new file mode 100644 index 0000000..26022e8 --- /dev/null +++ b/applications/aphoria/src/claim_store.rs @@ -0,0 +1,120 @@ +//! Claim storage interface and implementations. +//! +//! Provides persistence for human-authored claims (not observations). +//! Claims are stored in `.aphoria/claims.toml` for version control. + +use crate::types::AuthoredClaim; +use crate::AphoriaError; +use std::path::PathBuf; + +/// Filter criteria for querying claims. +#[derive(Debug, Clone, Default)] +pub struct ClaimFilter { + /// Filter by concept path (exact match) + pub concept_path: Option, + + /// Filter by predicate (exact match) + pub predicate: Option, + + /// Filter by authority tier + pub authority_tier: Option, +} + +/// Statistics from bulk import operations. +#[derive(Debug, Default)] +pub struct ImportStats { + /// Number of claims successfully imported + pub imported: usize, + + /// Number of claims skipped (duplicates) + pub skipped: usize, + + /// Number of claims that failed to import + pub errors: usize, +} + +/// Trait for claim storage backends. +/// +/// Implementations provide persistence for `AuthoredClaim` instances. +/// The primary implementation is `TomlClaimStore` which stores claims +/// in `.aphoria/claims.toml` for version control. +pub trait ClaimStore: Send + Sync { + /// Save a new claim or update an existing one. + /// + /// Claims are identified by `(concept_path, predicate)` tuple. + /// If a claim with the same tuple exists, it is replaced. + fn save_claim(&self, claim: &AuthoredClaim) -> Result<(), AphoriaError>; + + /// Load a specific claim by concept path and predicate. + fn load_claim( + &self, + concept_path: &str, + predicate: &str, + ) -> Result, AphoriaError>; + + /// List all claims matching the filter criteria. + /// + /// If filter is empty (all fields None), returns all claims. + fn list_claims(&self, filter: &ClaimFilter) -> Result, AphoriaError>; + + /// Delete a claim by concept path and predicate. + /// + /// Returns `true` if a claim was deleted, `false` if not found. + fn delete_claim(&self, concept_path: &str, predicate: &str) -> Result; + + /// Import multiple claims in bulk. + /// + /// Duplicates (same concept_path + predicate) are skipped. + fn import_claims(&self, claims: &[AuthoredClaim]) -> Result { + let mut stats = ImportStats::default(); + + for claim in claims { + match self.save_claim(claim) { + Ok(()) => stats.imported += 1, + Err(_) => stats.errors += 1, + } + } + + Ok(stats) + } + + /// Export claims matching filter criteria. + fn export_claims(&self, filter: &ClaimFilter) -> Result, AphoriaError> { + self.list_claims(filter) + } +} + +/// File-based claim storage using TOML format. +/// +/// Stores claims in `.aphoria/claims.toml` relative to the base directory. +/// This allows claims to be version-controlled alongside code. +/// +/// # Note +/// +/// This is a stub implementation. The `ClaimStore` trait is not yet implemented +/// for this struct. +// TODO(A4): Implement `ClaimStore for TomlClaimStore` using ClaimsFile for persistence. +#[allow(dead_code)] +pub struct TomlClaimStore { + base_dir: PathBuf, +} + +#[allow(dead_code)] +impl TomlClaimStore { + /// Create a new TOML claim store. + /// + /// # Arguments + /// + /// * `base_dir` - Project root directory (claims stored in `{base_dir}/.aphoria/claims.toml`) + pub fn new(base_dir: PathBuf) -> Self { + Self { base_dir } + } + + /// Get the path to the claims file. + fn claims_file(&self) -> PathBuf { + self.base_dir.join(".aphoria").join("claims.toml") + } +} + +// Implementation will be added in Commit 4 (Claim Storage) +// For now, this is just the trait interface. diff --git a/applications/aphoria/src/claims_explain.rs b/applications/aphoria/src/claims_explain.rs new file mode 100644 index 0000000..bfdf560 --- /dev/null +++ b/applications/aphoria/src/claims_explain.rs @@ -0,0 +1,200 @@ +//! Markdown rendering for authored claims. +//! +//! Generates `claims-explained.md` style output, grouping claims by category +//! and rendering full provenance details. + +use crate::types::authored_claim::{format_authority_tier, parse_authority_tier, AuthoredClaim, ClaimStatus}; + +/// Render all claims as a markdown document grouped by category. +pub fn render_claims_markdown(claims: &[AuthoredClaim], project_name: &str) -> String { + let mut out = String::new(); + out.push_str(&format!("# Claims for {project_name}\n\n")); + + // Group by category + let mut categories: std::collections::BTreeMap> = + std::collections::BTreeMap::new(); + for claim in claims { + categories.entry(claim.category.clone()).or_default().push(claim); + } + + if categories.is_empty() { + out.push_str("No claims authored yet.\n"); + return out; + } + + for (category, cat_claims) in &categories { + let active_count = cat_claims.iter().filter(|c| c.status == ClaimStatus::Active).count(); + let title = capitalize(category); + out.push_str(&format!( + "## {title} Claims ({active_count} active, {} total)\n\n", + cat_claims.len() + )); + + for claim in cat_claims { + render_single_claim(&mut out, claim); + out.push('\n'); + } + } + + out +} + +/// Render a single claim as a markdown section. +pub fn render_single_claim(out: &mut String, claim: &AuthoredClaim) { + let status_badge = match claim.status { + ClaimStatus::Active => "", + ClaimStatus::Deprecated => " [DEPRECATED]", + ClaimStatus::Superseded => " [SUPERSEDED]", + }; + + out.push_str(&format!("### {}: {}{status_badge}\n", claim.id, claim.invariant)); + out.push_str(&format!("- **Concept:** `{}`\n", claim.concept_path)); + out.push_str(&format!("- **Predicate:** `{}` = `{}`\n", claim.predicate, claim.value)); + out.push_str(&format!("- **Invariant:** {}\n", claim.invariant)); + out.push_str(&format!("- **Consequence:** {}\n", claim.consequence)); + out.push_str(&format!("- **Provenance:** {}\n", claim.provenance)); + + let tier_display = parse_authority_tier(&claim.authority_tier) + .map(format_authority_tier) + .unwrap_or_else(|_| { + tracing::warn!( + claim_id = %claim.id, + raw_tier = %claim.authority_tier, + "Failed to parse authority tier, using raw value" + ); + claim.authority_tier.clone() + }); + out.push_str(&format!("- **Authority:** {tier_display}\n")); + + if !claim.evidence.is_empty() { + out.push_str(&format!("- **Evidence:** {}\n", claim.evidence.join(", "))); + } + + out.push_str(&format!("- **Status:** {}\n", claim.status)); + out.push_str(&format!("- **Author:** {} ({})\n", claim.created_by, claim.created_at)); + + if let Some(ref supersedes) = claim.supersedes { + out.push_str(&format!("- **Supersedes:** {supersedes}\n")); + } + + if let Some(ref updated) = claim.updated_at { + out.push_str(&format!("- **Updated:** {updated}\n")); + } +} + +/// Render a single claim as JSON wrapped in a structured envelope. +pub fn render_claim_json(claim: &AuthoredClaim, project_name: &str) -> Result { + let envelope = serde_json::json!({ + "type": "claim_detail", + "project": project_name, + "claim": claim + }); + serde_json::to_string_pretty(&envelope) +} + +/// Render all claims as JSON wrapped in a structured envelope. +pub fn render_claims_json(claims: &[AuthoredClaim], project_name: &str) -> Result { + let envelope = serde_json::json!({ + "type": "claims_explain", + "project": project_name, + "total": claims.len(), + "claims": claims + }); + serde_json::to_string_pretty(&envelope) +} + +fn capitalize(s: &str) -> String { + let mut chars = s.chars(); + match chars.next() { + None => String::new(), + Some(c) => c.to_uppercase().collect::() + chars.as_str(), + } +} + +#[cfg(test)] +mod tests { + use super::*; + use crate::types::authored_claim::AuthoredValue; + + fn sample_claim(id: &str, category: &str) -> AuthoredClaim { + AuthoredClaim { + id: id.to_string(), + concept_path: "test/concept".to_string(), + predicate: "test_pred".to_string(), + value: AuthoredValue::Text("test_value".to_string()), + comparison: Default::default(), + provenance: "Test provenance".to_string(), + invariant: "Test invariant MUST hold".to_string(), + consequence: "Bad things happen".to_string(), + authority_tier: "expert".to_string(), + evidence: vec!["ADR-001".to_string()], + category: category.to_string(), + status: ClaimStatus::Active, + supersedes: None, + created_by: "tester".to_string(), + created_at: "2026-02-08T12:00:00Z".to_string(), + updated_at: None, + } + } + + #[test] + fn test_render_empty() { + let md = render_claims_markdown(&[], "test-project"); + assert!(md.contains("No claims authored yet")); + } + + #[test] + fn test_render_groups_by_category() { + let claims = vec![ + sample_claim("safety-001", "safety"), + sample_claim("arch-001", "architecture"), + sample_claim("safety-002", "safety"), + ]; + let md = render_claims_markdown(&claims, "test-project"); + assert!(md.contains("## Architecture Claims (1 active, 1 total)")); + assert!(md.contains("## Safety Claims (2 active, 2 total)")); + } + + #[test] + fn test_render_single_claim_fields() { + let claim = sample_claim("test-001", "safety"); + let mut out = String::new(); + render_single_claim(&mut out, &claim); + + assert!(out.contains("### test-001:")); + assert!(out.contains("**Concept:** `test/concept`")); + assert!(out.contains("**Predicate:** `test_pred` = `test_value`")); + assert!(out.contains("**Invariant:**")); + assert!(out.contains("**Consequence:**")); + assert!(out.contains("**Provenance:**")); + assert!(out.contains("Expert (Tier 3)")); + assert!(out.contains("**Evidence:** ADR-001")); + } + + #[test] + fn test_deprecated_badge() { + let mut claim = sample_claim("dep-001", "safety"); + claim.status = ClaimStatus::Deprecated; + let mut out = String::new(); + render_single_claim(&mut out, &claim); + assert!(out.contains("[DEPRECATED]")); + } + + #[test] + fn test_render_json() { + let claim = sample_claim("test-001", "safety"); + let json = render_claim_json(&claim, "test-project").expect("json"); + assert!(json.contains("\"type\": \"claim_detail\"")); + assert!(json.contains("\"project\": \"test-project\"")); + assert!(json.contains("\"id\": \"test-001\"")); + } + + #[test] + fn test_render_claims_json_envelope() { + let claims = vec![sample_claim("c-001", "arch"), sample_claim("c-002", "safety")]; + let json = render_claims_json(&claims, "my-project").expect("json"); + assert!(json.contains("\"type\": \"claims_explain\"")); + assert!(json.contains("\"total\": 2")); + assert!(json.contains("\"project\": \"my-project\"")); + } +} diff --git a/applications/aphoria/src/claims_file.rs b/applications/aphoria/src/claims_file.rs new file mode 100644 index 0000000..620d2a4 --- /dev/null +++ b/applications/aphoria/src/claims_file.rs @@ -0,0 +1,323 @@ +//! Claims file persistence (TOML). +//! +//! Stores human-authored claims in `.aphoria/claims.toml`, following +//! the same pattern as `ack_file.rs` for acknowledgments. +//! +//! ## File Format +//! +//! ```toml +//! # Aphoria Claims - version controlled +//! # +//! # Human-authored claims with provenance, invariants, and consequences. +//! # Manage with: aphoria claims create|list|explain|update|supersede|deprecate +//! +//! [[claim]] +//! id = "wallet-seqcst-001" +//! concept_path = "maxwell/wallet/atomics/ordering" +//! predicate = "required_ordering" +//! value = "SeqCst" +//! provenance = "Safety analysis by lead developer" +//! invariant = "All wallet atomics MUST use SeqCst" +//! consequence = "Double-spend race condition" +//! authority_tier = "expert" +//! evidence = ["wallet ADR-003", "Intel SDM Vol 4"] +//! category = "safety" +//! status = "active" +//! created_by = "jml" +//! created_at = "2026-02-08T12:00:00Z" +//! ``` + +use std::path::{Path, PathBuf}; + +use serde::{Deserialize, Serialize}; + +use crate::types::authored_claim::{AuthoredClaim, ClaimStatus}; +use crate::AphoriaError; + +/// Default path for the claims file relative to project root. +pub const CLAIMS_FILE_PATH: &str = ".aphoria/claims.toml"; + +/// Container for all authored claims in the file. +#[derive(Debug, Clone, Serialize, Deserialize, Default)] +pub struct ClaimsFile { + /// List of authored claims. + #[serde(default, rename = "claim")] + pub claims: Vec, +} + +impl ClaimsFile { + /// Create an empty claims file. + pub fn new() -> Self { + Self { claims: Vec::new() } + } + + /// Add a claim entry, deduplicating by ID. + pub fn add(&mut self, claim: AuthoredClaim) { + if !self.claims.iter().any(|c| c.id == claim.id) { + self.claims.push(claim); + } + } + + /// Load from a TOML file. + pub fn load(path: &Path) -> Result { + if !path.exists() { + return Ok(Self::new()); + } + + let content = std::fs::read_to_string(path) + .map_err(|e| AphoriaError::Io(std::io::Error::new(e.kind(), format!("{e}"))))?; + + toml::from_str(&content) + .map_err(|e| AphoriaError::Claims(format!("Failed to parse claims file: {e}"))) + } + + /// Save to a TOML file. + pub fn save(&self, path: &Path) -> Result<(), AphoriaError> { + if let Some(parent) = path.parent() { + if !parent.exists() { + std::fs::create_dir_all(parent)?; + } + } + + let header = r#"# Aphoria Claims - version controlled +# +# Human-authored claims with provenance, invariants, and consequences. +# Each claim represents a deliberate architectural decision or safety invariant. +# +# Manage with: aphoria claims create|list|explain|update|supersede|deprecate + +"#; + + let content = + toml::to_string_pretty(self).map_err(|e| AphoriaError::Claims(e.to_string()))?; + + std::fs::write(path, format!("{header}{content}")) + .map_err(|e| AphoriaError::Io(std::io::Error::new(e.kind(), format!("{e}"))))?; + + Ok(()) + } + + /// Get the default path for the claims file. + pub fn default_path(project_root: &Path) -> PathBuf { + project_root.join(CLAIMS_FILE_PATH) + } + + /// Check if a claims file exists at the default location. + pub fn exists(project_root: &Path) -> bool { + Self::default_path(project_root).exists() + } + + /// Get the number of claims. + pub fn len(&self) -> usize { + self.claims.len() + } + + /// Check if empty. + pub fn is_empty(&self) -> bool { + self.claims.is_empty() + } + + /// Find a claim by ID. + pub fn find_by_id(&self, id: &str) -> Option<&AuthoredClaim> { + self.claims.iter().find(|c| c.id == id) + } + + /// Find a claim by ID (mutable). + pub fn find_by_id_mut(&mut self, id: &str) -> Option<&mut AuthoredClaim> { + self.claims.iter_mut().find(|c| c.id == id) + } + + /// Find claims by category. + pub fn find_by_category(&self, category: &str) -> Vec<&AuthoredClaim> { + self.claims.iter().filter(|c| c.category == category).collect() + } + + /// Find claims by status. + pub fn find_by_status(&self, status: &ClaimStatus) -> Vec<&AuthoredClaim> { + self.claims.iter().filter(|c| &c.status == status).collect() + } + + /// Update a claim's fields. Returns error if claim not found. + pub fn update(&mut self, id: &str, updater: F) -> Result<(), AphoriaError> + where + F: FnOnce(&mut AuthoredClaim), + { + let claim = self + .find_by_id_mut(id) + .ok_or_else(|| AphoriaError::Claims(format!("Claim not found: {id}")))?; + updater(claim); + Ok(()) + } + + /// Mark a claim as superseded and add the superseding claim. + pub fn supersede( + &mut self, + old_id: &str, + new_claim: AuthoredClaim, + ) -> Result<(), AphoriaError> { + // Mark old claim as superseded + let now = new_claim.created_at.clone(); + self.update(old_id, |c| { + c.status = ClaimStatus::Superseded; + c.updated_at = Some(now); + })?; + + // Add new claim + self.add(new_claim); + Ok(()) + } + + /// Mark a claim as deprecated. + pub fn deprecate(&mut self, id: &str, timestamp: &str) -> Result<(), AphoriaError> { + self.update(id, |c| { + c.status = ClaimStatus::Deprecated; + c.updated_at = Some(timestamp.to_string()); + }) + } +} + +#[cfg(test)] +mod tests { + use super::*; + use crate::types::authored_claim::AuthoredValue; + use tempfile::TempDir; + + fn sample_claim(id: &str) -> AuthoredClaim { + AuthoredClaim { + id: id.to_string(), + concept_path: "test/concept".to_string(), + predicate: "test_pred".to_string(), + value: AuthoredValue::Text("test_value".to_string()), + comparison: Default::default(), + provenance: "Test provenance".to_string(), + invariant: "Test invariant".to_string(), + consequence: "Test consequence".to_string(), + authority_tier: "expert".to_string(), + evidence: vec!["evidence-1".to_string()], + category: "safety".to_string(), + status: ClaimStatus::Active, + supersedes: None, + created_by: "tester".to_string(), + created_at: "2026-02-08T12:00:00Z".to_string(), + updated_at: None, + } + } + + #[test] + fn test_claims_file_roundtrip() { + let temp_dir = TempDir::new().expect("create temp dir"); + let path = temp_dir.path().join(".aphoria/claims.toml"); + + let mut file = ClaimsFile::new(); + file.add(sample_claim("claim-001")); + file.add(sample_claim("claim-002")); + + file.save(&path).expect("save claims file"); + + let loaded = ClaimsFile::load(&path).expect("load claims file"); + assert_eq!(loaded.len(), 2); + assert_eq!(loaded.claims[0].id, "claim-001"); + assert_eq!(loaded.claims[1].id, "claim-002"); + } + + #[test] + fn test_no_duplicates() { + let mut file = ClaimsFile::new(); + file.add(sample_claim("claim-001")); + file.add(sample_claim("claim-001")); + assert_eq!(file.len(), 1); + } + + #[test] + fn test_find_by_id() { + let mut file = ClaimsFile::new(); + file.add(sample_claim("claim-001")); + file.add(sample_claim("claim-002")); + + assert!(file.find_by_id("claim-001").is_some()); + assert!(file.find_by_id("nonexistent").is_none()); + } + + #[test] + fn test_find_by_category() { + let mut file = ClaimsFile::new(); + let mut arch_claim = sample_claim("arch-001"); + arch_claim.category = "architecture".to_string(); + + file.add(sample_claim("safety-001")); + file.add(arch_claim); + + assert_eq!(file.find_by_category("safety").len(), 1); + assert_eq!(file.find_by_category("architecture").len(), 1); + assert_eq!(file.find_by_category("imports").len(), 0); + } + + #[test] + fn test_find_by_status() { + let mut file = ClaimsFile::new(); + let mut dep_claim = sample_claim("dep-001"); + dep_claim.status = ClaimStatus::Deprecated; + + file.add(sample_claim("active-001")); + file.add(dep_claim); + + assert_eq!(file.find_by_status(&ClaimStatus::Active).len(), 1); + assert_eq!(file.find_by_status(&ClaimStatus::Deprecated).len(), 1); + } + + #[test] + fn test_update() { + let mut file = ClaimsFile::new(); + file.add(sample_claim("claim-001")); + + file.update("claim-001", |c| { + c.provenance = "Updated provenance".to_string(); + c.updated_at = Some("2026-02-08T13:00:00Z".to_string()); + }) + .expect("update claim"); + + assert_eq!(file.find_by_id("claim-001").map(|c| c.provenance.as_str()), Some("Updated provenance")); + } + + #[test] + fn test_update_not_found() { + let mut file = ClaimsFile::new(); + assert!(file.update("nonexistent", |_| {}).is_err()); + } + + #[test] + fn test_supersede() { + let mut file = ClaimsFile::new(); + file.add(sample_claim("claim-001")); + + let mut new_claim = sample_claim("claim-002"); + new_claim.supersedes = Some("claim-001".to_string()); + new_claim.provenance = "Updated analysis".to_string(); + + file.supersede("claim-001", new_claim).expect("supersede"); + + assert_eq!(file.find_by_id("claim-001").map(|c| &c.status), Some(&ClaimStatus::Superseded)); + assert_eq!(file.find_by_id("claim-002").map(|c| c.supersedes.as_deref()), Some(Some("claim-001"))); + } + + #[test] + fn test_deprecate() { + let mut file = ClaimsFile::new(); + file.add(sample_claim("claim-001")); + + file.deprecate("claim-001", "2026-02-08T14:00:00Z").expect("deprecate"); + + let claim = file.find_by_id("claim-001").expect("find"); + assert_eq!(claim.status, ClaimStatus::Deprecated); + assert_eq!(claim.updated_at.as_deref(), Some("2026-02-08T14:00:00Z")); + } + + #[test] + fn test_load_nonexistent() { + let temp_dir = TempDir::new().expect("create temp dir"); + let path = temp_dir.path().join("nonexistent.toml"); + + let file = ClaimsFile::load(&path).expect("load should succeed"); + assert!(file.is_empty()); + } +} diff --git a/applications/aphoria/src/cli/claims.rs b/applications/aphoria/src/cli/claims.rs new file mode 100644 index 0000000..56cd52b --- /dev/null +++ b/applications/aphoria/src/cli/claims.rs @@ -0,0 +1,168 @@ +//! CLI subcommands for authored claims management. + +use std::path::PathBuf; + +use clap::Subcommand; + +/// Subcommands for managing authored claims. +#[derive(Subcommand)] +pub enum ClaimsCommands { + /// Create a new authored claim + Create { + /// Human-readable claim ID (e.g., "wallet-seqcst-001") + #[arg(long)] + id: String, + + /// Concept path (e.g., "maxwell/wallet/atomics/ordering") + #[arg(long)] + concept_path: String, + + /// Predicate (e.g., "required_ordering") + #[arg(long)] + predicate: String, + + /// Value (parsed as bool, number, or text) + #[arg(long)] + value: String, + + /// Provenance (e.g., "Safety analysis by lead developer") + #[arg(long)] + provenance: String, + + /// Invariant (e.g., "All wallet atomics MUST use SeqCst") + #[arg(long)] + invariant: String, + + /// Consequence of violation (e.g., "Double-spend race condition") + #[arg(long)] + consequence: String, + + /// Authority tier: regulatory, clinical, observational, expert, community, anecdotal + #[arg(long)] + tier: String, + + /// Supporting evidence (can be specified multiple times) + #[arg(long)] + evidence: Vec, + + /// Category: safety, architecture, imports, constants, derives, etc. + #[arg(long)] + category: String, + + /// Author name + #[arg(long)] + by: String, + }, + + /// List authored claims + List { + /// Filter by category + #[arg(long)] + category: Option, + + /// Filter by status (active, deprecated, superseded) + #[arg(long)] + status: Option, + + /// Output format: table or json + #[arg(long, default_value = "table")] + format: String, + }, + + /// Generate claims-explained markdown + Explain { + /// Specific claim ID to explain (omit for all claims) + #[arg(long)] + claim: Option, + + /// Output file path (default: stdout) + #[arg(short, long)] + output: Option, + + /// Output format: markdown or json + #[arg(long, default_value = "markdown")] + format: String, + }, + + /// Update fields on an existing claim + Update { + /// Claim ID to update + id: String, + + /// New provenance + #[arg(long)] + provenance: Option, + + /// New invariant + #[arg(long)] + invariant: Option, + + /// New consequence + #[arg(long)] + consequence: Option, + + /// New authority tier + #[arg(long)] + tier: Option, + + /// Additional evidence (appended) + #[arg(long)] + evidence: Vec, + + /// New category + #[arg(long)] + category: Option, + + /// New value + #[arg(long)] + value: Option, + }, + + /// Create a new claim that supersedes an existing one + Supersede { + /// ID of the claim to supersede + id: String, + + /// New claim ID + #[arg(long)] + new_id: Option, + + /// New value + #[arg(long)] + value: Option, + + /// New provenance + #[arg(long)] + provenance: Option, + + /// New invariant + #[arg(long)] + invariant: Option, + + /// New consequence + #[arg(long)] + consequence: Option, + + /// New authority tier + #[arg(long)] + tier: Option, + + /// New evidence + #[arg(long)] + evidence: Vec, + + /// Author name + #[arg(long)] + by: Option, + }, + + /// Mark a claim as deprecated + Deprecate { + /// Claim ID to deprecate + id: String, + + /// Reason for deprecation + #[arg(long)] + reason: String, + }, +} diff --git a/applications/aphoria/src/cli/mod.rs b/applications/aphoria/src/cli/mod.rs index 5a3174c..ae11ea4 100644 --- a/applications/aphoria/src/cli/mod.rs +++ b/applications/aphoria/src/cli/mod.rs @@ -7,17 +7,21 @@ //! - `patterns`: Pattern and Eval commands //! - `scope`: Scope commands +mod claims; mod extractors; mod governance; mod lifecycle; mod patterns; mod scope; +mod verify; +pub use claims::ClaimsCommands; pub use extractors::ExtractorCommands; pub use governance::{AuditCommands, GovernanceCommands}; pub use lifecycle::{LifecycleCommands, MigrationCommands}; pub use patterns::{EvalCommands, PatternCommands}; pub use scope::ScopeCommands; +pub use verify::VerifyCommands; use std::path::PathBuf; @@ -31,6 +35,7 @@ use clap::{Parser, Subcommand}; #[derive(Parser)] #[command(name = "aphoria")] #[command(version, about, long_about = None)] +#[command(after_help = "Examples:\n aphoria scan Scan current directory\n aphoria scan --format sarif Output for IDE integration\n aphoria scan --strict Stricter conflict thresholds\n aphoria verify run Check code against claims\n aphoria coverage Show claim density per module\n aphoria explain Onboarding summary")] pub struct Cli { /// Path to aphoria.toml configuration file #[arg(short, long, global = true)] @@ -208,6 +213,94 @@ pub enum Commands { #[command(subcommand)] command: AuditCommands, }, + + /// Manage human-authored claims (create, list, explain, update, supersede, deprecate) + Claims { + #[command(subcommand)] + command: ClaimsCommands, + }, + + /// Verify code against authored claims + Verify { + #[command(subcommand)] + command: VerifyCommands, + }, + + /// Show claim coverage metrics per module + Coverage { + /// Path to the project root + #[arg(default_value = ".")] + path: PathBuf, + + /// Output format: table, json, markdown + #[arg(short, long, default_value = "table")] + format: String, + + /// Sort modules by: name, density, unclaimed, observations + #[arg(long, default_value = "name")] + sort_by: String, + }, + + /// Generate a narrative explanation of this project's claims (onboarding) + Explain { + /// Path to the project root + #[arg(default_value = ".")] + path: PathBuf, + + /// Write output to a file instead of stdout + #[arg(short, long)] + output: Option, + + /// Output format: markdown or json + #[arg(long, default_value = "markdown")] + format: String, + }, + + /// Generate enhanced documentation from claims + verification + Docs { + #[command(subcommand)] + command: DocsCommands, + }, + + /// Manage curated Trust Packs (install, list) + TrustPack { + #[command(subcommand)] + command: TrustPackCommands, + }, +} + +#[derive(Subcommand)] +pub enum TrustPackCommands { + /// Install a curated Trust Pack by name + Install { + /// Pack name (e.g., "security-hardening", "rfc-compliance", "owasp-top10") + name: String, + + /// Custom registry URL (overrides built-in registry) + #[arg(long)] + registry: Option, + }, + + /// List available curated Trust Packs + List, +} + +#[derive(Subcommand)] +pub enum DocsCommands { + /// Generate a claims overview document + Generate { + /// Path to the project root + #[arg(default_value = ".")] + path: PathBuf, + + /// Output path (default: stdout) + #[arg(short, long)] + output: Option, + + /// Output format: markdown or json + #[arg(long, default_value = "markdown")] + format: String, + }, } #[derive(Subcommand)] @@ -260,6 +353,25 @@ pub enum CorpusCommands { /// List available corpus sources List, + + /// Export the corpus as a signed Trust Pack + ExportPack { + /// Name for the exported pack + #[arg(long)] + name: String, + + /// Output path for the .pack file + #[arg(short, long)] + output: PathBuf, + + /// Only include specific corpus sources (comma-separated) + #[arg(long)] + only: Option, + + /// Run in offline mode (skip sources requiring network) + #[arg(long)] + offline: bool, + }, } #[derive(Subcommand)] diff --git a/applications/aphoria/src/cli/verify.rs b/applications/aphoria/src/cli/verify.rs new file mode 100644 index 0000000..3591390 --- /dev/null +++ b/applications/aphoria/src/cli/verify.rs @@ -0,0 +1,47 @@ +//! CLI definitions for the `aphoria verify` command. + +use std::path::PathBuf; + +use clap::Subcommand; + +/// Verify commands for checking code against authored claims. +#[derive(Subcommand)] +pub enum VerifyCommands { + /// Run verification: check observations against authored claims + Run { + /// Path to the project root + #[arg(default_value = ".")] + path: PathBuf, + + /// Output format: table or json + #[arg(short, long, default_value = "table")] + format: String, + + /// Exit with non-zero code on conflicts + #[arg(long)] + exit_code: bool, + + /// Only scan staged/changed files (for pre-commit hooks) + #[arg(long)] + changed_only: bool, + + /// Include UNCLAIMED observations in output + #[arg(long)] + show_unclaimed: bool, + + /// Filter to specific claim IDs (comma-separated) + #[arg(long, value_delimiter = ',')] + claim: Vec, + + /// Filter by category + #[arg(long)] + category: Option, + }, + + /// Show claim-to-extractor mapping + Map { + /// Path to the project root + #[arg(default_value = ".")] + path: PathBuf, + }, +} diff --git a/applications/aphoria/src/community/anonymizer.rs b/applications/aphoria/src/community/anonymizer.rs index 8345ee7..fabde90 100644 --- a/applications/aphoria/src/community/anonymizer.rs +++ b/applications/aphoria/src/community/anonymizer.rs @@ -14,7 +14,7 @@ use blake3::Hasher; use crate::config::CommunityConfig; -use crate::types::ExtractedClaim; +use crate::types::Observation; use super::types::{AnonymizedObservation, CommunityObjectValue}; @@ -34,7 +34,7 @@ use super::types::{AnonymizedObservation, CommunityObjectValue}; /// The anon_hash specifically excludes file, line, and matched_text /// to prevent re-identification of the source location. pub fn anonymize_claim( - claim: &ExtractedClaim, + claim: &Observation, config: &CommunityConfig, timestamp: u64, ) -> Option { @@ -213,8 +213,8 @@ mod tests { predicate: &str, value: ObjectValue, confidence: f32, - ) -> ExtractedClaim { - ExtractedClaim { + ) -> Observation { + Observation { concept_path: concept_path.to_string(), predicate: predicate.to_string(), value, diff --git a/applications/aphoria/src/config/defaults.rs b/applications/aphoria/src/config/defaults.rs index 4dd41d2..380e3dd 100644 --- a/applications/aphoria/src/config/defaults.rs +++ b/applications/aphoria/src/config/defaults.rs @@ -5,7 +5,7 @@ use std::path::PathBuf; use super::types::{ AliasConfig, AutonomousConfig, CommunityConfig, CorpusConfig, DepVersionConfig, EntropyConfig, EpistemeConfig, ExtractorConfig, HostedConfig, LearningConfig, LlmConfig, OfflineFallback, - PromotionConfig, ScanConfig, SyncMode, ThresholdConfig, TimeoutExtractorConfig, + PromotionConfig, ScanConfig, SelfAuditConfig, SyncMode, ThresholdConfig, TimeoutExtractorConfig, DEFAULT_LLM_MODEL, }; @@ -78,6 +78,7 @@ impl Default for ExtractorConfig { disabled: vec![], timeout_config: TimeoutExtractorConfig::default(), dep_versions: DepVersionConfig::default(), + self_audit: SelfAuditConfig::default(), entropy: EntropyConfig::default(), declarative: vec![], } diff --git a/applications/aphoria/src/config/types/extractors.rs b/applications/aphoria/src/config/types/extractors.rs index 4aec367..b76dd33 100644 --- a/applications/aphoria/src/config/types/extractors.rs +++ b/applications/aphoria/src/config/types/extractors.rs @@ -22,6 +22,9 @@ pub struct ExtractorConfig { /// Dependency version extractor settings. pub dep_versions: DepVersionConfig, + /// Self-audit extractor settings (opt-in, for dogfooding). + pub self_audit: SelfAuditConfig, + /// High-entropy secrets extractor settings. pub entropy: EntropyConfig, @@ -73,6 +76,16 @@ pub struct DepVersionConfig { pub advisory_db: PathBuf, } +/// Self-audit extractor configuration (opt-in). +#[derive(Debug, Clone, Default, Deserialize)] +#[serde(default)] +pub struct SelfAuditConfig { + /// Enable self-audit extraction (opt-in). + /// + /// Default: false. Enable this to dogfood Aphoria on its own codebase. + pub enabled: bool, +} + /// High-entropy secrets extractor configuration. /// /// Controls the entropy thresholds used to detect potential secrets. diff --git a/applications/aphoria/src/config/types/mod.rs b/applications/aphoria/src/config/types/mod.rs index 43300ae..effac53 100644 --- a/applications/aphoria/src/config/types/mod.rs +++ b/applications/aphoria/src/config/types/mod.rs @@ -40,7 +40,9 @@ pub use cross_project::CrossProjectConfig; #[allow(unused_imports)] pub use eval::EvalConfig; #[allow(unused_imports)] -pub use extractors::{DepVersionConfig, EntropyConfig, ExtractorConfig, TimeoutExtractorConfig}; +pub use extractors::{ + DepVersionConfig, EntropyConfig, ExtractorConfig, SelfAuditConfig, TimeoutExtractorConfig, +}; #[allow(unused_imports)] pub use governance::GovernanceConfig; #[allow(unused_imports)] diff --git a/applications/aphoria/src/corpus/owasp/mod.rs b/applications/aphoria/src/corpus/owasp/mod.rs index b3c4691..809d754 100644 --- a/applications/aphoria/src/corpus/owasp/mod.rs +++ b/applications/aphoria/src/corpus/owasp/mod.rs @@ -33,7 +33,7 @@ use tracing::{debug, info, instrument, warn}; use super::CorpusBuilder; use crate::config::CorpusConfig; -use crate::episteme::create_authoritative_assertion; +use crate::episteme::{create_authoritative_assertion_with_metadata}; use crate::AphoriaError; use parsers::parse_cheatsheet; @@ -156,7 +156,15 @@ fn fetch_and_parse_cheatsheet( let assertions = recommendations .into_iter() .map(|rec| { - create_authoritative_assertion( + // Build extra metadata with OWASP cheatsheet name and CWE references + let mut extra = serde_json::json!({ + "owasp_cheatsheet": filename, + }); + if !rec.cwe_references.is_empty() { + extra["cwe_references"] = serde_json::json!(rec.cwe_references); + } + + create_authoritative_assertion_with_metadata( signing_key, &rec.subject, &rec.predicate, @@ -164,6 +172,7 @@ fn fetch_and_parse_cheatsheet( SourceClass::Clinical, // Tier 1 &rec.description, timestamp, + extra, ) }) .collect(); diff --git a/applications/aphoria/src/corpus/owasp/parsers.rs b/applications/aphoria/src/corpus/owasp/parsers.rs index 14329e3..2aab6c2 100644 --- a/applications/aphoria/src/corpus/owasp/parsers.rs +++ b/applications/aphoria/src/corpus/owasp/parsers.rs @@ -16,6 +16,8 @@ pub(super) struct Recommendation { pub value: ObjectValue, /// Human-readable description. pub description: String, + /// CWE references (e.g., ["CWE-89", "CWE-78"]). + pub cwe_references: Vec, } /// Parse security recommendations from cheat sheet markdown. @@ -50,6 +52,7 @@ fn parse_authentication_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Multi-factor authentication SHOULD be implemented".to_string(), + cwe_references: vec!["CWE-308".to_string()], }); } @@ -60,6 +63,7 @@ fn parse_authentication_sheet(content: &str) -> Vec { predicate: "config_value".to_string(), value: ObjectValue::Number(8.0), description: "OWASP: Minimum password length of 8 characters".to_string(), + cwe_references: vec!["CWE-521".to_string()], }); } @@ -71,6 +75,7 @@ fn parse_authentication_sheet(content: &str) -> Vec { value: ObjectValue::Boolean(true), description: "OWASP: Account lockout SHOULD be enabled for brute force protection" .to_string(), + cwe_references: vec!["CWE-307".to_string()], }); } @@ -81,6 +86,7 @@ fn parse_authentication_sheet(content: &str) -> Vec { predicate: "config_value".to_string(), value: ObjectValue::Text("bcrypt_or_argon2".to_string()), description: "OWASP: Use bcrypt or Argon2 for password hashing".to_string(), + cwe_references: vec!["CWE-916".to_string()], }); } @@ -98,6 +104,7 @@ fn parse_jwt_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: JWT algorithm MUST be validated server-side".to_string(), + cwe_references: vec!["CWE-347".to_string()], }); } @@ -108,6 +115,7 @@ fn parse_jwt_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), description: "OWASP: JWT 'none' algorithm MUST be rejected".to_string(), + cwe_references: vec!["CWE-347".to_string()], }); } @@ -118,6 +126,7 @@ fn parse_jwt_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: JWT expiration MUST be validated".to_string(), + cwe_references: vec!["CWE-347".to_string()], }); } @@ -128,6 +137,7 @@ fn parse_jwt_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: JWT signatures MUST be verified".to_string(), + cwe_references: vec!["CWE-347".to_string()], }); } @@ -145,6 +155,7 @@ fn parse_tls_sheet(content: &str) -> Vec { predicate: "config_value".to_string(), value: ObjectValue::Text("TLS1.2".to_string()), description: "OWASP: Minimum TLS version should be 1.2".to_string(), + cwe_references: vec!["CWE-295".to_string()], }); } @@ -155,6 +166,7 @@ fn parse_tls_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: TLS certificates MUST be verified".to_string(), + cwe_references: vec!["CWE-295".to_string()], }); } @@ -165,6 +177,7 @@ fn parse_tls_sheet(content: &str) -> Vec { predicate: "config_value".to_string(), value: ObjectValue::Text("strong_ciphers_only".to_string()), description: "OWASP: Only strong cipher suites should be enabled".to_string(), + cwe_references: vec!["CWE-295".to_string()], }); } @@ -175,6 +188,7 @@ fn parse_tls_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: HSTS header SHOULD be enabled".to_string(), + cwe_references: vec!["CWE-295".to_string()], }); } @@ -192,6 +206,7 @@ fn parse_secrets_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), description: "OWASP: Secrets MUST NOT be hardcoded".to_string(), + cwe_references: vec!["CWE-798".to_string()], }); } @@ -203,6 +218,7 @@ fn parse_secrets_sheet(content: &str) -> Vec { value: ObjectValue::Text("environment_or_vault".to_string()), description: "OWASP: Secrets SHOULD be stored in environment variables or vault" .to_string(), + cwe_references: vec!["CWE-798".to_string()], }); } @@ -213,6 +229,7 @@ fn parse_secrets_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Secrets SHOULD be rotated regularly".to_string(), + cwe_references: vec!["CWE-798".to_string()], }); } @@ -223,6 +240,7 @@ fn parse_secrets_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Secrets SHOULD be encrypted at rest".to_string(), + cwe_references: vec!["CWE-798".to_string()], }); } @@ -240,6 +258,7 @@ fn parse_input_validation_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Input validation MUST be performed server-side".to_string(), + cwe_references: vec!["CWE-20".to_string()], }); } @@ -250,6 +269,7 @@ fn parse_input_validation_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Prefer allowlist over denylist for input validation".to_string(), + cwe_references: vec!["CWE-20".to_string()], }); } @@ -260,6 +280,7 @@ fn parse_input_validation_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Use parameterized queries to prevent SQL injection".to_string(), + cwe_references: vec!["CWE-89".to_string()], }); } @@ -270,6 +291,7 @@ fn parse_input_validation_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Output encoding MUST be used to prevent XSS".to_string(), + cwe_references: vec!["CWE-79".to_string()], }); } @@ -287,6 +309,7 @@ fn parse_session_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Session cookies MUST have Secure flag".to_string(), + cwe_references: vec!["CWE-614".to_string()], }); } @@ -297,6 +320,7 @@ fn parse_session_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Session cookies MUST have HttpOnly flag".to_string(), + cwe_references: vec!["CWE-1004".to_string()], }); } @@ -307,6 +331,7 @@ fn parse_session_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Session timeout SHOULD be configured".to_string(), + cwe_references: vec!["CWE-613".to_string()], }); } @@ -317,6 +342,7 @@ fn parse_session_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Session ID SHOULD be regenerated after authentication".to_string(), + cwe_references: vec!["CWE-384".to_string()], }); } @@ -334,6 +360,7 @@ fn parse_csrf_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: CSRF tokens SHOULD be used".to_string(), + cwe_references: vec!["CWE-352".to_string()], }); } @@ -344,6 +371,7 @@ fn parse_csrf_sheet(content: &str) -> Vec { predicate: "config_value".to_string(), value: ObjectValue::Text("Strict".to_string()), description: "OWASP: SameSite cookie attribute SHOULD be Strict or Lax".to_string(), + cwe_references: vec!["CWE-352".to_string()], }); } @@ -354,6 +382,7 @@ fn parse_csrf_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Origin header SHOULD be validated".to_string(), + cwe_references: vec!["CWE-352".to_string()], }); } @@ -372,6 +401,7 @@ fn parse_password_storage_sheet(content: &str) -> Vec { value: ObjectValue::Text("Argon2id".to_string()), description: "OWASP: Argon2id is the recommended password hashing algorithm" .to_string(), + cwe_references: vec!["CWE-916".to_string()], }); } @@ -382,6 +412,7 @@ fn parse_password_storage_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Passwords MUST be salted before hashing".to_string(), + cwe_references: vec!["CWE-916".to_string()], }); } @@ -392,6 +423,7 @@ fn parse_password_storage_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Password hashing work factor SHOULD be configured".to_string(), + cwe_references: vec!["CWE-916".to_string()], }); } @@ -409,6 +441,7 @@ fn parse_http_headers_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Content-Security-Policy header SHOULD be set".to_string(), + cwe_references: vec!["CWE-1021".to_string()], }); } @@ -419,6 +452,7 @@ fn parse_http_headers_sheet(content: &str) -> Vec { predicate: "config_value".to_string(), value: ObjectValue::Text("nosniff".to_string()), description: "OWASP: X-Content-Type-Options SHOULD be 'nosniff'".to_string(), + cwe_references: vec!["CWE-16".to_string()], }); } @@ -429,6 +463,7 @@ fn parse_http_headers_sheet(content: &str) -> Vec { predicate: "config_value".to_string(), value: ObjectValue::Text("DENY".to_string()), description: "OWASP: X-Frame-Options SHOULD be 'DENY' or 'SAMEORIGIN'".to_string(), + cwe_references: vec!["CWE-1021".to_string()], }); } @@ -439,6 +474,7 @@ fn parse_http_headers_sheet(content: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OWASP: Referrer-Policy header SHOULD be set".to_string(), + cwe_references: vec!["CWE-16".to_string()], }); } @@ -458,6 +494,7 @@ fn parse_generic_sheet(content: &str, topic: &str) -> Vec { predicate: "required".to_string(), value: ObjectValue::Boolean(true), description: format!("OWASP {}: {}", topic, truncate_description(&slug, 100)), + cwe_references: vec![], }); } for (i, cap) in should_pattern.captures_iter(content).enumerate().take(5) { @@ -467,6 +504,7 @@ fn parse_generic_sheet(content: &str, topic: &str) -> Vec { predicate: "recommended".to_string(), value: ObjectValue::Boolean(true), description: format!("OWASP {}: {}", topic, truncate_description(&slug, 100)), + cwe_references: vec![], }); } recs diff --git a/applications/aphoria/src/corpus/rfc/mod.rs b/applications/aphoria/src/corpus/rfc/mod.rs index f379b69..f51c1f9 100644 --- a/applications/aphoria/src/corpus/rfc/mod.rs +++ b/applications/aphoria/src/corpus/rfc/mod.rs @@ -35,7 +35,7 @@ use tracing::{debug, info, instrument, warn}; use super::CorpusBuilder; use crate::config::CorpusConfig; -use crate::episteme::create_authoritative_assertion; +use crate::episteme::create_authoritative_assertion_with_metadata; use crate::AphoriaError; use parsers::parse_normative_statements; @@ -142,7 +142,15 @@ fn fetch_and_parse_rfc( let assertions = statements .into_iter() .map(|stmt| { - create_authoritative_assertion( + // Build extra metadata with RFC number and optional section reference + let mut extra = serde_json::json!({ + "rfc_number": rfc_num, + }); + if let Some(section) = &stmt.section_reference { + extra["rfc_section"] = serde_json::Value::String(section.clone()); + } + + create_authoritative_assertion_with_metadata( signing_key, &stmt.subject, &stmt.predicate, @@ -150,6 +158,7 @@ fn fetch_and_parse_rfc( SourceClass::Regulatory, // Tier 0 &stmt.description, timestamp, + extra, ) }) .collect(); diff --git a/applications/aphoria/src/corpus/rfc/parsers.rs b/applications/aphoria/src/corpus/rfc/parsers.rs index 5b73e3c..5ffaad8 100644 --- a/applications/aphoria/src/corpus/rfc/parsers.rs +++ b/applications/aphoria/src/corpus/rfc/parsers.rs @@ -18,6 +18,8 @@ pub(super) struct NormativeStatement { pub value: ObjectValue, /// Human-readable description. pub description: String, + /// RFC section reference (e.g., "Section 4.1.3"). + pub section_reference: Option, } /// Parse normative statements from RFC text. @@ -55,6 +57,7 @@ fn parse_rfc7519_jwt(text: &str) -> Vec { value: ObjectValue::Boolean(true), description: "JWT audience claim MUST be validated (RFC 7519 Section 4.1.3)" .to_string(), + section_reference: Some("Section 4.1.3".to_string()), }); } @@ -65,6 +68,7 @@ fn parse_rfc7519_jwt(text: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "JWT expiry claim MUST be validated (RFC 7519 Section 4.1.4)".to_string(), + section_reference: Some("Section 4.1.4".to_string()), }); } @@ -75,6 +79,7 @@ fn parse_rfc7519_jwt(text: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "JWT signatures MUST be verified (RFC 7519)".to_string(), + section_reference: None, }); } @@ -86,6 +91,7 @@ fn parse_rfc7519_jwt(text: &str) -> Vec { value: ObjectValue::Text("explicit_list".to_string()), description: "JWT algorithm MUST be explicitly specified, 'none' algorithm forbidden" .to_string(), + section_reference: None, }); } @@ -97,6 +103,7 @@ fn parse_rfc7519_jwt(text: &str) -> Vec { value: ObjectValue::Boolean(true), description: "JWT not-before claim MUST be validated (RFC 7519 Section 4.1.5)" .to_string(), + section_reference: Some("Section 4.1.5".to_string()), }); } @@ -108,6 +115,7 @@ fn parse_rfc7519_jwt(text: &str) -> Vec { value: ObjectValue::Boolean(true), description: "JWT issuer claim SHOULD be validated for application-specific purposes" .to_string(), + section_reference: Some("Section 4.1.1".to_string()), }); } @@ -125,6 +133,7 @@ fn parse_rfc6749_oauth(text: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OAuth redirect_uri MUST be validated exactly (RFC 6749)".to_string(), + section_reference: None, }); } @@ -136,6 +145,7 @@ fn parse_rfc6749_oauth(text: &str) -> Vec { value: ObjectValue::Boolean(true), description: "OAuth state parameter SHOULD be used for CSRF protection (RFC 6749)" .to_string(), + section_reference: None, }); } @@ -146,6 +156,7 @@ fn parse_rfc6749_oauth(text: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OAuth scope MUST be validated (RFC 6749)".to_string(), + section_reference: None, }); } @@ -156,6 +167,7 @@ fn parse_rfc6749_oauth(text: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "OAuth endpoints MUST use TLS (RFC 6749)".to_string(), + section_reference: None, }); } @@ -173,6 +185,7 @@ fn parse_rfc6750_bearer(text: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "Bearer tokens MUST be transmitted over TLS (RFC 6750)".to_string(), + section_reference: None, }); } @@ -183,6 +196,7 @@ fn parse_rfc6750_bearer(text: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "Bearer tokens MUST be stored securely (RFC 6750)".to_string(), + section_reference: None, }); } @@ -200,6 +214,7 @@ fn parse_rfc8446_tls13(text: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "TLS certificate chains MUST be verified (RFC 8446)".to_string(), + section_reference: None, }); } @@ -210,6 +225,7 @@ fn parse_rfc8446_tls13(text: &str) -> Vec { predicate: "config_value".to_string(), value: ObjectValue::Text("TLS_AES_128_GCM_SHA256,TLS_AES_256_GCM_SHA384".to_string()), description: "TLS 1.3 cipher suites (RFC 8446)".to_string(), + section_reference: None, }); } @@ -219,6 +235,7 @@ fn parse_rfc8446_tls13(text: &str) -> Vec { predicate: "config_value".to_string(), value: ObjectValue::Text("TLS1.3".to_string()), description: "TLS 1.3 is the minimum recommended version (RFC 8446)".to_string(), + section_reference: None, }); statements @@ -235,6 +252,7 @@ fn parse_rfc7525_tls_practices(text: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "TLS hostname MUST be verified (RFC 7525)".to_string(), + section_reference: None, }); } @@ -245,6 +263,7 @@ fn parse_rfc7525_tls_practices(text: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "TLS certificate revocation SHOULD be checked (RFC 7525)".to_string(), + section_reference: None, }); } @@ -255,6 +274,7 @@ fn parse_rfc7525_tls_practices(text: &str) -> Vec { predicate: "disabled".to_string(), value: ObjectValue::Boolean(true), description: "SSLv2 and SSLv3 MUST NOT be used (RFC 7525)".to_string(), + section_reference: None, }); } @@ -272,6 +292,7 @@ fn parse_rfc6238_totp(text: &str) -> Vec { predicate: "config_value".to_string(), value: ObjectValue::Number(30.0), description: "TOTP time step SHOULD be 30 seconds (RFC 6238)".to_string(), + section_reference: None, }); } @@ -283,6 +304,7 @@ fn parse_rfc6238_totp(text: &str) -> Vec { value: ObjectValue::Number(1.0), description: "TOTP validation window SHOULD allow 1 step tolerance (RFC 6238)" .to_string(), + section_reference: None, }); } @@ -293,6 +315,7 @@ fn parse_rfc6238_totp(text: &str) -> Vec { predicate: "config_value".to_string(), value: ObjectValue::Number(160.0), description: "TOTP secret key SHOULD be at least 160 bits (RFC 6238)".to_string(), + section_reference: None, }); } @@ -310,6 +333,7 @@ fn parse_rfc7617_basic_auth(text: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "HTTP Basic Auth MUST use TLS (RFC 7617)".to_string(), + section_reference: None, }); } @@ -320,6 +344,7 @@ fn parse_rfc7617_basic_auth(text: &str) -> Vec { predicate: "config_value".to_string(), value: ObjectValue::Text("UTF-8".to_string()), description: "HTTP Basic Auth credentials SHOULD use UTF-8 (RFC 7617)".to_string(), + section_reference: None, }); } @@ -337,6 +362,7 @@ fn parse_rfc9110_http(text: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "HTTP timeouts SHOULD be configured (RFC 9110)".to_string(), + section_reference: None, }); } @@ -347,6 +373,7 @@ fn parse_rfc9110_http(text: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "HTTP/1.1 Host header MUST be present (RFC 9110)".to_string(), + section_reference: None, }); } @@ -357,6 +384,7 @@ fn parse_rfc9110_http(text: &str) -> Vec { predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), description: "HTTP Content-Length SHOULD be validated (RFC 9110)".to_string(), + section_reference: None, }); } @@ -386,6 +414,7 @@ fn parse_generic_rfc(text: &str, rfc_num: u32) -> Vec { predicate: if is_mandatory { "required" } else { "recommended" }.to_string(), value: ObjectValue::Boolean(true), description: format!("RFC {} {} requirement: {}", rfc_num, keyword, topic), + section_reference: None, }); } } diff --git a/applications/aphoria/src/corpus_build.rs b/applications/aphoria/src/corpus_build.rs index 05f5809..5d7bca0 100644 --- a/applications/aphoria/src/corpus_build.rs +++ b/applications/aphoria/src/corpus_build.rs @@ -1,11 +1,14 @@ //! Corpus building operations - fetching and ingesting authoritative sources. +use std::path::PathBuf; + use crate::bridge; use crate::config::AphoriaConfig; use crate::corpus::{CorpusBuildResult, CorpusBuilderInfo, CorpusRegistry}; use crate::current_timestamp; use crate::episteme; use crate::error::AphoriaError; +use crate::policy::TrustPack; use tracing::{info, instrument}; /// Arguments for corpus build command. @@ -82,3 +85,63 @@ pub fn list_corpus_sources(config: &AphoriaConfig) -> Vec { let registry = CorpusRegistry::with_defaults(&config.corpus); registry.list_builders() } + +/// Export the corpus as a signed Trust Pack. +/// +/// Builds the corpus from configured sources and packages it as a +/// distributable Trust Pack that can be imported into other projects. +#[instrument(skip(config), fields(name = %name, output = %output.display()))] +pub async fn export_corpus_as_pack( + name: String, + output: PathBuf, + only: Option>, + offline: bool, + config: &AphoriaConfig, +) -> Result { + info!("Exporting corpus as Trust Pack"); + + let project_root = std::env::current_dir()?; + + // Build corpus config based on --only flag + let mut corpus_config = config.corpus.clone(); + if let Some(only) = &only { + corpus_config.include_hardcoded = only.iter().any(|s| s == "hardcoded"); + corpus_config.include_rfc = only.iter().any(|s| s == "rfc"); + corpus_config.include_owasp = only.iter().any(|s| s == "owasp"); + corpus_config.include_vendor = only.iter().any(|s| s == "vendor"); + } + + // Create registry and build + let registry = CorpusRegistry::with_defaults(&corpus_config); + let signing_key = bridge::load_or_generate_key(&project_root)?; + let timestamp = current_timestamp(); + + let result = registry.build_all(&signing_key, timestamp, &corpus_config, offline)?; + + if result.assertions.is_empty() { + return Err(AphoriaError::Config("No assertions built — nothing to export".to_string())); + } + + let assertion_count = result.assertions.len(); + + // Include predicate aliases from config + let predicate_aliases: Vec = + config.predicate_aliases.to_alias_sets().iter().map(crate::policy::PackPredicateAliasSet::from).collect(); + + // Package as Trust Pack + let pack = TrustPack::new_with_predicate_aliases( + name, + "0.1.0".to_string(), + result.assertions, + vec![], // No aliases for corpus packs + predicate_aliases, + &signing_key, + config.trust_pack.signer_name.clone(), + config.trust_pack.contact.clone(), + )?; + + pack.save(&output)?; + + info!(assertions = assertion_count, output = %output.display(), "Corpus exported as Trust Pack"); + Ok(assertion_count) +} diff --git a/applications/aphoria/src/coverage.rs b/applications/aphoria/src/coverage.rs new file mode 100644 index 0000000..bb18c97 --- /dev/null +++ b/applications/aphoria/src/coverage.rs @@ -0,0 +1,575 @@ +//! Claim coverage metrics engine. +//! +//! Computes per-module coverage: how many observations are claimed, +//! how many claims are verified, what's uncovered. Uses `verify_claims()` +//! as the source of truth for claim-observation matching. + +use std::collections::BTreeMap; + +use serde::Serialize; + +use crate::types::authored_claim::AuthoredClaim; +use crate::types::Observation; +use crate::verify::{tail_path, verify_claims, AuditVerdict, VerifyReport}; + +/// Per-module coverage metrics. +#[derive(Debug, Clone, Serialize)] +pub struct ModuleCoverage { + /// Module path (e.g., "wallet/atomics", "tls"). + pub module_path: String, + /// Files belonging to this module. + pub files: Vec, + /// Total observations found by extractors in this module. + pub observation_count: usize, + /// Active authored claims covering this module. + pub claim_count: usize, + /// Observations matched by at least one claim. + pub claimed_observations: usize, + /// Observations with no covering claim. + pub unclaimed_observations: usize, + /// Claims with no matching observation (MISSING verdicts). + pub missing_claims: usize, + /// Claim density: claim_count / observation_count (0.0 if no observations). + pub density: f32, +} + +/// Full coverage report for a project. +#[derive(Debug, Clone, Serialize)] +pub struct CoverageReport { + /// Project name. + pub project: String, + /// Per-module metrics, sorted by module path. + pub modules: Vec, + /// Aggregate summary. + pub summary: CoverageSummary, +} + +/// Aggregate coverage summary. +#[derive(Debug, Clone, Serialize)] +pub struct CoverageSummary { + /// Total observations across all modules. + pub total_observations: usize, + /// Total active claims. + pub total_claims: usize, + /// Percentage of observations covered by claims. + pub claimed_percentage: f32, + /// Count of observations with no covering claim. + pub unclaimed_count: usize, + /// Number of modules that have at least one claim. + pub modules_with_claims: usize, + /// Number of modules with zero claims. + pub modules_without_claims: usize, +} + +/// Derive a module path from a file path. +/// +/// Takes the first 2 directory segments after stripping common prefixes like `src/`. +/// Examples: +/// - `src/wallet/atomics/sync.rs` → `wallet/atomics` +/// - `src/tls/config.rs` → `tls` +/// - `config.toml` → `(root)` +fn derive_module(file_path: &str) -> String { + let path = file_path + .strip_prefix("src/") + .or_else(|| file_path.strip_prefix("lib/")) + .unwrap_or(file_path); + + let segments: Vec<&str> = path.split('/').filter(|s| !s.is_empty()).collect(); + + // Take directory segments only (skip the filename) + let dir_segments: Vec<&str> = if segments.len() > 1 { + segments[..segments.len() - 1].to_vec() + } else { + return "(root)".to_string(); + }; + + // Take up to 2 directory segments + let module_depth = dir_segments.len().min(2); + if module_depth == 0 { + "(root)".to_string() + } else { + dir_segments[..module_depth].join("/") + } +} + +/// Derive a module path from a claim's concept_path. +/// +/// Uses `tail_path` to get the last 2 segments, then takes the first segment +/// as the module. For claims without a valid tail path, uses the full concept_path. +fn derive_module_from_claim(concept_path: &str) -> String { + if let Some(tp) = tail_path(concept_path) { + // tail_path gives us "penultimate/last" — use the penultimate as module + if let Some(slash) = tp.find('/') { + tp[..slash].to_string() + } else { + tp + } + } else { + // Fallback: strip scheme, use what we have + let path = concept_path + .find("://") + .map(|i| &concept_path[i + 3..]) + .unwrap_or(concept_path); + path.to_string() + } +} + +/// Compute coverage metrics from claims, observations, and verification results. +pub fn compute_coverage( + claims: &[AuthoredClaim], + observations: &[Observation], + project_name: &str, +) -> CoverageReport { + let report = verify_claims(claims, observations); + compute_coverage_from_report(claims, observations, &report, project_name) +} + +/// Compute coverage from pre-computed verification report. +/// +/// Useful when the caller already has a `VerifyReport` and doesn't want +/// to re-run verification. +pub fn compute_coverage_from_report( + claims: &[AuthoredClaim], + observations: &[Observation], + report: &VerifyReport, + project_name: &str, +) -> CoverageReport { + // Group observations by module (from file path) + let mut obs_by_module: BTreeMap> = BTreeMap::new(); + for obs in observations { + let module = derive_module(&obs.file); + obs_by_module.entry(module).or_default().push(obs); + } + + // Build claim-to-module mapping from verification results. + // For claims with matching observations (Pass/Conflict), derive the module + // from the observation's file path so claims land in the same bucket as + // their observations. For Missing claims, fall back to concept_path. + let mut claim_to_module: std::collections::HashMap = + std::collections::HashMap::new(); + let mut claimed_tails: std::collections::HashSet = std::collections::HashSet::new(); + let mut missing_claim_ids: std::collections::HashSet = std::collections::HashSet::new(); + + for result in &report.results { + match result.verdict { + AuditVerdict::Pass | AuditVerdict::Conflict => { + if let Some(ref claim) = result.claim { + if let Some(tp) = tail_path(&claim.concept_path) { + claimed_tails.insert(tp); + } + // Derive module from the first matching observation's file path + if let Some(obs) = result.matching_observations.first() { + claim_to_module.insert(claim.id.clone(), derive_module(&obs.file)); + } + } + } + AuditVerdict::Missing => { + if let Some(ref claim) = result.claim { + missing_claim_ids.insert(claim.id.clone()); + } + } + AuditVerdict::Unclaimed => {} + } + } + + // Group claims by module, using observation-derived module when available + let mut claims_by_module: BTreeMap> = BTreeMap::new(); + for claim in claims { + if claim.status == crate::types::ClaimStatus::Active { + let module = claim_to_module + .get(&claim.id) + .cloned() + .unwrap_or_else(|| derive_module_from_claim(&claim.concept_path)); + claims_by_module.entry(module).or_default().push(claim); + } + } + + // Collect all module names from both observations and claims + let mut all_modules: std::collections::BTreeSet = std::collections::BTreeSet::new(); + for key in obs_by_module.keys() { + all_modules.insert(key.clone()); + } + for key in claims_by_module.keys() { + all_modules.insert(key.clone()); + } + + // Build per-module coverage + let mut modules = Vec::new(); + let mut total_observations = 0usize; + let mut total_claimed = 0usize; + let mut total_unclaimed = 0usize; + let mut modules_with_claims = 0usize; + let mut modules_without_claims = 0usize; + + for module in &all_modules { + let obs_list = obs_by_module.get(module); + let claim_list = claims_by_module.get(module); + + let observation_count = obs_list.map(|v| v.len()).unwrap_or(0); + let claim_count = claim_list.map(|v| v.len()).unwrap_or(0); + + // Count how many observations in this module are claimed + let claimed_obs = obs_list + .map(|obs| { + obs.iter() + .filter(|o| { + tail_path(&o.concept_path) + .map(|tp| claimed_tails.contains(&tp)) + .unwrap_or(false) + }) + .count() + }) + .unwrap_or(0); + + let unclaimed_obs = observation_count.saturating_sub(claimed_obs); + + // Count missing claims in this module + let missing_in_module = claim_list + .map(|cls| { + cls.iter() + .filter(|c| missing_claim_ids.contains(&c.id)) + .count() + }) + .unwrap_or(0); + + let density = if observation_count > 0 { + claim_count as f32 / observation_count as f32 + } else { + 0.0 + }; + + // Collect unique files in this module + let files: Vec = obs_list + .map(|obs| { + let mut file_set: std::collections::BTreeSet = std::collections::BTreeSet::new(); + for o in obs { + file_set.insert(o.file.clone()); + } + file_set.into_iter().collect() + }) + .unwrap_or_default(); + + if claim_count > 0 { + modules_with_claims += 1; + } else { + modules_without_claims += 1; + } + + total_observations += observation_count; + total_claimed += claimed_obs; + total_unclaimed += unclaimed_obs; + + modules.push(ModuleCoverage { + module_path: module.clone(), + files, + observation_count, + claim_count, + claimed_observations: claimed_obs, + unclaimed_observations: unclaimed_obs, + missing_claims: missing_in_module, + density, + }); + } + + let active_claims = claims + .iter() + .filter(|c| c.status == crate::types::ClaimStatus::Active) + .count(); + + let claimed_percentage = if total_observations > 0 { + (total_claimed as f32 / total_observations as f32) * 100.0 + } else { + 0.0 + }; + + CoverageReport { + project: project_name.to_string(), + modules, + summary: CoverageSummary { + total_observations, + total_claims: active_claims, + claimed_percentage, + unclaimed_count: total_unclaimed, + modules_with_claims, + modules_without_claims, + }, + } +} + +/// Format coverage report as a terminal table. +pub fn format_coverage_table(report: &CoverageReport, sort_by: &str) -> String { + let mut out = String::new(); + + out.push_str(&format!("Aphoria Coverage: {}\n\n", report.project)); + + if report.modules.is_empty() { + out.push_str("No observations or claims found.\n"); + return out; + } + + let mut modules = report.modules.clone(); + match sort_by { + "unclaimed" => modules.sort_by(|a, b| b.unclaimed_observations.cmp(&a.unclaimed_observations)), + "observations" => modules.sort_by(|a, b| b.observation_count.cmp(&a.observation_count)), + "density" => modules.sort_by(|a, b| { + b.density.partial_cmp(&a.density) + .unwrap_or(std::cmp::Ordering::Equal) + .then_with(|| b.observation_count.cmp(&a.observation_count)) + }), + _ => {} // default: alphabetical (already sorted by BTreeMap) + } + + let mut table = comfy_table::Table::new(); + table.set_header(vec![ + "Module", + "Claims", + "Observations", + "Claimed", + "Unclaimed", + "Missing", + "Density", + ]); + + for m in &modules { + table.add_row(vec![ + m.module_path.clone(), + m.claim_count.to_string(), + m.observation_count.to_string(), + m.claimed_observations.to_string(), + m.unclaimed_observations.to_string(), + m.missing_claims.to_string(), + format!("{:.1}%", m.density * 100.0), + ]); + } + + out.push_str(&table.to_string()); + out.push_str(&format!( + "\n\nSummary: {} claims, {} observations, {:.1}% claimed, {} unclaimed", + report.summary.total_claims, + report.summary.total_observations, + report.summary.claimed_percentage, + report.summary.unclaimed_count, + )); + out.push_str(&format!( + "\nModules: {} with claims, {} without claims", + report.summary.modules_with_claims, report.summary.modules_without_claims, + )); + + out +} + +/// Format coverage report as JSON. +pub fn format_coverage_json(report: &CoverageReport) -> String { + serde_json::to_string_pretty(report).unwrap_or_else(|_| "{}".to_string()) +} + +/// Format coverage report as markdown. +pub fn format_coverage_markdown(report: &CoverageReport) -> String { + let mut out = String::new(); + + out.push_str(&format!("# Aphoria Coverage: {}\n\n", report.project)); + + out.push_str("## Summary\n\n"); + out.push_str(&format!( + "- **Claims:** {}\n- **Observations:** {}\n- **Claimed:** {:.1}%\n- **Unclaimed:** {}\n- **Modules with claims:** {}\n- **Modules without claims:** {}\n\n", + report.summary.total_claims, + report.summary.total_observations, + report.summary.claimed_percentage, + report.summary.unclaimed_count, + report.summary.modules_with_claims, + report.summary.modules_without_claims, + )); + + if report.modules.is_empty() { + out.push_str("No observations or claims found.\n"); + return out; + } + + out.push_str("## Modules\n\n"); + out.push_str("| Module | Claims | Observations | Claimed | Unclaimed | Missing | Density |\n"); + out.push_str("|--------|--------|--------------|---------|-----------|---------|----------|\n"); + + for m in &report.modules { + out.push_str(&format!( + "| {} | {} | {} | {} | {} | {} | {:.1}% |\n", + m.module_path, + m.claim_count, + m.observation_count, + m.claimed_observations, + m.unclaimed_observations, + m.missing_claims, + m.density * 100.0, + )); + } + + // Highlight modules with 0 claims + let uncovered: Vec<&ModuleCoverage> = report + .modules + .iter() + .filter(|m| m.claim_count == 0 && m.observation_count > 0) + .collect(); + + if !uncovered.is_empty() { + out.push_str("\n## Coverage Gaps\n\n"); + out.push_str("These modules have observations but no authored claims:\n\n"); + for m in uncovered { + out.push_str(&format!( + "- **{}** ({} unclaimed observations)\n", + m.module_path, m.unclaimed_observations, + )); + } + } + + out +} + +#[cfg(test)] +mod tests { + use super::*; + use crate::types::authored_claim::{AuthoredValue, ClaimStatus, ComparisonMode}; + use stemedb_core::types::ObjectValue; + + fn make_claim(id: &str, concept_path: &str, category: &str) -> AuthoredClaim { + AuthoredClaim { + id: id.to_string(), + concept_path: concept_path.to_string(), + predicate: "test".to_string(), + value: AuthoredValue::Text("test".to_string()), + comparison: ComparisonMode::Equals, + provenance: "test".to_string(), + invariant: "test".to_string(), + consequence: "test".to_string(), + authority_tier: "expert".to_string(), + evidence: vec![], + category: category.to_string(), + status: ClaimStatus::Active, + supersedes: None, + created_by: "tester".to_string(), + created_at: "2026-02-08".to_string(), + updated_at: None, + } + } + + fn make_obs(concept_path: &str, file: &str) -> Observation { + Observation { + concept_path: concept_path.to_string(), + predicate: "test".to_string(), + value: ObjectValue::Text("test".to_string()), + file: file.to_string(), + line: 1, + matched_text: "test".to_string(), + confidence: 1.0, + description: "test".to_string(), + } + } + + #[test] + fn test_derive_module() { + assert_eq!(derive_module("src/wallet/atomics/sync.rs"), "wallet/atomics"); + assert_eq!(derive_module("src/tls/config.rs"), "tls"); + assert_eq!(derive_module("config.toml"), "(root)"); + assert_eq!(derive_module("src/main.rs"), "(root)"); + assert_eq!(derive_module("src/auth/jwt/token.rs"), "auth/jwt"); + } + + #[test] + fn test_derive_module_from_claim() { + assert_eq!( + derive_module_from_claim("project/wallet/atomics/ordering"), + "atomics" + ); + assert_eq!( + derive_module_from_claim("code://rust/core/imports/tokio"), + "imports" + ); + } + + #[test] + fn test_compute_coverage_empty() { + let report = compute_coverage(&[], &[], "test"); + assert_eq!(report.summary.total_observations, 0); + assert_eq!(report.summary.total_claims, 0); + assert_eq!(report.summary.claimed_percentage, 0.0); + } + + #[test] + fn test_compute_coverage_with_matches() { + let claims = vec![make_claim( + "c1", + "project/atomics/ordering", + "safety", + )]; + let observations = vec![ + make_obs("code://rust/project/atomics/ordering", "src/wallet/atomics/sync.rs"), + make_obs("code://rust/project/tls/config", "src/tls/config.rs"), + ]; + + let report = compute_coverage(&claims, &observations, "test"); + assert_eq!(report.summary.total_claims, 1); + assert_eq!(report.summary.total_observations, 2); + assert!(report.summary.unclaimed_count > 0); + } + + #[test] + fn test_coverage_table_output() { + let claims = vec![make_claim("c1", "project/atomics/ordering", "safety")]; + let observations = vec![make_obs( + "code://rust/project/atomics/ordering", + "src/wallet/atomics/sync.rs", + )]; + let report = compute_coverage(&claims, &observations, "myproject"); + let table = format_coverage_table(&report, "name"); + assert!(table.contains("Aphoria Coverage: myproject")); + assert!(table.contains("Summary:")); + } + + #[test] + fn test_coverage_json_output() { + let report = compute_coverage(&[], &[], "test"); + let json = format_coverage_json(&report); + let parsed: serde_json::Value = + serde_json::from_str(&json).expect("valid json"); + assert_eq!(parsed["project"], "test"); + } + + #[test] + fn test_coverage_markdown_output() { + let report = compute_coverage(&[], &[], "test"); + let md = format_coverage_markdown(&report); + assert!(md.starts_with("# Aphoria Coverage: test")); + } + + #[test] + fn test_deprecated_claims_excluded() { + let mut claim = make_claim("c1", "project/atomics/ordering", "safety"); + claim.status = ClaimStatus::Deprecated; + let report = compute_coverage(&[claim], &[], "test"); + assert_eq!(report.summary.total_claims, 0); + } + + #[test] + fn test_claims_map_to_observation_modules() { + // Claim concept_path and observation concept_path share tail "atomics/ordering" + let claims = vec![make_claim("c1", "project/atomics/ordering", "safety")]; + let observations = vec![ + make_obs("code://rust/project/atomics/ordering", "src/wallet/atomics/sync.rs"), + ]; + + let report = compute_coverage(&claims, &observations, "test"); + + // The claim should land in "wallet/atomics" (from observation file path), + // NOT "atomics" (from concept_path tail). This means the module should + // have both a claim and an observation with non-zero density. + let wallet_mod = report + .modules + .iter() + .find(|m| m.module_path == "wallet/atomics"); + assert!(wallet_mod.is_some(), "Expected wallet/atomics module"); + let Some(wallet_mod) = wallet_mod else { + panic!("wallet/atomics module not found"); + }; + assert_eq!(wallet_mod.claim_count, 1); + assert_eq!(wallet_mod.observation_count, 1); + assert!(wallet_mod.density > 0.0, "density should be non-zero"); + } +} diff --git a/applications/aphoria/src/episteme/authority_lens.rs b/applications/aphoria/src/episteme/authority_lens.rs new file mode 100644 index 0000000..4a06029 --- /dev/null +++ b/applications/aphoria/src/episteme/authority_lens.rs @@ -0,0 +1,218 @@ +//! Aphoria Authority Lens - formalizes the authority-based conflict scoring. +//! +//! Wraps the existing scoring formula from `conflict.rs` into a proper +//! `stemedb_lens::Lens` implementation. This allows the authority resolution +//! logic to be used as a first-class Lens in Episteme queries. + +use stemedb_core::types::{Assertion, SourceClass}; +use stemedb_lens::{Lens, Resolution}; + +use crate::types::TierBreakdown; + +/// Authority-based lens that resolves conflicts by source class tier. +/// +/// Higher-authority sources (lower tier numbers) win. Uses the same formula +/// as `compute_conflict_score()` in `conflict.rs`: +/// +/// ```text +/// normalized = 0.4 + (3.0 - min_tier) / 3.0 * 0.55 +/// ``` +/// +/// Tier 0 (Regulatory) produces score ~0.95, Tier 3 (Expert) produces ~0.40. +pub struct AphoriaAuthorityLens; + +impl Lens for AphoriaAuthorityLens { + fn resolve(&self, candidates: &[Assertion]) -> Resolution { + if candidates.is_empty() { + return Resolution::empty(); + } + + if candidates.len() == 1 { + return Resolution::with_winner(candidates[0].clone(), 1, 1.0, 0.0); + } + + // Group by tier, pick the winner from the highest-authority (lowest tier) group + let mut best_tier = u8::MAX; + let mut best_assertion: Option<&Assertion> = None; + let mut best_confidence: f32 = 0.0; + + for assertion in candidates { + let tier = assertion.source_class.tier(); + if tier < best_tier || (tier == best_tier && assertion.confidence > best_confidence) { + best_tier = tier; + best_assertion = Some(assertion); + best_confidence = assertion.confidence; + } + } + + let winner = match best_assertion { + Some(a) => a.clone(), + None => return Resolution::empty(), + }; + + // Compute conflict score using the same formula as conflict.rs + let conflict_score = authority_conflict_score(candidates); + + // Resolution confidence is based on how dominant the winning tier is + let min_tier = best_tier as f32; + let resolution_confidence = 0.4 + (3.0 - min_tier.min(3.0)) / 3.0 * 0.55; + + Resolution::with_winner( + winner, + candidates.len(), + resolution_confidence.min(1.0), + conflict_score, + ) + } + + fn name(&self) -> &'static str { + "AphoriaAuthority" + } +} + +/// Compute cross-tier conflict score for a set of assertions. +/// +/// Uses the same normalized formula as `conflict.rs:compute_conflict_score()`: +/// `normalized = 0.4 + (3.0 - min_tier) / 3.0 * 0.55` +/// +/// Returns 0.0 if all assertions are the same tier, higher values when +/// high-authority sources (Tier 0) conflict with low-authority (Tier 3+). +fn authority_conflict_score(candidates: &[Assertion]) -> f32 { + if candidates.len() <= 1 { + return 0.0; + } + + let min_tier = candidates.iter().map(|a| a.source_class.tier()).min().unwrap_or(3); + let max_tier = candidates.iter().map(|a| a.source_class.tier()).max().unwrap_or(3); + + if min_tier == max_tier { + return 0.0; // Same tier, no authority conflict + } + + // Tier distance maps to conflict intensity + let tier_distance = (max_tier - min_tier) as f32; + (tier_distance / 5.0).min(1.0) // Max 5 tiers apart (0-5) +} + +/// Compute tier breakdown from a set of assertions. +/// +/// Returns a sorted (by tier) list of tier breakdowns. +pub fn compute_tier_breakdown(assertions: &[Assertion]) -> Vec { + use std::collections::BTreeMap; + + let mut by_tier: BTreeMap = BTreeMap::new(); + + for assertion in assertions { + let tier = assertion.source_class.tier(); + let entry = by_tier.entry(tier).or_insert((assertion.source_class, 0, 0.0)); + entry.1 += 1; + if assertion.confidence > entry.2 { + entry.2 = assertion.confidence; + } + } + + by_tier + .into_iter() + .map(|(tier, (source_class, count, max_conf))| TierBreakdown { + tier, + source_class, + assertion_count: count, + max_confidence: max_conf, + }) + .collect() +} + +#[cfg(test)] +mod tests { + use super::*; + use stemedb_core::testing::AssertionBuilder; + + #[test] + fn test_empty_candidates() { + let lens = AphoriaAuthorityLens; + let result = lens.resolve(&[]); + assert!(result.winner.is_none()); + assert_eq!(result.candidates_count, 0); + } + + #[test] + fn test_single_candidate() { + let lens = AphoriaAuthorityLens; + let assertion = AssertionBuilder::new() + .source_class(SourceClass::Regulatory) + .confidence(0.95) + .build(); + let result = lens.resolve(&[assertion]); + assert!(result.winner.is_some()); + assert_eq!(result.candidates_count, 1); + } + + #[test] + fn test_authority_wins_over_lower_tier() { + let lens = AphoriaAuthorityLens; + let regulatory = AssertionBuilder::new() + .subject("rfc://test") + .source_class(SourceClass::Regulatory) + .confidence(0.9) + .build(); + let community = AssertionBuilder::new() + .subject("code://test") + .source_class(SourceClass::Community) + .confidence(1.0) + .build(); + + let result = lens.resolve(&[community, regulatory]); + let winner = result.winner.as_ref().expect("should have winner"); + assert_eq!(winner.source_class, SourceClass::Regulatory); + assert_eq!(result.candidates_count, 2); + } + + #[test] + fn test_lens_scores_match_existing() { + // Verify the normalized formula matches conflict.rs expectations + // Tier 0 vs code → ~0.95 + let regulatory = AssertionBuilder::new() + .source_class(SourceClass::Regulatory) + .confidence(1.0) + .build(); + let community = AssertionBuilder::new() + .source_class(SourceClass::Community) + .confidence(1.0) + .build(); + + let lens = AphoriaAuthorityLens; + let result = lens.resolve(&[regulatory, community]); + + // Resolution confidence for Tier 0 winner should be ~0.95 + assert!( + result.resolution_confidence > 0.9, + "Expected >0.9, got {}", + result.resolution_confidence + ); + } + + #[test] + fn test_tier_breakdown() { + let assertions = vec![ + AssertionBuilder::new() + .source_class(SourceClass::Regulatory) + .confidence(0.95) + .build(), + AssertionBuilder::new() + .source_class(SourceClass::Regulatory) + .confidence(0.9) + .build(), + AssertionBuilder::new() + .source_class(SourceClass::Community) + .confidence(0.7) + .build(), + ]; + + let breakdown = compute_tier_breakdown(&assertions); + assert_eq!(breakdown.len(), 2); + assert_eq!(breakdown[0].tier, 0); // Regulatory + assert_eq!(breakdown[0].assertion_count, 2); + assert!((breakdown[0].max_confidence - 0.95).abs() < f32::EPSILON); + assert_eq!(breakdown[1].assertion_count, 1); + } +} diff --git a/applications/aphoria/src/episteme/conflict.rs b/applications/aphoria/src/episteme/conflict.rs index 055c813..605a82e 100644 --- a/applications/aphoria/src/episteme/conflict.rs +++ b/applications/aphoria/src/episteme/conflict.rs @@ -10,7 +10,7 @@ use tracing::info; use crate::config::AphoriaConfig; use crate::types::{ - ConflictResult, ConflictTrace, ConflictingSource, ExtractedClaim, PolicySourceInfo, + ConflictResult, ConflictTrace, ConflictingSource, Observation, PolicySourceInfo, PredicateAliasSet, Verdict, }; @@ -37,7 +37,7 @@ use super::concept_index::ConceptIndex; /// This version uses predicate aliases from config only. #[allow(dead_code)] pub fn check_conflicts_pure( - claims: &[ExtractedClaim], + claims: &[Observation], index: &ConceptIndex, aliases: &HashMap, pack_sources: &HashMap, @@ -62,7 +62,7 @@ pub fn check_conflicts_pure( /// This variant allows passing predicate aliases explicitly, which is useful /// when aliases come from multiple sources (config + Trust Packs). pub fn check_conflicts_with_predicate_aliases( - claims: &[ExtractedClaim], + claims: &[Observation], index: &ConceptIndex, aliases: &HashMap, pack_sources: &HashMap, @@ -179,6 +179,36 @@ pub fn check_conflicts_with_predicate_aliases( None }; + // Compute tier breakdown in debug mode + let tier_breakdown = if debug { + use std::collections::BTreeMap; + let mut by_tier: BTreeMap = BTreeMap::new(); + for source in &conflicts { + let tier = source.source_class.tier(); + let entry = + by_tier.entry(tier).or_insert((source.source_class, 0, 0.0)); + entry.1 += 1; + if source.confidence > entry.2 { + entry.2 = source.confidence; + } + } + Some( + by_tier + .into_iter() + .map(|(tier, (sc, count, max_conf))| { + crate::types::TierBreakdown { + tier, + source_class: sc, + assertion_count: count, + max_confidence: max_conf, + } + }) + .collect(), + ) + } else { + None + }; + results.push(ConflictResult { claim: claim.clone(), conflicts, @@ -186,6 +216,7 @@ pub fn check_conflicts_with_predicate_aliases( verdict, acknowledged: None, trace, + tier_breakdown, }); } diff --git a/applications/aphoria/src/episteme/corpus.rs b/applications/aphoria/src/episteme/corpus.rs index f38b5c3..6eaa235 100644 --- a/applications/aphoria/src/episteme/corpus.rs +++ b/applications/aphoria/src/episteme/corpus.rs @@ -156,6 +156,72 @@ pub fn create_authoritative_corpus(signing_key: &SigningKey) -> Vec { assertions } +/// Create a signed authoritative assertion with additional metadata fields. +/// +/// Like `create_authoritative_assertion`, but merges `extra_metadata` into the +/// `source_metadata` JSON. Use this to attach RFC section references, CWE IDs, +/// or other structured provenance data. +#[allow(clippy::too_many_arguments)] +pub fn create_authoritative_assertion_with_metadata( + signing_key: &SigningKey, + subject: &str, + predicate: &str, + object: ObjectValue, + source_class: SourceClass, + description: &str, + timestamp: u64, + extra_metadata: serde_json::Value, +) -> Assertion { + // Compute source hash + let mut hasher = Hasher::new(); + hasher.update(subject.as_bytes()); + hasher.update(predicate.as_bytes()); + hasher.update(description.as_bytes()); + let source_hash = *hasher.finalize().as_bytes(); + + // Create signature + let message = format!("{}:{}", subject, predicate); + let signature = signing_key.sign(message.as_bytes()); + let verifying_key = signing_key.verifying_key(); + + let signature_entry = SignatureEntry { + agent_id: verifying_key.to_bytes(), + signature: signature.to_bytes(), + timestamp, + version: 1, + }; + + // Build source_metadata: start with extras, then overwrite with base fields + // so that base fields ("description", "source") can never be overridden. + let mut metadata = if let serde_json::Value::Object(extra) = extra_metadata { + serde_json::Value::Object(extra) + } else { + serde_json::json!({}) + }; + if let serde_json::Value::Object(ref mut map) = metadata { + map.insert("description".to_string(), serde_json::Value::String(description.to_string())); + map.insert("source".to_string(), serde_json::Value::String("authoritative_corpus".to_string())); + } + + Assertion { + subject: subject.to_string(), + predicate: predicate.to_string(), + object, + parent_hash: None, + source_hash, + source_class, + visual_hash: None, + epoch: None, + source_metadata: serde_json::to_vec(&metadata).ok(), + lifecycle: LifecycleStage::Approved, + signatures: vec![signature_entry], + confidence: 1.0, + timestamp, + hlc_timestamp: HlcTimestamp::default(), + vector: None, + } +} + /// Create a signed authoritative assertion. /// /// This helper is used by corpus builders to create signed assertions with @@ -211,3 +277,104 @@ pub fn create_authoritative_assertion( vector: None, } } + +#[cfg(test)] +mod tests { + use super::*; + use ed25519_dalek::SigningKey; + + #[test] + fn test_create_authoritative_assertion_with_metadata_merges_fields() { + let signing_key = SigningKey::generate(&mut rand::rngs::OsRng); + let timestamp = current_timestamp(); + + let extra_metadata = serde_json::json!({ + "rfc_section": "7519-4.1.3", + "cwe_references": ["CWE-345", "CWE-346"], + "severity": "high" + }); + + let assertion = create_authoritative_assertion_with_metadata( + &signing_key, + "rfc://test/subject", + "test_predicate", + ObjectValue::Boolean(true), + SourceClass::Regulatory, + "Test description", + timestamp, + extra_metadata, + ); + + // Extract and parse source_metadata + let metadata_bytes = assertion.source_metadata.expect("metadata should exist"); + let metadata: serde_json::Value = + serde_json::from_slice(&metadata_bytes).expect("should parse JSON"); + + // Verify base fields are present + assert_eq!(metadata["description"], "Test description"); + assert_eq!(metadata["source"], "authoritative_corpus"); + + // Verify extra fields are merged + assert_eq!(metadata["rfc_section"], "7519-4.1.3"); + assert_eq!(metadata["cwe_references"][0], "CWE-345"); + assert_eq!(metadata["cwe_references"][1], "CWE-346"); + assert_eq!(metadata["severity"], "high"); + } + + #[test] + fn test_create_authoritative_assertion_with_metadata_preserves_base_fields() { + let signing_key = SigningKey::generate(&mut rand::rngs::OsRng); + let timestamp = current_timestamp(); + + // Extra metadata shouldn't overwrite base fields if key collision + let extra_metadata = serde_json::json!({ + "description": "Malicious override attempt", + "custom_field": "allowed" + }); + + let assertion = create_authoritative_assertion_with_metadata( + &signing_key, + "rfc://test/subject", + "test_predicate", + ObjectValue::Boolean(true), + SourceClass::Regulatory, + "Original description", + timestamp, + extra_metadata, + ); + + let metadata_bytes = assertion.source_metadata.expect("metadata should exist"); + let metadata: serde_json::Value = + serde_json::from_slice(&metadata_bytes).expect("should parse JSON"); + + // Base fields always win over extra metadata + assert_eq!(metadata["description"], "Original description"); + assert_eq!(metadata["source"], "authoritative_corpus"); + assert_eq!(metadata["custom_field"], "allowed"); + } + + #[test] + fn test_create_authoritative_assertion_with_empty_metadata() { + let signing_key = SigningKey::generate(&mut rand::rngs::OsRng); + let timestamp = current_timestamp(); + + let assertion = create_authoritative_assertion_with_metadata( + &signing_key, + "rfc://test/subject", + "test_predicate", + ObjectValue::Boolean(true), + SourceClass::Regulatory, + "Test description", + timestamp, + serde_json::json!({}), + ); + + let metadata_bytes = assertion.source_metadata.expect("metadata should exist"); + let metadata: serde_json::Value = + serde_json::from_slice(&metadata_bytes).expect("should parse JSON"); + + // Should still have base fields + assert_eq!(metadata["description"], "Test description"); + assert_eq!(metadata["source"], "authoritative_corpus"); + } +} diff --git a/applications/aphoria/src/episteme/drift.rs b/applications/aphoria/src/episteme/drift.rs index b5026ed..849ec26 100644 --- a/applications/aphoria/src/episteme/drift.rs +++ b/applications/aphoria/src/episteme/drift.rs @@ -5,7 +5,7 @@ use stemedb_core::types::Assertion; use tracing::{debug, info, instrument}; -use crate::types::{predicates, DriftResult, ExtractedClaim, Verdict}; +use crate::types::{predicates, DriftResult, Observation, Verdict}; use crate::AphoriaError; use super::helpers::assertion_to_prior_observation; @@ -22,7 +22,7 @@ impl LocalEpisteme { #[instrument(skip(self, claims), fields(claim_count = claims.len()))] pub async fn check_drift( &self, - claims: &[ExtractedClaim], + claims: &[Observation], ) -> Result, AphoriaError> { let mut drifts = Vec::new(); diff --git a/applications/aphoria/src/episteme/ephemeral.rs b/applications/aphoria/src/episteme/ephemeral.rs index 6f0c852..9cad8bb 100644 --- a/applications/aphoria/src/episteme/ephemeral.rs +++ b/applications/aphoria/src/episteme/ephemeral.rs @@ -13,7 +13,7 @@ use tracing::{info, instrument, warn}; use crate::config::{AphoriaConfig, CorpusConfig}; use crate::corpus::CorpusRegistry; use crate::policy::TrustPack; -use crate::types::{ConflictResult, ExtractedClaim, PolicySourceInfo, PredicateAliasSet}; +use crate::types::{ConflictResult, Observation, PolicySourceInfo, PredicateAliasSet}; use super::concept_index::ConceptIndex; use super::conflict::check_conflicts_with_predicate_aliases; @@ -213,7 +213,7 @@ impl EphemeralDetector { /// Vector of conflict results, with debug traces populated based on config. pub fn check_conflicts( &self, - claims: &[ExtractedClaim], + claims: &[Observation], config: &AphoriaConfig, ) -> Vec { // Merge predicate aliases from config and from imported packs @@ -236,7 +236,7 @@ impl EphemeralDetector { /// Like `check_conflicts`, but populates `ConflictTrace` for each result. pub fn check_conflicts_debug( &self, - claims: &[ExtractedClaim], + claims: &[Observation], config: &AphoriaConfig, ) -> Vec { // Merge predicate aliases from config and from imported packs diff --git a/applications/aphoria/src/episteme/local/queries.rs b/applications/aphoria/src/episteme/local/queries.rs index c52c7a7..6a8c52d 100644 --- a/applications/aphoria/src/episteme/local/queries.rs +++ b/applications/aphoria/src/episteme/local/queries.rs @@ -8,7 +8,7 @@ use tracing::{debug, info, instrument, warn}; use crate::config::AphoriaConfig; use crate::types::{ - AcknowledgmentInfo, ConflictResult, ConflictingSource, ExtractedClaim, PolicySourceInfo, + AcknowledgmentInfo, ConflictResult, ConflictingSource, Observation, PolicySourceInfo, Verdict, }; use crate::AphoriaError; @@ -35,7 +35,7 @@ impl LocalEpisteme { #[instrument(skip(self, claims, config, index), fields(claim_count = claims.len()))] pub async fn check_conflicts( &self, - claims: &[ExtractedClaim], + claims: &[Observation], config: &AphoriaConfig, index: &ConceptIndex, ) -> Result, AphoriaError> { @@ -232,6 +232,7 @@ impl LocalEpisteme { verdict, acknowledged, trace: None, // Persistent mode doesn't populate traces (for now) + tier_breakdown: None, }); } diff --git a/applications/aphoria/src/episteme/local/store.rs b/applications/aphoria/src/episteme/local/store.rs index 4c5d6ee..e541ce2 100644 --- a/applications/aphoria/src/episteme/local/store.rs +++ b/applications/aphoria/src/episteme/local/store.rs @@ -7,8 +7,8 @@ use stemedb_ingest::serialize_assertion; use stemedb_storage::PredicateIndexStore; use tracing::{debug, info, instrument, warn}; -use crate::bridge::{claim_to_assertion, claim_to_observation}; -use crate::types::{predicates, ExtractedClaim}; +use crate::bridge::{claim_to_assertion, observation_to_assertion}; +use crate::types::{predicates, Observation}; use crate::AphoriaError; use super::super::corpus::current_timestamp; @@ -17,7 +17,7 @@ use super::LocalEpisteme; impl LocalEpisteme { /// Ingest a batch of extracted claims into Episteme. #[instrument(skip(self, claims), fields(claim_count = claims.len()))] - pub async fn ingest_claims(&self, claims: &[ExtractedClaim]) -> Result { + pub async fn ingest_claims(&self, claims: &[Observation]) -> Result { let timestamp = current_timestamp(); let mut ingested = 0; @@ -104,7 +104,7 @@ impl LocalEpisteme { #[instrument(skip(self, observations), fields(count = observations.len()))] pub async fn ingest_observations( &self, - observations: &[ExtractedClaim], + observations: &[Observation], ) -> Result { if observations.is_empty() { return Ok(0); @@ -114,7 +114,7 @@ impl LocalEpisteme { let mut count = 0; for claim in observations { - let assertion = claim_to_observation(claim, &self.signing_key, timestamp); + let assertion = observation_to_assertion(claim, &self.signing_key, timestamp); // Serialize and write to WAL let record_bytes = serialize_assertion(&assertion).map_err(|e| { @@ -165,12 +165,16 @@ impl LocalEpisteme { } /// Ingest authoritative assertions (RFC, OWASP, etc.). + /// + /// Writes assertions to WAL and adds them to the AUTHORITATIVE predicate index + /// so they are discoverable by `fetch_authoritative_assertions()` during scans. #[instrument(skip(self, assertions), fields(count = assertions.len()))] pub async fn ingest_authoritative( &self, assertions: &[Assertion], ) -> Result { let mut ingested = 0; + let mut hashes = Vec::with_capacity(assertions.len()); for assertion in assertions { let record_bytes = serialize_assertion(assertion).map_err(|e| { @@ -179,6 +183,11 @@ impl LocalEpisteme { assertion.subject )) })?; + + // Compute hash for predicate indexing (skip 8-byte header, same as Ingestor) + let hash = *blake3::hash(&record_bytes[8..]).as_bytes(); + hashes.push(hash); + let mut journal = self.journal.lock().await; journal.append(record_bytes).map_err(|e| { AphoriaError::Storage(format!( @@ -199,6 +208,18 @@ impl LocalEpisteme { AphoriaError::Storage(format!("Failed to process authoritative ingestion: {e}")) })?; + // Add all assertions to the AUTHORITATIVE predicate index + // This mirrors the pattern from policy_ops.rs import_policy() + for hash in &hashes { + if let Err(e) = self + .predicate_index_store + .add_to_predicate_index(predicates::AUTHORITATIVE, hash) + .await + { + warn!(hash = %hex::encode(hash), error = %e, "Failed to add to authoritative index"); + } + } + info!(ingested, "Ingested authoritative assertions"); Ok(ingested) } diff --git a/applications/aphoria/src/episteme/mod.rs b/applications/aphoria/src/episteme/mod.rs index 53e78f5..fc08ee5 100644 --- a/applications/aphoria/src/episteme/mod.rs +++ b/applications/aphoria/src/episteme/mod.rs @@ -7,6 +7,7 @@ //! - Auto-creating aliases when conflicts are detected (Phase 2A.3) mod aliases; +pub mod authority_lens; mod concept_index; mod conflict; mod corpus; @@ -21,12 +22,14 @@ mod tests; // Re-export public types and functions to maintain existing API pub use concept_index::ConceptIndex; pub use corpus::{ - create_authoritative_assertion, create_authoritative_corpus, current_timestamp, - current_timestamp_millis, + create_authoritative_assertion, create_authoritative_assertion_with_metadata, + create_authoritative_corpus, current_timestamp, current_timestamp_millis, }; pub use ephemeral::EphemeralDetector; pub use local::LocalEpisteme; +pub use authority_lens::{compute_tier_breakdown, AphoriaAuthorityLens}; + // Re-export for tests #[cfg(test)] pub use conflict::compute_conflict_score; diff --git a/applications/aphoria/src/episteme/tests.rs b/applications/aphoria/src/episteme/tests.rs index d5c7afa..d6fe04d 100644 --- a/applications/aphoria/src/episteme/tests.rs +++ b/applications/aphoria/src/episteme/tests.rs @@ -159,7 +159,7 @@ fn test_authoritative_corpus_creation() { #[tokio::test] async fn test_auto_alias_creation_on_conflict() { - use crate::types::ExtractedClaim; + use crate::types::Observation; use stemedb_storage::AliasStore; let temp_dir = @@ -182,7 +182,7 @@ async fn test_auto_alias_creation_on_conflict() { let index = ConceptIndex::build(&corpus); // Create a claim that will conflict with the authoritative corpus - let claim = ExtractedClaim { + let claim = Observation { concept_path: "code://rust/myapp/tls/cert_verification".to_string(), predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), // Conflicts with RFC (true) @@ -221,7 +221,7 @@ async fn test_auto_alias_creation_on_conflict() { #[tokio::test] async fn test_auto_alias_not_created_when_disabled() { - use crate::types::ExtractedClaim; + use crate::types::Observation; use stemedb_storage::AliasStore; let temp_dir = tempfile::Builder::new() @@ -242,7 +242,7 @@ async fn test_auto_alias_not_created_when_disabled() { let corpus = create_authoritative_corpus(&signing_key); let index = ConceptIndex::build(&corpus); - let claim = ExtractedClaim { + let claim = Observation { concept_path: "code://rust/myapp/tls/cert_verification".to_string(), predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), @@ -273,7 +273,7 @@ async fn test_auto_alias_not_created_when_disabled() { #[tokio::test] async fn test_auto_alias_uses_auto_detected_origin() { - use crate::types::ExtractedClaim; + use crate::types::Observation; use stemedb_storage::AliasStore; let temp_dir = @@ -292,7 +292,7 @@ async fn test_auto_alias_uses_auto_detected_origin() { let corpus = create_authoritative_corpus(&signing_key); let index = ConceptIndex::build(&corpus); - let claim = ExtractedClaim { + let claim = Observation { concept_path: "code://rust/myapp/jwt/audience_validation".to_string(), predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), @@ -324,7 +324,7 @@ async fn test_auto_alias_uses_auto_detected_origin() { #[tokio::test] async fn test_auto_alias_idempotent() { - use crate::types::ExtractedClaim; + use crate::types::Observation; use stemedb_storage::AliasStore; let temp_dir = tempfile::Builder::new() @@ -345,7 +345,7 @@ async fn test_auto_alias_idempotent() { let corpus = create_authoritative_corpus(&signing_key); let index = ConceptIndex::build(&corpus); - let claim = ExtractedClaim { + let claim = Observation { concept_path: "code://rust/myapp/tls/cert_verification".to_string(), predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), @@ -387,7 +387,7 @@ async fn test_auto_alias_idempotent() { #[tokio::test] async fn test_ingest_observations_creates_tier4_assertions() { - use crate::types::ExtractedClaim; + use crate::types::Observation; let temp_dir = tempfile::Builder::new().prefix("aphoria_observations").tempdir().expect("create temp dir"); @@ -402,7 +402,7 @@ async fn test_ingest_observations_creates_tier4_assertions() { // Create claims that would NOT conflict with authority let observations = vec![ - ExtractedClaim { + Observation { concept_path: "code://rust/myapp/logging/level".to_string(), predicate: "value".to_string(), value: ObjectValue::Text("info".to_string()), @@ -412,7 +412,7 @@ async fn test_ingest_observations_creates_tier4_assertions() { confidence: 0.9, description: "Logging level set to info".to_string(), }, - ExtractedClaim { + Observation { concept_path: "code://rust/myapp/db/pool_size".to_string(), predicate: "value".to_string(), value: ObjectValue::Number(10.0), diff --git a/applications/aphoria/src/error.rs b/applications/aphoria/src/error.rs index fc49fbf..05c0a04 100644 --- a/applications/aphoria/src/error.rs +++ b/applications/aphoria/src/error.rs @@ -140,4 +140,12 @@ pub enum AphoriaError { /// Governance workflow error (approval pending, rejected, or configuration issue). #[error("Governance error: {0}")] Governance(String), + + /// Claims authoring error (create, update, supersede, deprecate). + #[error("Claims error: {0}")] + Claims(String), + + /// Verification error (claim-to-observation matching). + #[error("Verify error: {0}")] + Verify(String), } diff --git a/applications/aphoria/src/eval/harness.rs b/applications/aphoria/src/eval/harness.rs index b55393c..d1fa852 100644 --- a/applications/aphoria/src/eval/harness.rs +++ b/applications/aphoria/src/eval/harness.rs @@ -24,7 +24,7 @@ use crate::config::EvalConfig; use crate::error::Result; use crate::llm::ontology::{AuthorityConcept, OntologyVocabulary, ValueType}; use crate::llm::{GeminiClient, LlmCache, LlmExtractor}; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Configuration for an evaluation run. #[derive(Debug, Clone)] @@ -436,7 +436,7 @@ impl EvalHarness { } /// Extract claims from fixture content. - fn extract_claims(&self, fixture: &Fixture) -> (Vec, usize, bool) { + fn extract_claims(&self, fixture: &Fixture) -> (Vec, usize, bool) { // In cached/live mode, we would call the LLM extractor // For now, return empty (mock behavior) until LLM is integrated if let Some(extractor) = &self.extractor { diff --git a/applications/aphoria/src/eval/matcher.rs b/applications/aphoria/src/eval/matcher.rs index 9329dbf..eefd376 100644 --- a/applications/aphoria/src/eval/matcher.rs +++ b/applications/aphoria/src/eval/matcher.rs @@ -9,13 +9,13 @@ use stemedb_core::types::ObjectValue; use tracing::debug; use super::fixture::ExpectedClaim; -use crate::types::ExtractedClaim; +use crate::types::Observation; /// Result of matching expected claims against extracted claims. #[derive(Debug, Clone, Default)] pub struct MatchResult { /// Expected claims that were found in extracted claims. - pub matched: Vec<(ExpectedClaim, ExtractedClaim)>, + pub matched: Vec<(ExpectedClaim, Observation)>, /// Expected claims that were NOT found. pub unmatched: Vec, @@ -57,7 +57,7 @@ impl ClaimMatcher { /// Returns matched and unmatched expected claims. pub fn check_must_contain( &self, - extracted: &[ExtractedClaim], + extracted: &[Observation], expected: &[ExpectedClaim], ) -> MatchResult { let mut matched = Vec::new(); @@ -79,9 +79,9 @@ impl ClaimMatcher { /// Returns violations: (forbidden claim, matched extracted claim). pub fn check_must_not_contain( &self, - extracted: &[ExtractedClaim], + extracted: &[Observation], forbidden: &[ExpectedClaim], - ) -> Vec<(ExpectedClaim, ExtractedClaim)> { + ) -> Vec<(ExpectedClaim, Observation)> { let mut violations = Vec::new(); for forbid in forbidden { @@ -96,9 +96,9 @@ impl ClaimMatcher { /// Find an extracted claim that matches an expected claim. fn find_matching_claim<'a>( &self, - extracted: &'a [ExtractedClaim], + extracted: &'a [Observation], expected: &ExpectedClaim, - ) -> Option<&'a ExtractedClaim> { + ) -> Option<&'a Observation> { extracted.iter().find(|claim| { self.subject_matches(&claim.concept_path, &expected.subject) && claim.predicate == expected.predicate @@ -196,7 +196,7 @@ impl ClaimMatcher { /// /// Extracted claims that don't match any expected claim. pub fn count_false_positives( - extracted: &[ExtractedClaim], + extracted: &[Observation], expected: &[ExpectedClaim], acceptable_variants: &[ExpectedClaim], matcher: &ClaimMatcher, @@ -219,8 +219,8 @@ pub fn count_false_positives( mod tests { use super::*; - fn make_extracted_claim(subject: &str, predicate: &str, value: ObjectValue) -> ExtractedClaim { - ExtractedClaim { + fn make_extracted_claim(subject: &str, predicate: &str, value: ObjectValue) -> Observation { + Observation { concept_path: subject.to_string(), predicate: predicate.to_string(), value, diff --git a/applications/aphoria/src/explain.rs b/applications/aphoria/src/explain.rs new file mode 100644 index 0000000..4797e70 --- /dev/null +++ b/applications/aphoria/src/explain.rs @@ -0,0 +1,530 @@ +//! Narrative explanation generation for project claims. +//! +//! Three distinct outputs: +//! - `generate_onboarding()` — lightweight summary for `aphoria explain` +//! - `generate_full_docs()` — comprehensive reference for `aphoria docs generate` +//! - `generate_explanation()` — legacy function (kept for backward compat, delegates to `generate_onboarding`) + +use std::collections::BTreeMap; + +use crate::coverage::CoverageReport; +use crate::types::authored_claim::{AuthoredClaim, ClaimStatus}; +use crate::verify::{AuditVerdict, VerifyReport}; + +/// Generate an onboarding overview for `aphoria explain`. +/// +/// Lightweight narrative: category counts, verification health, coverage snapshot. +/// Takes pre-computed data so the caller handles scanning. +pub fn generate_onboarding( + claims: &[AuthoredClaim], + verify_report: &VerifyReport, + coverage_report: &CoverageReport, + project_name: &str, + format: &str, +) -> String { + match format { + "json" => generate_onboarding_json(claims, verify_report, coverage_report, project_name), + _ => generate_onboarding_markdown(claims, verify_report, coverage_report, project_name), + } +} + +/// Generate comprehensive reference docs for `aphoria docs generate`. +/// +/// Full claim details + verification results + coverage table. +/// Takes pre-computed data so the caller handles scanning. +pub fn generate_full_docs( + claims: &[AuthoredClaim], + verify_report: &VerifyReport, + coverage_report: &CoverageReport, + project_name: &str, + format: &str, +) -> String { + match format { + "json" => generate_full_docs_json(claims, verify_report, coverage_report, project_name), + _ => generate_full_docs_markdown(claims, verify_report, coverage_report, project_name), + } +} + +// --- Onboarding (aphoria explain) --- + +fn generate_onboarding_markdown( + claims: &[AuthoredClaim], + verify_report: &VerifyReport, + coverage_report: &CoverageReport, + project_name: &str, +) -> String { + let mut out = String::new(); + + out.push_str(&format!("# {project_name} — Claim Overview\n\n")); + + // Category summary + let categories = group_by_category(claims); + let active_count = claims.iter().filter(|c| c.status == ClaimStatus::Active).count(); + + out.push_str(&format!( + "**{project_name}** has **{active_count}** active claims across **{}** categories.\n\n", + categories.len() + )); + + if !categories.is_empty() { + out.push_str("## Categories\n\n"); + out.push_str("| Category | Active | Total |\n"); + out.push_str("|----------|--------|-------|\n"); + for (cat, cat_claims) in &categories { + let active = cat_claims.iter().filter(|c| c.status == ClaimStatus::Active).count(); + out.push_str(&format!("| {} | {} | {} |\n", capitalize(cat), active, cat_claims.len())); + } + out.push('\n'); + } + + // Verification health + let summary = &verify_report.summary; + out.push_str("## Verification Health\n\n"); + out.push_str(&format!( + "- **Pass:** {}\n- **Conflict:** {}\n- **Missing:** {}\n- **Unclaimed observations:** {}\n\n", + summary.pass, summary.conflict, summary.missing, summary.unclaimed, + )); + + if summary.conflict > 0 { + out.push_str("*Conflicts indicate code behavior differs from authored claims.*\n\n"); + } + + // Coverage snapshot + let cov = &coverage_report.summary; + out.push_str("## Coverage Snapshot\n\n"); + out.push_str(&format!( + "- **Claimed:** {:.1}% of {} observations\n", + cov.claimed_percentage, cov.total_observations, + )); + out.push_str(&format!( + "- **Modules with claims:** {} / {}\n", + cov.modules_with_claims, + cov.modules_with_claims + cov.modules_without_claims, + )); + + // Top uncovered modules + let uncovered: Vec<_> = coverage_report + .modules + .iter() + .filter(|m| m.claim_count == 0 && m.observation_count > 0) + .take(5) + .collect(); + + if !uncovered.is_empty() { + out.push_str("\n**Top uncovered modules:**\n"); + for m in uncovered { + out.push_str(&format!( + "- `{}` ({} observations)\n", + m.module_path, m.observation_count, + )); + } + } + + out.push_str("\n---\n"); + out.push_str("Run `aphoria claims explain` for full claim details.\n"); + out.push_str("Run `aphoria docs generate` for comprehensive reference documentation.\n"); + + out +} + +fn generate_onboarding_json( + claims: &[AuthoredClaim], + verify_report: &VerifyReport, + coverage_report: &CoverageReport, + project_name: &str, +) -> String { + let categories = group_by_category(claims); + let active_count = claims.iter().filter(|c| c.status == ClaimStatus::Active).count(); + + let cat_summary: Vec = categories + .iter() + .map(|(cat, cat_claims)| { + let active = cat_claims.iter().filter(|c| c.status == ClaimStatus::Active).count(); + serde_json::json!({ + "category": cat, + "active": active, + "total": cat_claims.len(), + }) + }) + .collect(); + + let json = serde_json::json!({ + "project": project_name, + "type": "onboarding", + "active_claims": active_count, + "categories": cat_summary, + "verification": { + "pass": verify_report.summary.pass, + "conflict": verify_report.summary.conflict, + "missing": verify_report.summary.missing, + "unclaimed": verify_report.summary.unclaimed, + }, + "coverage": { + "claimed_percentage": coverage_report.summary.claimed_percentage, + "total_observations": coverage_report.summary.total_observations, + "modules_with_claims": coverage_report.summary.modules_with_claims, + "modules_without_claims": coverage_report.summary.modules_without_claims, + }, + }); + + serde_json::to_string_pretty(&json).unwrap_or_else(|_| "{}".to_string()) +} + +// --- Full docs (aphoria docs generate) --- + +fn generate_full_docs_markdown( + claims: &[AuthoredClaim], + verify_report: &VerifyReport, + coverage_report: &CoverageReport, + project_name: &str, +) -> String { + let mut out = String::new(); + + out.push_str(&format!("# {project_name} — Reference Documentation\n\n")); + + // Section 1: Full claim details (reuse claims_explain) + out.push_str(&crate::claims_explain::render_claims_markdown(claims, project_name)); + out.push('\n'); + + // Section 2: Verification results + out.push_str("---\n\n"); + out.push_str("# Verification Results\n\n"); + + let summary = &verify_report.summary; + out.push_str(&format!( + "**Total:** {} claims verified — {} pass, {} conflict, {} missing, {} unclaimed observations\n\n", + summary.total_claims, summary.pass, summary.conflict, summary.missing, summary.unclaimed, + )); + + // Group verify results by verdict + let mut conflicts = Vec::new(); + let mut missing = Vec::new(); + for result in &verify_report.results { + match result.verdict { + AuditVerdict::Conflict => conflicts.push(result), + AuditVerdict::Missing => missing.push(result), + _ => {} + } + } + + if !conflicts.is_empty() { + out.push_str("## Conflicts\n\n"); + for r in &conflicts { + if let Some(ref claim) = r.claim { + out.push_str(&format!("- **{}**: {}\n", claim.id, r.explanation)); + } + } + out.push('\n'); + } + + if !missing.is_empty() { + out.push_str("## Missing Observations\n\n"); + for r in &missing { + if let Some(ref claim) = r.claim { + out.push_str(&format!("- **{}**: {}\n", claim.id, r.explanation)); + } + } + out.push('\n'); + } + + // Section 3: Coverage table + out.push_str("---\n\n"); + out.push_str(&crate::coverage::format_coverage_markdown(coverage_report)); + + out +} + +fn generate_full_docs_json( + claims: &[AuthoredClaim], + verify_report: &VerifyReport, + coverage_report: &CoverageReport, + project_name: &str, +) -> String { + let claims_json: Vec = claims + .iter() + .map(|c| { + serde_json::json!({ + "id": c.id, + "concept_path": c.concept_path, + "predicate": c.predicate, + "value": format!("{}", c.value), + "provenance": c.provenance, + "invariant": c.invariant, + "consequence": c.consequence, + "authority_tier": c.authority_tier, + "category": c.category, + "status": format!("{:?}", c.status), + }) + }) + .collect(); + + let verify_json: Vec = verify_report + .results + .iter() + .filter(|r| r.claim.is_some()) + .map(|r| { + let claim = r.claim.as_ref().unwrap_or_else(|| { + // Safety: filtered above + unreachable!() + }); + serde_json::json!({ + "claim_id": claim.id, + "verdict": format!("{}", r.verdict), + "explanation": r.explanation, + "matching_observations": r.matching_observations.len(), + }) + }) + .collect(); + + let json = serde_json::json!({ + "project": project_name, + "type": "full_docs", + "claims": claims_json, + "verification": { + "summary": { + "total_claims": verify_report.summary.total_claims, + "pass": verify_report.summary.pass, + "conflict": verify_report.summary.conflict, + "missing": verify_report.summary.missing, + "unclaimed": verify_report.summary.unclaimed, + }, + "results": verify_json, + }, + "coverage": coverage_report, + }); + + serde_json::to_string_pretty(&json).unwrap_or_else(|_| "{}".to_string()) +} + +// --- Helpers --- + +fn group_by_category(claims: &[AuthoredClaim]) -> BTreeMap> { + let mut categories: BTreeMap> = BTreeMap::new(); + for claim in claims { + categories.entry(claim.category.clone()).or_default().push(claim); + } + categories +} + +fn capitalize(s: &str) -> String { + let mut chars = s.chars(); + match chars.next() { + None => String::new(), + Some(c) => c.to_uppercase().collect::() + chars.as_str(), + } +} + +#[cfg(test)] +mod tests { + use super::*; + use crate::types::authored_claim::{AuthoredValue, ComparisonMode}; + use crate::verify::{VerifyResult, VerifySummary}; + use crate::coverage::{CoverageSummary, ModuleCoverage}; + + fn sample_claim(id: &str, category: &str) -> AuthoredClaim { + AuthoredClaim { + id: id.to_string(), + concept_path: "test/concept".to_string(), + predicate: "test_pred".to_string(), + value: AuthoredValue::Text("test_value".to_string()), + comparison: ComparisonMode::default(), + provenance: "Test provenance".to_string(), + invariant: "Test invariant".to_string(), + consequence: "Bad things happen".to_string(), + authority_tier: "expert".to_string(), + evidence: vec![], + category: category.to_string(), + status: ClaimStatus::Active, + supersedes: None, + created_by: "tester".to_string(), + created_at: "2026-02-08".to_string(), + updated_at: None, + } + } + + fn empty_verify_report() -> VerifyReport { + VerifyReport { + results: vec![], + summary: VerifySummary::default(), + } + } + + fn empty_coverage_report() -> CoverageReport { + CoverageReport { + project: "test".to_string(), + modules: vec![], + summary: CoverageSummary { + total_observations: 0, + total_claims: 0, + claimed_percentage: 0.0, + unclaimed_count: 0, + modules_with_claims: 0, + modules_without_claims: 0, + }, + } + } + + fn sample_verify_report() -> VerifyReport { + VerifyReport { + results: vec![ + VerifyResult { + claim: Some(sample_claim("c1", "safety")), + verdict: AuditVerdict::Pass, + matching_observations: vec![], + explanation: "Matches".to_string(), + }, + VerifyResult { + claim: Some(sample_claim("c2", "architecture")), + verdict: AuditVerdict::Conflict, + matching_observations: vec![], + explanation: "Value mismatch".to_string(), + }, + ], + summary: VerifySummary { + total_claims: 2, + pass: 1, + conflict: 1, + missing: 0, + unclaimed: 3, + }, + } + } + + fn sample_coverage_report() -> CoverageReport { + CoverageReport { + project: "test".to_string(), + modules: vec![ + ModuleCoverage { + module_path: "tls".to_string(), + files: vec!["src/tls/config.rs".to_string()], + observation_count: 5, + claim_count: 2, + claimed_observations: 3, + unclaimed_observations: 2, + missing_claims: 0, + density: 0.4, + }, + ModuleCoverage { + module_path: "auth".to_string(), + files: vec!["src/auth/jwt.rs".to_string()], + observation_count: 3, + claim_count: 0, + claimed_observations: 0, + unclaimed_observations: 3, + missing_claims: 0, + density: 0.0, + }, + ], + summary: CoverageSummary { + total_observations: 8, + total_claims: 2, + claimed_percentage: 37.5, + unclaimed_count: 5, + modules_with_claims: 1, + modules_without_claims: 1, + }, + } + } + + #[test] + fn test_onboarding_has_category_table() { + let claims = vec![ + sample_claim("s1", "safety"), + sample_claim("a1", "architecture"), + sample_claim("s2", "safety"), + ]; + let out = generate_onboarding(&claims, &empty_verify_report(), &empty_coverage_report(), "myproject", "markdown"); + assert!(out.contains("# myproject")); + assert!(out.contains("3** active claims")); + assert!(out.contains("| Safety")); + assert!(out.contains("| Architecture")); + } + + #[test] + fn test_onboarding_shows_verification_health() { + let claims = vec![sample_claim("c1", "safety")]; + let vr = sample_verify_report(); + let out = generate_onboarding(&claims, &vr, &empty_coverage_report(), "proj", "markdown"); + assert!(out.contains("**Pass:** 1")); + assert!(out.contains("**Conflict:** 1")); + assert!(out.contains("Conflicts indicate")); + } + + #[test] + fn test_onboarding_shows_coverage_snapshot() { + let claims = vec![sample_claim("c1", "safety")]; + let cr = sample_coverage_report(); + let out = generate_onboarding(&claims, &empty_verify_report(), &cr, "proj", "markdown"); + assert!(out.contains("37.5%")); + assert!(out.contains("`auth`")); + } + + #[test] + fn test_onboarding_pointers() { + let out = generate_onboarding(&[], &empty_verify_report(), &empty_coverage_report(), "proj", "markdown"); + assert!(out.contains("aphoria claims explain")); + assert!(out.contains("aphoria docs generate")); + } + + #[test] + fn test_full_docs_includes_claim_details() { + let claims = vec![sample_claim("c1", "safety")]; + let out = generate_full_docs(&claims, &empty_verify_report(), &empty_coverage_report(), "proj", "markdown"); + // Should contain per-claim fields from claims_explain + assert!(out.contains("**Concept:**")); + assert!(out.contains("**Invariant:**")); + } + + #[test] + fn test_full_docs_includes_verify_results() { + let claims = vec![sample_claim("c1", "safety")]; + let vr = sample_verify_report(); + let out = generate_full_docs(&claims, &vr, &empty_coverage_report(), "proj", "markdown"); + assert!(out.contains("# Verification Results")); + assert!(out.contains("## Conflicts")); + assert!(out.contains("Value mismatch")); + } + + #[test] + fn test_full_docs_includes_coverage_table() { + let claims = vec![sample_claim("c1", "safety")]; + let cr = sample_coverage_report(); + let out = generate_full_docs(&claims, &empty_verify_report(), &cr, "proj", "markdown"); + assert!(out.contains("# Aphoria Coverage:")); + assert!(out.contains("Coverage Gaps")); + } + + #[test] + fn test_onboarding_and_full_docs_differ() { + let claims = vec![sample_claim("c1", "safety")]; + let vr = sample_verify_report(); + let cr = sample_coverage_report(); + let onboarding = generate_onboarding(&claims, &vr, &cr, "proj", "markdown"); + let full_docs = generate_full_docs(&claims, &vr, &cr, "proj", "markdown"); + assert_ne!(onboarding, full_docs); + // Onboarding should NOT have per-claim concept details + assert!(!onboarding.contains("**Concept:**")); + // Full docs should NOT have the "Run `aphoria claims explain`" pointer + assert!(!full_docs.contains("Run `aphoria claims explain`")); + } + + #[test] + fn test_onboarding_json() { + let claims = vec![sample_claim("c1", "safety")]; + let out = generate_onboarding(&claims, &empty_verify_report(), &empty_coverage_report(), "proj", "json"); + let parsed: serde_json::Value = serde_json::from_str(&out).unwrap_or_default(); + assert_eq!(parsed["type"], "onboarding"); + assert_eq!(parsed["active_claims"], 1); + } + + #[test] + fn test_full_docs_json() { + let claims = vec![sample_claim("c1", "safety")]; + let out = generate_full_docs(&claims, &empty_verify_report(), &empty_coverage_report(), "proj", "json"); + let parsed: serde_json::Value = serde_json::from_str(&out).unwrap_or_default(); + assert_eq!(parsed["type"], "full_docs"); + assert!(parsed["claims"].is_array()); + assert!(parsed["verification"].is_object()); + assert!(parsed["coverage"].is_object()); + } +} diff --git a/applications/aphoria/src/extractors/api_key_security.rs b/applications/aphoria/src/extractors/api_key_security.rs index ae891a2..874af38 100644 --- a/applications/aphoria/src/extractors/api_key_security.rs +++ b/applications/aphoria/src/extractors/api_key_security.rs @@ -9,7 +9,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for API key security configuration. /// @@ -129,7 +129,7 @@ impl Extractor for ApiKeySecurityExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); let confidence = self.confidence_for_file(file); @@ -142,7 +142,7 @@ impl Extractor for ApiKeySecurityExtractor { concept_path.push("api".to_string()); concept_path.push("auth".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "require_api_key".to_string(), value: ObjectValue::Boolean(false), @@ -164,7 +164,7 @@ impl Extractor for ApiKeySecurityExtractor { concept_path.push("api".to_string()); concept_path.push("auth".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "public_paths_count".to_string(), value: ObjectValue::Number(count as f64), @@ -185,7 +185,7 @@ impl Extractor for ApiKeySecurityExtractor { concept_path.push("api".to_string()); concept_path.push("rate_limit".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "using_default".to_string(), value: ObjectValue::Boolean(true), diff --git a/applications/aphoria/src/extractors/aspnet_security.rs b/applications/aphoria/src/extractors/aspnet_security.rs index fd499b2..d665f8a 100644 --- a/applications/aphoria/src/extractors/aspnet_security.rs +++ b/applications/aphoria/src/extractors/aspnet_security.rs @@ -12,7 +12,7 @@ use stemedb_core::types::ObjectValue; use super::traits::build_claim; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for ASP.NET Core security misconfigurations. pub struct AspNetSecurityExtractor { @@ -90,7 +90,7 @@ impl AspNetSecurityExtractor { path_segments: &[String], content: &str, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -182,7 +182,7 @@ impl AspNetSecurityExtractor { path_segments: &[String], content: &str, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); // Multi-line: CORS AllowAnyOrigin with AllowCredentials @@ -364,7 +364,7 @@ impl Extractor for AspNetSecurityExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); // Check if this looks like an ASP.NET file diff --git a/applications/aphoria/src/extractors/auth_bypass.rs b/applications/aphoria/src/extractors/auth_bypass.rs index d8330ff..43be846 100644 --- a/applications/aphoria/src/extractors/auth_bypass.rs +++ b/applications/aphoria/src/extractors/auth_bypass.rs @@ -12,7 +12,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::{build_claim, Extractor}; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for authentication bypass patterns. /// @@ -90,7 +90,7 @@ impl AuthBypassExtractor { matched_text: &str, bypass_type: &str, description: &str, - ) -> ExtractedClaim { + ) -> Observation { build_claim( path_segments, &["auth", "bypass", bypass_type], @@ -126,7 +126,7 @@ impl Extractor for AuthBypassExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { diff --git a/applications/aphoria/src/extractors/circuit_breaker_config.rs b/applications/aphoria/src/extractors/circuit_breaker_config.rs index 0cb3a75..0246182 100644 --- a/applications/aphoria/src/extractors/circuit_breaker_config.rs +++ b/applications/aphoria/src/extractors/circuit_breaker_config.rs @@ -8,7 +8,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for circuit breaker configuration. /// @@ -71,7 +71,7 @@ impl Extractor for CircuitBreakerConfigExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); let confidence = self.confidence_for_file(file); @@ -84,7 +84,7 @@ impl Extractor for CircuitBreakerConfigExtractor { concept_path.push("api".to_string()); concept_path.push("circuit_breaker".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), @@ -102,7 +102,7 @@ impl Extractor for CircuitBreakerConfigExtractor { concept_path.push("api".to_string()); concept_path.push("circuit_breaker".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), diff --git a/applications/aphoria/src/extractors/command_injection.rs b/applications/aphoria/src/extractors/command_injection.rs index 2a31397..dcce046 100644 --- a/applications/aphoria/src/extractors/command_injection.rs +++ b/applications/aphoria/src/extractors/command_injection.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for command injection vulnerabilities. /// @@ -93,7 +93,7 @@ impl CommandInjectionExtractor { path_segments: &[String], file: &str, description: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -103,7 +103,7 @@ impl CommandInjectionExtractor { concept_path.push("command".to_string()); concept_path.push("input".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "input_source".to_string(), value: ObjectValue::Text("untrusted".to_string()), @@ -126,7 +126,7 @@ impl CommandInjectionExtractor { path_segments: &[String], file: &str, description: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -135,7 +135,7 @@ impl CommandInjectionExtractor { concept_path.push("os".to_string()); concept_path.push("shell_mode".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), @@ -173,7 +173,7 @@ impl Extractor for CommandInjectionExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); match language { @@ -260,6 +260,19 @@ impl Extractor for CommandInjectionExtractor { claims } + + fn screening_patterns(&self) -> Vec<&str> { + vec![ + r"Command::new", + r"exec\.Command", + r"os\.system", + r"os\.popen", + r"subprocess", + r"child_process", + r"execSync", + r"shell\s*[:=]\s*true", + ] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/config_security.rs b/applications/aphoria/src/extractors/config_security.rs index ecef967..b11ac49 100644 --- a/applications/aphoria/src/extractors/config_security.rs +++ b/applications/aphoria/src/extractors/config_security.rs @@ -29,7 +29,7 @@ use stemedb_core::types::ObjectValue; use super::config_parser::{parse_config, walk_config, ConfigValue}; use super::traits::is_test_file; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// A security rule that matches config paths and values. struct SecurityRule { @@ -244,7 +244,7 @@ impl ConfigSecurityExtractor { config: &ConfigValue, path_segments: &[String], file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); let is_dev = Self::is_dev_config(file); let is_test = is_test_file(file); @@ -265,7 +265,7 @@ impl ConfigSecurityExtractor { // Reduce confidence for test files let confidence = if is_test { rule.confidence * 0.5 } else { rule.confidence }; - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: rule.predicate.to_string(), value: rule.claim_value.clone(), @@ -298,7 +298,7 @@ impl Extractor for ConfigSecurityExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { // Skip empty or very small files if content.trim().is_empty() || content.len() < 5 { return Vec::new(); diff --git a/applications/aphoria/src/extractors/const_declarations.rs b/applications/aphoria/src/extractors/const_declarations.rs index cdfd45f..c5ce6e1 100644 --- a/applications/aphoria/src/extractors/const_declarations.rs +++ b/applications/aphoria/src/extractors/const_declarations.rs @@ -10,7 +10,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for Rust constant declarations. /// @@ -81,7 +81,7 @@ impl Extractor for ConstDeclarationsExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); let confidence = self.confidence_for_file(file); @@ -100,7 +100,7 @@ impl Extractor for ConstDeclarationsExtractor { concept_path.push("const".to_string()); concept_path.push(name.to_lowercase()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "value".to_string(), value: ObjectValue::Text(cleaned_value.clone()), @@ -124,7 +124,7 @@ impl Extractor for ConstDeclarationsExtractor { concept_path.push("static".to_string()); concept_path.push(name.to_lowercase()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "value".to_string(), value: ObjectValue::Text(cleaned_value.clone()), diff --git a/applications/aphoria/src/extractors/cors_config.rs b/applications/aphoria/src/extractors/cors_config.rs index cfd7df6..056d372 100644 --- a/applications/aphoria/src/extractors/cors_config.rs +++ b/applications/aphoria/src/extractors/cors_config.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for CORS configuration issues. pub struct CorsConfigExtractor { @@ -69,7 +69,7 @@ impl Extractor for CorsConfigExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); let mut found_wildcard_origin = false; let mut wildcard_line = 0; @@ -88,7 +88,7 @@ impl Extractor for CorsConfigExtractor { concept_path.push("cors".to_string()); concept_path.push("allow_origin".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "config_value".to_string(), value: ObjectValue::Text("*".to_string()), @@ -108,7 +108,7 @@ impl Extractor for CorsConfigExtractor { concept_path.push("cors".to_string()); concept_path.push("credentials_with_wildcard".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "enabled".to_string(), value: ObjectValue::Boolean(true), @@ -123,6 +123,22 @@ impl Extractor for CorsConfigExtractor { claims } + + fn verifiable_predicates(&self) -> Vec<(&str, &str)> { + vec![ + ("cors/allow_origin", "config_value"), + ("cors/credentials_with_wildcard", "enabled"), + ] + } + + fn screening_patterns(&self) -> Vec<&str> { + vec![ + r"(?i)allow_origin|AllowAllOrigins|permissive", + r"(?i)Access-Control-Allow-Origin", + r"(?i)cors", + r"(?i)allow_credentials|AllowCredentials", + ] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/declarative/executor.rs b/applications/aphoria/src/extractors/declarative/executor.rs index 8a5063b..932882b 100644 --- a/applications/aphoria/src/extractors/declarative/executor.rs +++ b/applications/aphoria/src/extractors/declarative/executor.rs @@ -5,7 +5,7 @@ use stemedb_core::types::ObjectValue; use super::parser::DeclarativeExtractor; use super::types::DeclarativeValue; use crate::extractors::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; impl Extractor for DeclarativeExtractor { fn name(&self) -> &str { @@ -22,7 +22,7 @@ impl Extractor for DeclarativeExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -44,7 +44,7 @@ impl Extractor for DeclarativeExtractor { DeclarativeValue::Text { value } => ObjectValue::Text(value.clone()), }; - claims.push(ExtractedClaim { + claims.push(Observation { concept_path, predicate: self.def().claim.predicate.clone(), value, @@ -59,6 +59,10 @@ impl Extractor for DeclarativeExtractor { claims } + + fn screening_patterns(&self) -> Vec<&str> { + vec![&self.def().pattern] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/dep_versions.rs b/applications/aphoria/src/extractors/dep_versions.rs index da3b48f..36e842a 100644 --- a/applications/aphoria/src/extractors/dep_versions.rs +++ b/applications/aphoria/src/extractors/dep_versions.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for vulnerable dependency versions. /// @@ -59,7 +59,7 @@ impl DepVersionsExtractor { path_segments: &[String], content: &str, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); let mut in_dependencies = false; @@ -95,7 +95,7 @@ impl DepVersionsExtractor { concept_path.push(package.to_string()); concept_path.push("version".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "installed_version".to_string(), value: ObjectValue::Text(version.to_string()), @@ -118,7 +118,7 @@ impl DepVersionsExtractor { path_segments: &[String], content: &str, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -149,7 +149,7 @@ impl DepVersionsExtractor { concept_path.push(package.to_string()); concept_path.push("version".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "installed_version".to_string(), value: ObjectValue::Text(version.to_string()), @@ -171,7 +171,7 @@ impl DepVersionsExtractor { path_segments: &[String], content: &str, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); let mut in_require = false; @@ -200,7 +200,7 @@ impl DepVersionsExtractor { concept_path.push(short_name.to_string()); concept_path.push("version".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "installed_version".to_string(), value: ObjectValue::Text(version.to_string()), @@ -223,7 +223,7 @@ impl DepVersionsExtractor { path_segments: &[String], content: &str, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -243,7 +243,7 @@ impl DepVersionsExtractor { concept_path.push(package.to_string()); concept_path.push("version".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "installed_version".to_string(), value: ObjectValue::Text(version.to_string()), @@ -276,7 +276,7 @@ impl Extractor for DepVersionsExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { match language { Language::CargoManifest => self.extract_cargo(path_segments, content, file), Language::NpmManifest => self.extract_npm(path_segments, content, file), diff --git a/applications/aphoria/src/extractors/derive_pattern.rs b/applications/aphoria/src/extractors/derive_pattern.rs index 83930f2..80ac18e 100644 --- a/applications/aphoria/src/extractors/derive_pattern.rs +++ b/applications/aphoria/src/extractors/derive_pattern.rs @@ -8,7 +8,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for Rust derive patterns. /// @@ -102,7 +102,7 @@ impl Extractor for DerivePatternExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); let confidence = self.confidence_for_file(file); @@ -138,7 +138,7 @@ impl Extractor for DerivePatternExtractor { let mut sorted_derives = derives.clone(); sorted_derives.sort(); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "traits".to_string(), value: ObjectValue::Text(sorted_derives.join(",")), diff --git a/applications/aphoria/src/extractors/django_security.rs b/applications/aphoria/src/extractors/django_security.rs index 1e56f6c..c8e3cc8 100644 --- a/applications/aphoria/src/extractors/django_security.rs +++ b/applications/aphoria/src/extractors/django_security.rs @@ -13,7 +13,7 @@ use stemedb_core::types::ObjectValue; use super::traits::build_claim; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for Django security misconfigurations. pub struct DjangoSecurityExtractor { @@ -100,7 +100,7 @@ impl DjangoSecurityExtractor { path_segments: &[String], content: &str, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -295,7 +295,7 @@ impl DjangoSecurityExtractor { path_segments: &[String], content: &str, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -414,7 +414,7 @@ impl Extractor for DjangoSecurityExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); // Check if this looks like a Django file diff --git a/applications/aphoria/src/extractors/durability_config.rs b/applications/aphoria/src/extractors/durability_config.rs index 579827f..e99fe63 100644 --- a/applications/aphoria/src/extractors/durability_config.rs +++ b/applications/aphoria/src/extractors/durability_config.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for durability configuration. /// @@ -97,7 +97,7 @@ impl Extractor for DurabilityConfigExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); let confidence = self.confidence_for_file(file); @@ -113,7 +113,7 @@ impl Extractor for DurabilityConfigExtractor { concept_path.push("wal".to_string()); concept_path.push("durability".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "strategy".to_string(), value: ObjectValue::Text(normalized.to_string()), @@ -134,7 +134,7 @@ impl Extractor for DurabilityConfigExtractor { concept_path.push("wal".to_string()); concept_path.push("durability".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "strategy".to_string(), value: ObjectValue::Text(normalized.to_string()), @@ -155,7 +155,7 @@ impl Extractor for DurabilityConfigExtractor { concept_path.push("wal".to_string()); concept_path.push("durability".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "strategy".to_string(), value: ObjectValue::Text(normalized.to_string()), @@ -173,7 +173,7 @@ impl Extractor for DurabilityConfigExtractor { concept_path.push("wal".to_string()); concept_path.push("durability".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "strategy".to_string(), value: ObjectValue::Text("batched".to_string()), diff --git a/applications/aphoria/src/extractors/express_security.rs b/applications/aphoria/src/extractors/express_security.rs index ed3c971..1134920 100644 --- a/applications/aphoria/src/extractors/express_security.rs +++ b/applications/aphoria/src/extractors/express_security.rs @@ -12,7 +12,7 @@ use stemedb_core::types::ObjectValue; use super::traits::build_claim; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for Express.js security misconfigurations. #[allow(dead_code)] @@ -117,7 +117,7 @@ impl Extractor for ExpressSecurityExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); // Check if this looks like an Express.js file diff --git a/applications/aphoria/src/extractors/fastapi_security.rs b/applications/aphoria/src/extractors/fastapi_security.rs index 6831734..6bdb7ef 100644 --- a/applications/aphoria/src/extractors/fastapi_security.rs +++ b/applications/aphoria/src/extractors/fastapi_security.rs @@ -11,7 +11,7 @@ use stemedb_core::types::ObjectValue; use super::traits::build_claim; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for FastAPI security misconfigurations. #[allow(dead_code)] @@ -90,7 +90,7 @@ impl Extractor for FastApiSecurityExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); // Check if this looks like a FastAPI file diff --git a/applications/aphoria/src/extractors/flask_security.rs b/applications/aphoria/src/extractors/flask_security.rs index 2553180..d6ad7ac 100644 --- a/applications/aphoria/src/extractors/flask_security.rs +++ b/applications/aphoria/src/extractors/flask_security.rs @@ -12,7 +12,7 @@ use stemedb_core::types::ObjectValue; use super::traits::build_claim; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for Flask security misconfigurations. #[allow(dead_code)] @@ -100,7 +100,7 @@ impl Extractor for FlaskSecurityExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); // Check if this looks like a Flask file diff --git a/applications/aphoria/src/extractors/hardcoded_secrets.rs b/applications/aphoria/src/extractors/hardcoded_secrets.rs index f591016..7e82fd8 100644 --- a/applications/aphoria/src/extractors/hardcoded_secrets.rs +++ b/applications/aphoria/src/extractors/hardcoded_secrets.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for hardcoded secrets in source code. pub struct HardcodedSecretsExtractor { @@ -92,7 +92,7 @@ impl HardcodedSecretsExtractor { matched_text: &str, leaf: &str, description: &str, - ) -> ExtractedClaim { + ) -> Observation { let mut concept_path = path_segments.to_vec(); concept_path.push("secrets".to_string()); concept_path.push(leaf.to_string()); @@ -100,7 +100,7 @@ impl HardcodedSecretsExtractor { // Lower confidence for test files let confidence = if self.is_test_file(file) { 0.5 } else { 1.0 }; - ExtractedClaim { + Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "storage_method".to_string(), value: ObjectValue::Text("hardcoded".to_string()), @@ -138,7 +138,7 @@ impl Extractor for HardcodedSecretsExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -223,6 +223,26 @@ impl Extractor for HardcodedSecretsExtractor { claims } + + fn verifiable_predicates(&self) -> Vec<(&str, &str)> { + vec![ + ("secrets/api_key", "storage_method"), + ("secrets/password", "storage_method"), + ("secrets/aws_credentials", "storage_method"), + ("secrets/private_key", "storage_method"), + ("secrets/secret_token", "storage_method"), + ] + } + + fn screening_patterns(&self) -> Vec<&str> { + vec![ + r"(?i)api[_-]?key", + r"(?i)password|passwd|pwd", + r"AKIA[0-9A-Z]", + r"-----BEGIN.*PRIVATE KEY", + r"(?i)secret|token|auth[_-]?key|client[_-]?secret", + ] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/high_entropy/mod.rs b/applications/aphoria/src/extractors/high_entropy/mod.rs index b874ccf..2bb019e 100644 --- a/applications/aphoria/src/extractors/high_entropy/mod.rs +++ b/applications/aphoria/src/extractors/high_entropy/mod.rs @@ -14,7 +14,7 @@ use stemedb_core::types::ObjectValue; use super::{build_claim, Extractor}; use crate::config::EntropyConfig; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; use entropy::{charset_variety, shannon_entropy}; use patterns::{classify_known_secret, is_likely_not_secret, SecretPatterns}; @@ -67,7 +67,7 @@ impl HighEntropySecretsExtractor { secret_type: &str, description: &str, base_confidence: f32, - ) -> ExtractedClaim { + ) -> Observation { build_claim( path_segments, &["secrets", secret_type], @@ -107,7 +107,7 @@ impl Extractor for HighEntropySecretsExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { diff --git a/applications/aphoria/src/extractors/ignore_comments.rs b/applications/aphoria/src/extractors/ignore_comments.rs index 90c2683..e179981 100644 --- a/applications/aphoria/src/extractors/ignore_comments.rs +++ b/applications/aphoria/src/extractors/ignore_comments.rs @@ -52,7 +52,7 @@ use regex::Regex; /// Parses ignore comments from file content and tracks ignored line numbers. #[derive(Debug)] pub struct IgnoreCommentParser { - /// Lines that should be ignored (1-indexed to match ExtractedClaim.line). + /// Lines that should be ignored (1-indexed to match Observation.line). ignored_lines: HashSet, } @@ -108,7 +108,7 @@ impl IgnoreCommentParser { /// Check if a line number should be ignored. /// - /// Line numbers are 1-indexed (matching ExtractedClaim.line). + /// Line numbers are 1-indexed (matching Observation.line). pub fn is_ignored(&self, line: usize) -> bool { self.ignored_lines.contains(&line) } diff --git a/applications/aphoria/src/extractors/import_graph.rs b/applications/aphoria/src/extractors/import_graph.rs index ba7b04b..46d05d2 100644 --- a/applications/aphoria/src/extractors/import_graph.rs +++ b/applications/aphoria/src/extractors/import_graph.rs @@ -8,7 +8,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for Rust import patterns. /// @@ -99,7 +99,7 @@ impl Extractor for ImportGraphExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); let confidence = self.confidence_for_file(file); @@ -118,7 +118,7 @@ impl Extractor for ImportGraphExtractor { concept_path.push("imports".to_string()); concept_path.push(crate_name.clone()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "imported".to_string(), value: ObjectValue::Boolean(true), @@ -134,6 +134,10 @@ impl Extractor for ImportGraphExtractor { claims } + + fn verifiable_predicates(&self) -> Vec<(&str, &str)> { + vec![("imports/*", "imported")] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/insecure_cookies/mod.rs b/applications/aphoria/src/extractors/insecure_cookies/mod.rs index fbc877c..b4d5cf8 100644 --- a/applications/aphoria/src/extractors/insecure_cookies/mod.rs +++ b/applications/aphoria/src/extractors/insecure_cookies/mod.rs @@ -13,7 +13,7 @@ use stemedb_core::types::ObjectValue; use self::patterns::CookiePatterns; use super::{build_claim, Extractor}; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for insecure cookie configuration patterns. /// @@ -42,7 +42,7 @@ impl InsecureCookiesExtractor { matched_text: &str, issue_type: &str, description: &str, - ) -> ExtractedClaim { + ) -> Observation { build_claim( path_segments, &["cookies", issue_type], @@ -79,7 +79,7 @@ impl Extractor for InsecureCookiesExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { diff --git a/applications/aphoria/src/extractors/insecure_deserialization.rs b/applications/aphoria/src/extractors/insecure_deserialization.rs index fb74e57..3aa045d 100644 --- a/applications/aphoria/src/extractors/insecure_deserialization.rs +++ b/applications/aphoria/src/extractors/insecure_deserialization.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::traits::{build_claim, Extractor}; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for insecure deserialization vulnerabilities. /// @@ -89,7 +89,7 @@ impl InsecureDeserializationExtractor { method: &str, confidence: f32, description: &str, - ) -> ExtractedClaim { + ) -> Observation { build_claim( path_segments, &["serialization", "deserialization"], @@ -119,7 +119,7 @@ impl Extractor for InsecureDeserializationExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { diff --git a/applications/aphoria/src/extractors/jwt_config.rs b/applications/aphoria/src/extractors/jwt_config.rs index 9287837..60caf05 100644 --- a/applications/aphoria/src/extractors/jwt_config.rs +++ b/applications/aphoria/src/extractors/jwt_config.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for JWT validation configuration. pub struct JwtConfigExtractor { @@ -93,12 +93,12 @@ impl JwtConfigExtractor { value: ObjectValue, description: &str, confidence: f32, - ) -> ExtractedClaim { + ) -> Observation { let mut concept_path = path_segments.to_vec(); concept_path.push("jwt".to_string()); concept_path.push(leaf.to_string()); - ExtractedClaim { + Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: predicate.to_string(), value, @@ -135,7 +135,7 @@ impl Extractor for JwtConfigExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -237,6 +237,25 @@ impl Extractor for JwtConfigExtractor { claims } + + fn verifiable_predicates(&self) -> Vec<(&str, &str)> { + vec![ + ("jwt/audience_validation", "enabled"), + ("jwt/algorithm_restriction", "config_value"), + ("jwt/signature_verification", "enabled"), + ("jwt/expiry_validation", "enabled"), + ] + } + + fn screening_patterns(&self) -> Vec<&str> { + vec![ + r"(?i)jwt|jsonwebtoken|jose", + r"(?i)validate_aud|set_audience|ValidateAudience|\baud\b", + r"(?i)Algorithm::None|allow_none|SigningMethodNone|\balg\b.*none", + r"(?i)dangerous_insecure|skip_signature|verify_signature|RequireSignedTokens", + r"(?i)validate_exp|RequireExpirationTime|IgnoreExpiration", + ] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/laravel_security.rs b/applications/aphoria/src/extractors/laravel_security.rs index 9ab681c..b566e00 100644 --- a/applications/aphoria/src/extractors/laravel_security.rs +++ b/applications/aphoria/src/extractors/laravel_security.rs @@ -13,7 +13,7 @@ use stemedb_core::types::ObjectValue; use super::traits::build_claim; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for Laravel security misconfigurations. #[allow(dead_code)] @@ -96,7 +96,7 @@ impl LaravelSecurityExtractor { path_segments: &[String], content: &str, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -171,7 +171,7 @@ impl LaravelSecurityExtractor { path_segments: &[String], content: &str, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -348,7 +348,7 @@ impl Extractor for LaravelSecurityExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); // Check if this looks like a Laravel file diff --git a/applications/aphoria/src/extractors/mod.rs b/applications/aphoria/src/extractors/mod.rs index 12c5ac9..0a0f3a0 100644 --- a/applications/aphoria/src/extractors/mod.rs +++ b/applications/aphoria/src/extractors/mod.rs @@ -86,6 +86,7 @@ mod rails_security; mod rate_limit; mod registry; mod security_headers; +mod self_audit; mod spring_security; mod sql_injection; mod ssrf; @@ -137,6 +138,7 @@ pub use rails_security::RailsSecurityExtractor; pub use rate_limit::{RateLimitExtractor, RateLimitThresholds}; pub use registry::ExtractorRegistry; pub use security_headers::SecurityHeadersExtractor; +pub use self_audit::SelfAuditExtractor; pub use spring_security::SpringSecurityExtractor; pub use sql_injection::SqlInjectionExtractor; pub use ssrf::SsrfExtractor; diff --git a/applications/aphoria/src/extractors/nestjs_security.rs b/applications/aphoria/src/extractors/nestjs_security.rs index f634a06..0d69dd6 100644 --- a/applications/aphoria/src/extractors/nestjs_security.rs +++ b/applications/aphoria/src/extractors/nestjs_security.rs @@ -12,7 +12,7 @@ use stemedb_core::types::ObjectValue; use super::traits::build_claim; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for NestJS security misconfigurations. #[allow(dead_code)] @@ -106,7 +106,7 @@ impl Extractor for NestJsSecurityExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); // Check if this looks like a NestJS file diff --git a/applications/aphoria/src/extractors/nextjs_security.rs b/applications/aphoria/src/extractors/nextjs_security.rs index 370dab6..d93cb0c 100644 --- a/applications/aphoria/src/extractors/nextjs_security.rs +++ b/applications/aphoria/src/extractors/nextjs_security.rs @@ -12,7 +12,7 @@ use stemedb_core::types::ObjectValue; use super::traits::build_claim; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for Next.js security misconfigurations. #[allow(dead_code)] @@ -97,7 +97,7 @@ impl Extractor for NextJsSecurityExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); // Check if this looks like a Next.js file diff --git a/applications/aphoria/src/extractors/orm_injection.rs b/applications/aphoria/src/extractors/orm_injection.rs index 5d0af03..df27be1 100644 --- a/applications/aphoria/src/extractors/orm_injection.rs +++ b/applications/aphoria/src/extractors/orm_injection.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::traits::{build_claim, Extractor}; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for ORM-specific SQL injection vulnerabilities. /// @@ -90,7 +90,7 @@ impl OrmInjectionExtractor { matched: &str, orm: &str, description: &str, - ) -> ExtractedClaim { + ) -> Observation { build_claim( path_segments, &["db", "orm", "query"], @@ -120,7 +120,7 @@ impl Extractor for OrmInjectionExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { diff --git a/applications/aphoria/src/extractors/path_traversal.rs b/applications/aphoria/src/extractors/path_traversal.rs index 95d91af..48741a7 100644 --- a/applications/aphoria/src/extractors/path_traversal.rs +++ b/applications/aphoria/src/extractors/path_traversal.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::traits::{build_claim, Extractor}; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for path traversal vulnerabilities. /// @@ -96,7 +96,7 @@ impl PathTraversalExtractor { matched: &str, category: &str, description: &str, - ) -> ExtractedClaim { + ) -> Observation { build_claim( path_segments, &["filesystem", "path", category], @@ -132,7 +132,7 @@ impl Extractor for PathTraversalExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -236,6 +236,18 @@ impl Extractor for PathTraversalExtractor { claims } + + fn screening_patterns(&self) -> Vec<&str> { + vec![ + r"\.\./", + r"os\.path\.join|os\.path", + r"path\.join|path\.resolve", + r"filepath\.Join|filepath\.Clean", + r"Path::new|PathBuf", + r"(?i)fs\.read|fs\.write|readFile|writeFile", + r"open\(", + ] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/rails_security.rs b/applications/aphoria/src/extractors/rails_security.rs index 12e175e..f4e5e11 100644 --- a/applications/aphoria/src/extractors/rails_security.rs +++ b/applications/aphoria/src/extractors/rails_security.rs @@ -12,7 +12,7 @@ use stemedb_core::types::ObjectValue; use super::traits::build_claim; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for Rails security misconfigurations. pub struct RailsSecurityExtractor { @@ -92,7 +92,7 @@ impl RailsSecurityExtractor { path_segments: &[String], content: &str, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -199,7 +199,7 @@ impl RailsSecurityExtractor { path_segments: &[String], content: &str, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -393,7 +393,7 @@ impl Extractor for RailsSecurityExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); // Check if this looks like a Rails file diff --git a/applications/aphoria/src/extractors/rate_limit.rs b/applications/aphoria/src/extractors/rate_limit.rs index 53ec253..48edf9f 100644 --- a/applications/aphoria/src/extractors/rate_limit.rs +++ b/applications/aphoria/src/extractors/rate_limit.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Configuration for rate limit thresholds. #[derive(Debug, Clone)] @@ -118,7 +118,7 @@ impl Extractor for RateLimitExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -130,7 +130,7 @@ impl Extractor for RateLimitExtractor { concept_path.push("rate_limit".to_string()); concept_path.push("enabled".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), @@ -157,7 +157,7 @@ impl Extractor for RateLimitExtractor { concept_path.push("rate_limit".to_string()); concept_path.push("max_requests".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "config_value".to_string(), value: ObjectValue::Number(per_minute as f64), diff --git a/applications/aphoria/src/extractors/registry.rs b/applications/aphoria/src/extractors/registry.rs index 892cfc2..d80d7a1 100644 --- a/applications/aphoria/src/extractors/registry.rs +++ b/applications/aphoria/src/extractors/registry.rs @@ -1,9 +1,12 @@ //! Extractor registry and collection logic. +use std::collections::HashMap; + +use regex::RegexSet; use tracing::instrument; use crate::config::AphoriaConfig; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; use super::api_key_security::ApiKeySecurityExtractor; use super::aspnet_security::AspNetSecurityExtractor; @@ -36,6 +39,7 @@ use super::path_traversal::PathTraversalExtractor; use super::rails_security::RailsSecurityExtractor; use super::rate_limit::RateLimitExtractor; use super::security_headers::SecurityHeadersExtractor; +use super::self_audit::SelfAuditExtractor; use super::spring_security::SpringSecurityExtractor; use super::sql_injection::SqlInjectionExtractor; use super::ssrf::SsrfExtractor; @@ -52,9 +56,22 @@ use super::weak_crypto::WeakCryptoExtractor; use super::weak_password::WeakPasswordExtractor; use super::xxe::XxeExtractor; +/// Pre-compiled RegexSet for a single language, mapping matched patterns back to extractor indices. +struct ScreeningSet { + regex_set: RegexSet, + /// Maps RegexSet pattern index → extractor index in `ExtractorRegistry::extractors`. + pattern_to_extractor: Vec, +} + /// Registry of available extractors. pub struct ExtractorRegistry { extractors: Vec>, + /// Extractor indices per language (precomputed from `languages()`). + language_map: HashMap>, + /// Per-language RegexSet for pre-screening file content. + screening: HashMap, + /// Extractors with no screening patterns (always run for that language). + always_run: HashMap>, } impl Default for ExtractorRegistry { @@ -107,6 +124,9 @@ impl ExtractorRegistry { if is_enabled("dep_versions") && config.extractors.dep_versions.enabled { extractors.push(Box::new(DepVersionsExtractor::new())); } + if is_enabled("self_audit") && config.extractors.self_audit.enabled { + extractors.push(Box::new(SelfAuditExtractor::new())); + } if is_enabled("cors_config") { extractors.push(Box::new(CorsConfigExtractor::new())); } @@ -248,7 +268,14 @@ impl ExtractorRegistry { } } - Self { extractors } + let mut registry = Self { + extractors, + language_map: HashMap::new(), + screening: HashMap::new(), + always_run: HashMap::new(), + }; + registry.rebuild_screening(); + registry } /// Add declarative extractors from definitions. @@ -270,21 +297,22 @@ impl ExtractorRegistry { } } } + self.rebuild_screening(); } /// Get extractors applicable to a given language. pub fn for_language(&self, language: Language) -> Vec<&dyn Extractor> { - self.extractors - .iter() - .filter(|e| e.languages().contains(&language)) - .map(|e| e.as_ref()) - .collect() + match self.language_map.get(&language) { + Some(indices) => indices.iter().map(|&i| self.extractors[i].as_ref()).collect(), + None => vec![], + } } /// Extract claims from content using all applicable extractors. /// - /// This method also filters out claims on lines marked with `// aphoria:ignore` - /// or similar inline ignore comments. See [`IgnoreCommentParser`] for details. + /// Uses a `RegexSet` pre-screen to skip extractors whose patterns don't match + /// the file content. This method also filters out claims on lines marked with + /// `// aphoria:ignore` or similar inline ignore comments. See [`IgnoreCommentParser`]. #[instrument(skip(self, path_segments, content), fields(file = %file, language = ?language))] pub fn extract_all( &self, @@ -292,13 +320,18 @@ impl ExtractorRegistry { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { + let selected = self.select_extractors(content, language); + if selected.is_empty() { + return vec![]; + } + // Parse inline ignore comments let ignore_parser = IgnoreCommentParser::parse(content); - self.for_language(language) + selected .iter() - .flat_map(|e| e.extract(path_segments, content, language, file)) + .flat_map(|&i| self.extractors[i].extract(path_segments, content, language, file)) .filter(|claim| !ignore_parser.is_ignored(claim.line)) .collect() } @@ -307,6 +340,103 @@ impl ExtractorRegistry { pub fn extractor_names(&self) -> Vec<&str> { self.extractors.iter().map(|e| e.name()).collect() } + + /// Get a reference to all registered extractors. + pub fn extractors(&self) -> &[Box] { + &self.extractors + } + + /// Rebuild the language map, screening sets, and always-run lists from current extractors. + fn rebuild_screening(&mut self) { + self.language_map.clear(); + self.screening.clear(); + self.always_run.clear(); + + // Build language_map: language → Vec + for (idx, ext) in self.extractors.iter().enumerate() { + for &lang in ext.languages() { + self.language_map.entry(lang).or_default().push(idx); + } + } + + // For each language, build a ScreeningSet and always_run list + for (&lang, indices) in &self.language_map { + let mut patterns: Vec = Vec::new(); + let mut pattern_to_extractor: Vec = Vec::new(); + let mut always: Vec = Vec::new(); + + for &ext_idx in indices { + let screening = self.extractors[ext_idx].screening_patterns(); + if screening.is_empty() { + always.push(ext_idx); + } else { + for pat in screening { + patterns.push(pat.to_string()); + pattern_to_extractor.push(ext_idx); + } + } + } + + if !patterns.is_empty() { + match RegexSet::new(&patterns) { + Ok(regex_set) => { + self.screening.insert(lang, ScreeningSet { + regex_set, + pattern_to_extractor, + }); + } + Err(e) => { + tracing::warn!( + language = %lang, + error = %e, + "Failed to compile screening RegexSet; all extractors will run" + ); + // Fall back: treat all extractors for this language as always-run + always.clear(); + for &ext_idx in indices { + always.push(ext_idx); + } + } + } + } + + if !always.is_empty() { + self.always_run.insert(lang, always); + } + } + } + + /// Select which extractors to run on the given content, using the RegexSet pre-screen. + fn select_extractors(&self, content: &str, language: Language) -> Vec { + let mut selected: Vec = Vec::new(); + + // Add always-run extractors + if let Some(always) = self.always_run.get(&language) { + selected.extend_from_slice(always); + } + + // Run the RegexSet pre-screen and add matched extractors + if let Some(screening) = self.screening.get(&language) { + for pat_idx in screening.regex_set.matches(content).iter() { + let ext_idx = screening.pattern_to_extractor[pat_idx]; + selected.push(ext_idx); + } + } + + // If no screening set exists for this language, all extractors are in always_run + // (or language_map). If there's no always_run and no screening, check language_map. + if selected.is_empty() && !self.screening.contains_key(&language) { + if let Some(indices) = self.language_map.get(&language) { + return indices.clone(); + } + } + + // Deduplicate and sort for deterministic order + selected.sort_unstable(); + selected.dedup(); + + selected + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/security_headers.rs b/applications/aphoria/src/extractors/security_headers.rs index caec804..6a33270 100644 --- a/applications/aphoria/src/extractors/security_headers.rs +++ b/applications/aphoria/src/extractors/security_headers.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::traits::{build_claim, Extractor}; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for missing or disabled security headers. /// @@ -94,7 +94,7 @@ impl SecurityHeadersExtractor { matched: &str, header: &str, description: &str, - ) -> ExtractedClaim { + ) -> Observation { build_claim( path_segments, &["http", "security_headers", header], @@ -132,7 +132,7 @@ impl Extractor for SecurityHeadersExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -238,6 +238,17 @@ impl Extractor for SecurityHeadersExtractor { claims } + + fn verifiable_predicates(&self) -> Vec<(&str, &str)> { + vec![ + ("security_headers/x_frame_options", "header_status"), + ("security_headers/x_content_type_options", "header_status"), + ("security_headers/x_xss_protection", "header_status"), + ("security_headers/hsts", "header_status"), + ("security_headers/ssl_redirect", "header_status"), + ("security_headers/content_security_policy", "header_status"), + ] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/self_audit.rs b/applications/aphoria/src/extractors/self_audit.rs new file mode 100644 index 0000000..c4ab518 --- /dev/null +++ b/applications/aphoria/src/extractors/self_audit.rs @@ -0,0 +1,302 @@ +//! Self-audit meta-extractor for dogfooding Aphoria on its own codebase. +//! +//! Produces observations about Aphoria's own code patterns: +//! - Bridge tier assignments +//! - Parent hash usage +//! - Lifecycle stage skipping +//! - `.unwrap()` / `.expect()` usage count + +use regex::Regex; +use stemedb_core::types::ObjectValue; + +use super::Extractor; +use crate::types::{Language, Observation}; + +/// Meta-extractor that audits Aphoria's own code patterns. +/// +/// Opt-in only (like `dep_versions`). Registered with the name `self_audit`. +pub struct SelfAuditExtractor { + /// Matches: .unwrap() or .expect() calls + unwrap_pattern: Regex, + /// Matches: SourceClass:: usage for tier assignment + source_class_pattern: Regex, + /// Matches: parent_hash: None + parent_hash_none: Regex, + /// Matches: LifecycleStage::Approved + lifecycle_approved: Regex, +} + +impl Default for SelfAuditExtractor { + fn default() -> Self { + Self::new() + } +} + +impl SelfAuditExtractor { + /// Create a new self-audit extractor. + /// + /// # Panics + /// Panics if any regex pattern is invalid (programmer error). + #[allow(clippy::expect_used)] + pub fn new() -> Self { + Self { + unwrap_pattern: Regex::new(r"\.(unwrap|expect)\(").expect("valid regex"), + source_class_pattern: Regex::new(r"SourceClass::\w+").expect("valid regex"), + parent_hash_none: Regex::new(r"parent_hash:\s*None").expect("valid regex"), + lifecycle_approved: Regex::new(r"LifecycleStage::Approved").expect("valid regex"), + } + } +} + +impl Extractor for SelfAuditExtractor { + fn name(&self) -> &str { + "self_audit" + } + + fn languages(&self) -> &[Language] { + &[Language::Rust] + } + + fn extract( + &self, + path_segments: &[String], + content: &str, + _language: Language, + file: &str, + ) -> Vec { + let mut observations = Vec::new(); + + // Count unwrap/expect usage + let mut unwrap_count: usize = 0; + let lines: Vec<&str> = content.lines().collect(); + let mut in_test_module = false; + + for (line_num, line) in lines.iter().enumerate() { + let line_number = line_num + 1; + + // Track #[cfg(test)] module boundaries + if line.contains("#[cfg(test)]") { + in_test_module = true; + } + + // Skip test modules entirely + if in_test_module { + // Still check for bridge patterns below, but don't count unwraps + } else if self.unwrap_pattern.is_match(line) { + // Check if the enclosing function has #[allow(clippy::unwrap_used)] + // or #[allow(clippy::expect_used)]. + // Scan backwards to the fn boundary, then check attributes above it. + let mut allowed = false; + let mut found_fn = false; + for prev in (0..line_num).rev() { + let prev_line = lines[prev].trim(); + if prev_line.is_empty() { + if found_fn { + break; // blank line above fn means attributes are done + } + continue; + } + if prev_line.contains("#[allow(clippy::unwrap_used)]") + || prev_line.contains("#[allow(clippy::expect_used)]") + { + allowed = true; + break; + } + // Mark that we found the fn boundary + if !found_fn + && (prev_line.starts_with("fn ") + || prev_line.starts_with("pub fn ") + || prev_line.contains(" fn ")) + { + found_fn = true; + continue; // check attributes above fn + } + // If we're past the fn and hit non-attribute lines, stop + if found_fn && !prev_line.starts_with('#') { + break; + } + } + if !allowed { + unwrap_count += 1; + } + } + + // Detect SourceClass assignments in bridge code + if file.contains("bridge") { + if let Some(m) = self.source_class_pattern.find(line) { + observations.push(super::traits::build_claim( + path_segments, + &["bridge", "tier_assignment"], + "default_tier", + ObjectValue::Text(m.as_str().to_string()), + file, + line_number, + m.as_str(), + 0.9, + "Bridge tier assignment pattern", + )); + } + } + + // Detect parent_hash: None patterns in bridge code + if file.contains("bridge") && self.parent_hash_none.is_match(line) { + observations.push(super::traits::build_claim( + path_segments, + &["bridge", "parent_hash"], + "always_none", + ObjectValue::Boolean(true), + file, + line_number, + "parent_hash: None", + 0.9, + "Parent hash always set to None", + )); + } + + // Detect LifecycleStage::Approved skipping Pending + if file.contains("bridge") && self.lifecycle_approved.is_match(line) { + observations.push(super::traits::build_claim( + path_segments, + &["bridge", "lifecycle"], + "skips_pending", + ObjectValue::Boolean(true), + file, + line_number, + "LifecycleStage::Approved", + 0.9, + "Lifecycle stage skips Pending, goes directly to Approved", + )); + } + } + + // Emit a single summary observation for unwrap count + if !file.contains("test") { + #[allow(clippy::cast_precision_loss)] + observations.push(super::traits::build_claim( + path_segments, + &["production", "error_handling"], + "unwrap_count", + ObjectValue::Number(unwrap_count as f64), + file, + 1, + &format!("{unwrap_count} unwrap/expect calls"), + 1.0, + "Count of .unwrap()/.expect() calls in production code", + )); + } + + observations + } + + fn verifiable_predicates(&self) -> Vec<(&str, &str)> { + vec![ + ("bridge/tier_assignment", "default_tier"), + ("bridge/parent_hash", "always_none"), + ("bridge/lifecycle", "skips_pending"), + ("production/error_handling", "unwrap_count"), + ] + } +} + +#[cfg(test)] +mod tests { + use super::*; + + #[test] + fn test_detects_unwrap() { + let ext = SelfAuditExtractor::new(); + let content = r#" +fn main() { + let x = foo().unwrap(); + let y = bar().expect("should work"); +} +"#; + let obs = ext.extract( + &["rust".to_string(), "aphoria".to_string()], + content, + Language::Rust, + "src/main.rs", + ); + + let unwrap_obs: Vec<_> = obs.iter().filter(|o| o.predicate == "unwrap_count").collect(); + assert_eq!(unwrap_obs.len(), 1); + assert_eq!(unwrap_obs[0].value, ObjectValue::Number(2.0)); + } + + #[test] + fn test_skips_allowed_unwrap() { + let ext = SelfAuditExtractor::new(); + let content = r#" +#[allow(clippy::unwrap_used)] +fn allowed() { + let x = foo().unwrap(); +} + +fn not_allowed() { + let y = bar().unwrap(); +} +"#; + let obs = ext.extract( + &["rust".to_string(), "aphoria".to_string()], + content, + Language::Rust, + "src/main.rs", + ); + + let unwrap_obs: Vec<_> = obs.iter().filter(|o| o.predicate == "unwrap_count").collect(); + assert_eq!(unwrap_obs.len(), 1); + // The allowed one should be skipped, only the non-allowed one counted + assert_eq!(unwrap_obs[0].value, ObjectValue::Number(1.0)); + } + + #[test] + fn test_bridge_detection() { + let ext = SelfAuditExtractor::new(); + let content = r#" +fn build_assertion() { + let source_class = SourceClass::Community; + let parent_hash: None; + let lifecycle = LifecycleStage::Approved; +} +"#; + let obs = ext.extract( + &["rust".to_string(), "aphoria".to_string()], + content, + Language::Rust, + "src/bridge.rs", + ); + + assert!(obs.iter().any(|o| o.predicate == "default_tier")); + assert!(obs.iter().any(|o| o.predicate == "skips_pending")); + } + + #[test] + fn test_no_bridge_obs_for_non_bridge() { + let ext = SelfAuditExtractor::new(); + let content = "let source_class = SourceClass::Community;\n"; + let obs = ext.extract( + &["rust".to_string()], + content, + Language::Rust, + "src/other.rs", + ); + + assert!(!obs.iter().any(|o| o.predicate == "default_tier")); + } + + #[test] + fn test_skips_test_files_for_unwrap() { + let ext = SelfAuditExtractor::new(); + let content = "let x = foo().unwrap();\n"; + let obs = ext.extract( + &["rust".to_string()], + content, + Language::Rust, + "src/tests/verify.rs", + ); + + // Test files should not produce unwrap_count observations + let unwrap_obs: Vec<_> = obs.iter().filter(|o| o.predicate == "unwrap_count").collect(); + assert!(unwrap_obs.is_empty()); + } +} diff --git a/applications/aphoria/src/extractors/spring_security.rs b/applications/aphoria/src/extractors/spring_security.rs index 1ab7be7..0ab6b56 100644 --- a/applications/aphoria/src/extractors/spring_security.rs +++ b/applications/aphoria/src/extractors/spring_security.rs @@ -13,7 +13,7 @@ use stemedb_core::types::ObjectValue; use super::traits::build_claim; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for Spring Boot security misconfigurations. #[allow(dead_code)] @@ -114,7 +114,7 @@ impl SpringSecurityExtractor { path_segments: &[String], content: &str, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -249,7 +249,7 @@ impl SpringSecurityExtractor { path_segments: &[String], content: &str, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); // Multi-line patterns @@ -377,7 +377,7 @@ impl Extractor for SpringSecurityExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); // Check if this looks like a Spring file diff --git a/applications/aphoria/src/extractors/sql_injection.rs b/applications/aphoria/src/extractors/sql_injection.rs index 0d9c3d3..41083d1 100644 --- a/applications/aphoria/src/extractors/sql_injection.rs +++ b/applications/aphoria/src/extractors/sql_injection.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for SQL injection vulnerabilities. /// @@ -107,7 +107,7 @@ impl SqlInjectionExtractor { path_segments: &[String], file: &str, description: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -117,7 +117,7 @@ impl SqlInjectionExtractor { concept_path.push("query".to_string()); concept_path.push("construction".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "construction".to_string(), value: ObjectValue::Text("interpolated".to_string()), @@ -155,7 +155,7 @@ impl Extractor for SqlInjectionExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); match language { @@ -235,6 +235,17 @@ impl Extractor for SqlInjectionExtractor { claims } + + fn screening_patterns(&self) -> Vec<&str> { + vec![ + r"(?i)format!.*SELECT|format!.*INSERT|format!.*UPDATE|format!.*DELETE", + r"(?i)Sprintf.*SELECT|Sprintf.*INSERT|Sprintf.*UPDATE", + r#"(?i)f".*SELECT|f".*INSERT|f".*UPDATE|f".*DELETE"#, + r"(?i)\.format\(.*SELECT|\.format\(.*INSERT", + r"(?i)%.*SELECT|%.*INSERT", + r"(?i)\+.*SELECT|\+.*INSERT|\+.*UPDATE", + ] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/ssrf.rs b/applications/aphoria/src/extractors/ssrf.rs index 738c7c6..ac476d1 100644 --- a/applications/aphoria/src/extractors/ssrf.rs +++ b/applications/aphoria/src/extractors/ssrf.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::traits::{build_claim, Extractor}; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for SSRF vulnerabilities. /// @@ -105,7 +105,7 @@ impl SsrfExtractor { matched: &str, category: &str, description: &str, - ) -> ExtractedClaim { + ) -> Observation { build_claim( path_segments, &["network", "ssrf", category], @@ -141,7 +141,7 @@ impl Extractor for SsrfExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -255,6 +255,19 @@ impl Extractor for SsrfExtractor { claims } + + fn screening_patterns(&self) -> Vec<&str> { + vec![ + r"requests\.get|requests\.post|requests\.request", + r"urllib", + r"httpx\.", + r"fetch\(", + r"axios\.", + r"http\.Get|http\.Post|http\.Do", + r"reqwest::get|reqwest::Client", + r"(?i)url\s*=.*request|url\s*=.*params|url\s*=.*query", + ] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/timeout_config.rs b/applications/aphoria/src/extractors/timeout_config.rs index 262fd46..febee78 100644 --- a/applications/aphoria/src/extractors/timeout_config.rs +++ b/applications/aphoria/src/extractors/timeout_config.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Configuration for timeout extraction thresholds. #[derive(Debug, Clone)] @@ -74,12 +74,12 @@ impl TimeoutConfigExtractor { context: &str, value: f64, description: &str, - ) -> ExtractedClaim { + ) -> Observation { let mut concept_path = path_segments.to_vec(); concept_path.push(context.to_string()); concept_path.push("timeout".to_string()); - ExtractedClaim { + Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "config_value".to_string(), value: ObjectValue::Number(value), @@ -164,7 +164,7 @@ impl Extractor for TimeoutConfigExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -225,6 +225,14 @@ impl Extractor for TimeoutConfigExtractor { claims } + + fn screening_patterns(&self) -> Vec<&str> { + vec![ + r"(?i)timeout", + r"(?i)read_timeout|write_timeout|connect_timeout", + r"(?i)request_timeout|idle_timeout|keep_alive", + ] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/tls_verify.rs b/applications/aphoria/src/extractors/tls_verify.rs index fb5c7aa..b47a538 100644 --- a/applications/aphoria/src/extractors/tls_verify.rs +++ b/applications/aphoria/src/extractors/tls_verify.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for TLS certificate verification settings. pub struct TlsVerifyExtractor { @@ -67,7 +67,7 @@ impl TlsVerifyExtractor { pattern: &Regex, path_segments: &[String], file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -76,7 +76,7 @@ impl TlsVerifyExtractor { concept_path.push("tls".to_string()); concept_path.push("cert_verification".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), @@ -117,7 +117,7 @@ impl Extractor for TlsVerifyExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); match language { @@ -173,6 +173,22 @@ impl Extractor for TlsVerifyExtractor { claims } + + fn verifiable_predicates(&self) -> Vec<(&str, &str)> { + vec![("tls/cert_verification", "enabled")] + } + + fn screening_patterns(&self) -> Vec<&str> { + vec![ + r"danger_accept_invalid", + r"accept_invalid_certs", + r"InsecureSkipVerify", + r"verify\s*=\s*False", + r"rejectUnauthorized", + r"NODE_TLS_REJECT_UNAUTHORIZED", + r"(?i)verify.*ssl|ssl.*verify|tls.*verify|verify.*tls", + ] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/tls_version.rs b/applications/aphoria/src/extractors/tls_version.rs index f4e28d7..5841f41 100644 --- a/applications/aphoria/src/extractors/tls_version.rs +++ b/applications/aphoria/src/extractors/tls_version.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for deprecated TLS version usage. /// @@ -146,7 +146,7 @@ impl TlsVersionExtractor { file: &str, version: &str, description: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -155,7 +155,7 @@ impl TlsVersionExtractor { concept_path.push("tls".to_string()); concept_path.push("min_version".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "version".to_string(), value: ObjectValue::Text(version.to_string()), @@ -198,7 +198,7 @@ impl Extractor for TlsVersionExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); match language { @@ -363,6 +363,10 @@ impl Extractor for TlsVersionExtractor { claims } + + fn verifiable_predicates(&self) -> Vec<(&str, &str)> { + vec![("tls/min_version", "version")] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/traits.rs b/applications/aphoria/src/extractors/traits.rs index d9e2de6..98958ba 100644 --- a/applications/aphoria/src/extractors/traits.rs +++ b/applications/aphoria/src/extractors/traits.rs @@ -2,7 +2,7 @@ use stemedb_core::types::ObjectValue; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Language, Observation}; // ============================================================================ // Shared Utilities for Extractors @@ -25,12 +25,12 @@ pub fn is_test_file(file: &str) -> bool { || lower.ends_with("_test.rs") } -/// Build an extracted claim with consistent formatting. +/// Build an observation with consistent formatting. /// -/// This is a helper for extractors to create claims with: +/// This is a helper for extractors to create observations with: /// - Consistent concept path format (`code://segment1/segment2/...`) /// - Automatic confidence reduction for test files -/// - Standard claim structure +/// - Standard observation structure #[allow(clippy::too_many_arguments)] pub fn build_claim( path_segments: &[String], @@ -42,7 +42,7 @@ pub fn build_claim( matched_text: &str, base_confidence: f32, description: &str, -) -> ExtractedClaim { +) -> Observation { let mut concept_path = path_segments.to_vec(); for segment in leaf_segments { concept_path.push((*segment).to_string()); @@ -50,7 +50,7 @@ pub fn build_claim( let confidence = if is_test_file(file) { base_confidence * 0.5 } else { base_confidence }; - ExtractedClaim { + Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: predicate.to_string(), value, @@ -62,9 +62,9 @@ pub fn build_claim( } } -/// Trait for claim extractors. +/// Trait for observation extractors. /// -/// Extractors scan file content and return claims about implicit decisions. +/// Extractors scan file content and return observations about implicit decisions. pub trait Extractor: Send + Sync { /// Unique identifier for this extractor. fn name(&self) -> &str; @@ -72,7 +72,7 @@ pub trait Extractor: Send + Sync { /// File types this extractor operates on. fn languages(&self) -> &[Language]; - /// Extract claims from a file's content. + /// Extract observations from a file's content. /// /// # Arguments /// @@ -83,14 +83,39 @@ pub trait Extractor: Send + Sync { /// /// # Returns /// - /// Zero or more extracted claims. + /// Zero or more extracted observations. fn extract( &self, path_segments: &[String], content: &str, language: Language, file: &str, - ) -> Vec; + ) -> Vec; + + /// Declare which observation predicates this extractor can verify. + /// + /// Returns `(tail_path_suffix, predicate)` pairs describing the concept paths + /// and predicates this extractor produces. Used by `verify map` to show + /// extractor→claim coverage. + /// + /// Tail-path suffixes use the last 2 segments of the concept path. + /// Wildcards are supported: `"imports/*"` matches `"imports/tokio"`, etc. + /// + /// Default: empty (backward compatible — observation-only extractor). + fn verifiable_predicates(&self) -> Vec<(&str, &str)> { + vec![] + } + + /// Return lightweight string patterns for pre-screening file content. + /// + /// The registry compiles these into a `RegexSet` for one-pass DFA matching. + /// If *any* pattern matches the file content, this extractor is selected to run. + /// + /// Return `vec![]` (the default) to **always run** this extractor on matching + /// language files — use this for extractors that are cheap or hard to pre-screen. + fn screening_patterns(&self) -> Vec<&str> { + vec![] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/unreal_config.rs b/applications/aphoria/src/extractors/unreal_config.rs index 4b4f5b4..fc149a0 100644 --- a/applications/aphoria/src/extractors/unreal_config.rs +++ b/applications/aphoria/src/extractors/unreal_config.rs @@ -11,7 +11,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for Unreal Engine INI patterns. pub struct UnrealConfigExtractor { @@ -59,7 +59,7 @@ impl UnrealConfigExtractor { category: &str, leaf: &str, desc_template: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -71,7 +71,7 @@ impl UnrealConfigExtractor { concept_path.push(category.to_string()); concept_path.push(leaf.to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "value".to_string(), value: ObjectValue::Number(val as f64), @@ -99,7 +99,7 @@ impl UnrealConfigExtractor { leaf: &str, predicate: &str, desc_template: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -110,7 +110,7 @@ impl UnrealConfigExtractor { concept_path.push(category.to_string()); concept_path.push(leaf.to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: predicate.to_string(), value: ObjectValue::Text(val_match.as_str().to_string()), @@ -143,7 +143,7 @@ impl Extractor for UnrealConfigExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { if language != Language::Ini { return vec![]; } diff --git a/applications/aphoria/src/extractors/unreal_cpp.rs b/applications/aphoria/src/extractors/unreal_cpp.rs index e76c1ba..2bee93d 100644 --- a/applications/aphoria/src/extractors/unreal_cpp.rs +++ b/applications/aphoria/src/extractors/unreal_cpp.rs @@ -11,7 +11,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for Unreal Engine C++ patterns. pub struct UnrealCppExtractor { @@ -57,7 +57,7 @@ impl UnrealCppExtractor { category: &str, leaf: &str, desc_template: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -67,7 +67,7 @@ impl UnrealCppExtractor { concept_path.push(category.to_string()); concept_path.push(leaf.to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "exposed".to_string(), // Default predicate value: ObjectValue::Boolean(true), @@ -99,7 +99,7 @@ impl Extractor for UnrealCppExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { if language != Language::Cpp { return vec![]; } diff --git a/applications/aphoria/src/extractors/unreal_performance.rs b/applications/aphoria/src/extractors/unreal_performance.rs index 9769bb1..df36349 100644 --- a/applications/aphoria/src/extractors/unreal_performance.rs +++ b/applications/aphoria/src/extractors/unreal_performance.rs @@ -8,7 +8,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for Unreal Engine performance patterns. pub struct UnrealPerformanceExtractor { @@ -46,7 +46,7 @@ impl UnrealPerformanceExtractor { file: &str, leaf: &str, desc_template: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -56,7 +56,7 @@ impl UnrealPerformanceExtractor { concept_path.push("performance".to_string()); concept_path.push(leaf.to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "sync_load".to_string(), value: ObjectValue::Boolean(true), @@ -88,7 +88,7 @@ impl Extractor for UnrealPerformanceExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { if language != Language::Cpp { return vec![]; } diff --git a/applications/aphoria/src/extractors/unsafe_atomic.rs b/applications/aphoria/src/extractors/unsafe_atomic.rs index ed240a4..05346b0 100644 --- a/applications/aphoria/src/extractors/unsafe_atomic.rs +++ b/applications/aphoria/src/extractors/unsafe_atomic.rs @@ -9,7 +9,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for unsafe blocks and atomic ordering patterns. /// @@ -70,7 +70,7 @@ impl Extractor for UnsafeAtomicExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); let confidence = self.confidence_for_file(file); @@ -92,7 +92,7 @@ impl Extractor for UnsafeAtomicExtractor { concept_path.push("atomics".to_string()); concept_path.push("ordering".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "pattern".to_string(), value: ObjectValue::Text(ordering.to_string()), @@ -117,7 +117,7 @@ impl Extractor for UnsafeAtomicExtractor { concept_path.push("unsafe".to_string()); concept_path.push("count".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "occurrences".to_string(), value: ObjectValue::Number(unsafe_count as f64), @@ -134,6 +134,13 @@ impl Extractor for UnsafeAtomicExtractor { claims } + + fn verifiable_predicates(&self) -> Vec<(&str, &str)> { + vec![ + ("atomics/ordering", "pattern"), + ("unsafe/count", "occurrences"), + ] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/unvalidated_redirects.rs b/applications/aphoria/src/extractors/unvalidated_redirects.rs index 7e864f8..3bcc421 100644 --- a/applications/aphoria/src/extractors/unvalidated_redirects.rs +++ b/applications/aphoria/src/extractors/unvalidated_redirects.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::traits::{build_claim, Extractor}; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for unvalidated redirect vulnerabilities. /// @@ -86,7 +86,7 @@ impl UnvalidatedRedirectsExtractor { matched: &str, category: &str, description: &str, - ) -> ExtractedClaim { + ) -> Observation { build_claim( path_segments, &["http", "redirect", category], @@ -116,7 +116,7 @@ impl Extractor for UnvalidatedRedirectsExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { diff --git a/applications/aphoria/src/extractors/weak_crypto.rs b/applications/aphoria/src/extractors/weak_crypto.rs index f6d82ce..b1e6ef7 100644 --- a/applications/aphoria/src/extractors/weak_crypto.rs +++ b/applications/aphoria/src/extractors/weak_crypto.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::Extractor; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for weak cryptographic algorithm usage. /// @@ -86,7 +86,7 @@ impl WeakCryptoExtractor { file: &str, algorithm: &str, description: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -96,7 +96,7 @@ impl WeakCryptoExtractor { concept_path.push("hashing".to_string()); concept_path.push("algorithm".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "algorithm".to_string(), value: ObjectValue::Text(algorithm.to_string()), @@ -120,7 +120,7 @@ impl WeakCryptoExtractor { file: &str, algorithm: &str, description: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { @@ -130,7 +130,7 @@ impl WeakCryptoExtractor { concept_path.push("encryption".to_string()); concept_path.push("algorithm".to_string()); - claims.push(ExtractedClaim { + claims.push(Observation { concept_path: format!("code://{}", concept_path.join("/")), predicate: "algorithm".to_string(), value: ObjectValue::Text(algorithm.to_string()), @@ -168,7 +168,7 @@ impl Extractor for WeakCryptoExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); match language { @@ -303,6 +303,22 @@ impl Extractor for WeakCryptoExtractor { claims } + + fn verifiable_predicates(&self) -> Vec<(&str, &str)> { + vec![ + ("hashing/algorithm", "algorithm"), + ("encryption/algorithm", "algorithm"), + ] + } + + fn screening_patterns(&self) -> Vec<&str> { + vec![ + r"(?i)md5|Md5", + r"(?i)sha1|sha-1|Sha1", + r"(?i)\bdes\b|DES|TripleDES|des-ede", + r"(?i)\brc4\b|RC4|arcfour", + ] + } } #[cfg(test)] diff --git a/applications/aphoria/src/extractors/weak_password.rs b/applications/aphoria/src/extractors/weak_password.rs index c00a5c9..8a93564 100644 --- a/applications/aphoria/src/extractors/weak_password.rs +++ b/applications/aphoria/src/extractors/weak_password.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::traits::{build_claim, Extractor}; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for weak password requirement configurations. /// @@ -92,7 +92,7 @@ impl WeakPasswordExtractor { category: &str, value: ObjectValue, description: &str, - ) -> ExtractedClaim { + ) -> Observation { build_claim( path_segments, &["auth", "password", "policy", category], @@ -131,7 +131,7 @@ impl Extractor for WeakPasswordExtractor { content: &str, _language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { diff --git a/applications/aphoria/src/extractors/xxe.rs b/applications/aphoria/src/extractors/xxe.rs index d798bba..5c9d110 100644 --- a/applications/aphoria/src/extractors/xxe.rs +++ b/applications/aphoria/src/extractors/xxe.rs @@ -7,7 +7,7 @@ use regex::Regex; use stemedb_core::types::ObjectValue; use super::traits::{build_claim, Extractor}; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// Extractor for XXE vulnerabilities. /// @@ -99,7 +99,7 @@ impl XxeExtractor { parser: &str, confidence: f32, description: &str, - ) -> ExtractedClaim { + ) -> Observation { build_claim( path_segments, &["xml", "parsing"], @@ -129,7 +129,7 @@ impl Extractor for XxeExtractor { content: &str, language: Language, file: &str, - ) -> Vec { + ) -> Vec { let mut claims = Vec::new(); for (line_idx, line) in content.lines().enumerate() { diff --git a/applications/aphoria/src/handlers/claims.rs b/applications/aphoria/src/handlers/claims.rs new file mode 100644 index 0000000..ac93c8c --- /dev/null +++ b/applications/aphoria/src/handlers/claims.rs @@ -0,0 +1,524 @@ +//! Command handlers for authored claims management. + +use std::process::ExitCode; + +use aphoria::claims_explain; +use aphoria::claims_file::ClaimsFile; +use aphoria::{parse_authority_tier, AuthoredClaim, AuthoredValue, ClaimStatus}; +use aphoria::AphoriaConfig; + +use crate::cli::ClaimsCommands; + +/// Find the project root by walking up from cwd looking for `.aphoria/claims.toml`. +/// +/// Falls back to cwd if no claims file is found in any parent. +fn project_root() -> Result { + let cwd = std::env::current_dir().map_err(|e| { + eprintln!("Error: cannot determine current directory: {e}"); + ExitCode::from(3) + })?; + + // Check cwd first + if cwd.join(".aphoria/claims.toml").exists() { + return Ok(cwd); + } + + // Walk up parents + let mut dir = cwd.as_path(); + while let Some(parent) = dir.parent() { + if parent.join(".aphoria/claims.toml").exists() { + return Ok(parent.to_path_buf()); + } + dir = parent; + } + + // Fall back to cwd (will return empty claims) + Ok(cwd) +} + +/// Handle claims subcommands. +pub async fn handle_claims_command(command: ClaimsCommands, config: &AphoriaConfig) -> ExitCode { + match command { + ClaimsCommands::Create { + id, + concept_path, + predicate, + value, + provenance, + invariant, + consequence, + tier, + evidence, + category, + by, + } => { + handle_claims_create( + id, + concept_path, + predicate, + value, + provenance, + invariant, + consequence, + tier, + evidence, + category, + by, + config, + ) + .await + } + ClaimsCommands::List { category, status, format } => { + handle_claims_list(category, status, format, config).await + } + ClaimsCommands::Explain { claim, output, format } => { + handle_claims_explain(claim, output, format, config).await + } + ClaimsCommands::Update { id, provenance, invariant, consequence, tier, evidence, category, value } => { + handle_claims_update(id, provenance, invariant, consequence, tier, evidence, category, value, config).await + } + ClaimsCommands::Supersede { id, new_id, value, provenance, invariant, consequence, tier, evidence, by } => { + handle_claims_supersede(id, new_id, value, provenance, invariant, consequence, tier, evidence, by, config).await + } + ClaimsCommands::Deprecate { id, reason } => { + handle_claims_deprecate(id, reason, config).await + } + } +} + +#[allow(clippy::too_many_arguments)] +async fn handle_claims_create( + id: String, + concept_path: String, + predicate: String, + value: String, + provenance: String, + invariant: String, + consequence: String, + tier: String, + evidence: Vec, + category: String, + by: String, + _config: &AphoriaConfig, +) -> ExitCode { + // Validate authority tier + if let Err(e) = parse_authority_tier(&tier) { + eprintln!("Error: {e}"); + return ExitCode::from(3); + } + + let root = match project_root() { + Ok(r) => r, + Err(code) => return code, + }; + let path = ClaimsFile::default_path(&root); + let mut claims_file = match ClaimsFile::load(&path) { + Ok(f) => f, + Err(e) => { + eprintln!("Error loading claims file: {e}"); + return ExitCode::from(3); + } + }; + + // Check for duplicate ID + if claims_file.find_by_id(&id).is_some() { + eprintln!("Error: Claim with ID '{id}' already exists"); + return ExitCode::from(3); + } + + let now = chrono::Utc::now().format("%Y-%m-%dT%H:%M:%SZ").to_string(); + + let claim = AuthoredClaim { + id: id.clone(), + concept_path, + predicate, + value: AuthoredValue::parse(&value), + comparison: Default::default(), + provenance, + invariant, + consequence, + authority_tier: tier.to_lowercase(), + evidence, + category, + status: ClaimStatus::Active, + supersedes: None, + created_by: by, + created_at: now, + updated_at: None, + }; + + claims_file.add(claim); + + if let Err(e) = claims_file.save(&path) { + eprintln!("Error saving claims file: {e}"); + return ExitCode::from(3); + } + + println!("Created claim '{id}' in {}", path.display()); + ExitCode::SUCCESS +} + +async fn handle_claims_list( + category: Option, + status: Option, + format: String, + _config: &AphoriaConfig, +) -> ExitCode { + let root = match project_root() { + Ok(r) => r, + Err(code) => return code, + }; + let path = ClaimsFile::default_path(&root); + let claims_file = match ClaimsFile::load(&path) { + Ok(f) => f, + Err(e) => { + eprintln!("Error loading claims file: {e}"); + return ExitCode::from(3); + } + }; + + let mut claims: Vec<&AuthoredClaim> = claims_file.claims.iter().collect(); + + // Filter by category + if let Some(ref cat) = category { + claims.retain(|c| c.category == *cat); + } + + // Filter by status + if let Some(ref st) = status { + let target = match st.to_lowercase().as_str() { + "active" => ClaimStatus::Active, + "deprecated" => ClaimStatus::Deprecated, + "superseded" => ClaimStatus::Superseded, + other => { + eprintln!("Unknown status: {other}. Expected: active, deprecated, superseded"); + return ExitCode::from(3); + } + }; + claims.retain(|c| c.status == target); + } + + if format == "json" { + let envelope = serde_json::json!({ + "type": "claims_list", + "total": claims.len(), + "claims": claims + }); + match serde_json::to_string_pretty(&envelope) { + Ok(json) => println!("{json}"), + Err(e) => { + eprintln!("Error serializing claims: {e}"); + return ExitCode::from(3); + } + } + } else { + // Table format + if claims.is_empty() { + println!("No claims found."); + return ExitCode::SUCCESS; + } + + let mut table = comfy_table::Table::new(); + table.set_header(vec!["ID", "Category", "Tier", "Status", "Invariant"]); + + for claim in &claims { + let invariant_short = if claim.invariant.len() > 50 { + format!("{}...", &claim.invariant[..47]) + } else { + claim.invariant.clone() + }; + table.add_row(vec![ + &claim.id, + &claim.category, + &claim.authority_tier, + &claim.status.to_string(), + &invariant_short, + ]); + } + + println!("{table}"); + println!("\n{} claim(s) total", claims.len()); + } + + ExitCode::SUCCESS +} + +async fn handle_claims_explain( + claim_id: Option, + output: Option, + format: String, + _config: &AphoriaConfig, +) -> ExitCode { + let root = match project_root() { + Ok(r) => r, + Err(code) => return code, + }; + let path = ClaimsFile::default_path(&root); + let claims_file = match ClaimsFile::load(&path) { + Ok(f) => f, + Err(e) => { + eprintln!("Error loading claims file: {e}"); + return ExitCode::from(3); + } + }; + + let project_name = root + .file_name() + .map(|n| n.to_string_lossy().to_string()) + .unwrap_or_else(|| "project".to_string()); + + let content = if let Some(ref id) = claim_id { + // Single claim + let claim = match claims_file.find_by_id(id) { + Some(c) => c, + None => { + eprintln!("Claim not found: {id}"); + return ExitCode::from(3); + } + }; + if format == "json" { + match claims_explain::render_claim_json(claim, &project_name) { + Ok(json) => json, + Err(e) => { + eprintln!("Error rendering claim: {e}"); + return ExitCode::from(3); + } + } + } else { + let mut out = String::new(); + claims_explain::render_single_claim(&mut out, claim); + out + } + } else { + // All claims + if format == "json" { + match claims_explain::render_claims_json(&claims_file.claims, &project_name) { + Ok(json) => json, + Err(e) => { + eprintln!("Error rendering claims: {e}"); + return ExitCode::from(3); + } + } + } else { + claims_explain::render_claims_markdown(&claims_file.claims, &project_name) + } + }; + + if let Some(ref out_path) = output { + if let Some(parent) = out_path.parent() { + if !parent.exists() { + if let Err(e) = std::fs::create_dir_all(parent) { + eprintln!("Error creating output directory: {e}"); + return ExitCode::from(3); + } + } + } + if let Err(e) = std::fs::write(out_path, &content) { + eprintln!("Error writing output: {e}"); + return ExitCode::from(3); + } + println!("Written to {}", out_path.display()); + } else { + println!("{content}"); + } + + ExitCode::SUCCESS +} + +#[allow(clippy::too_many_arguments)] +async fn handle_claims_update( + id: String, + provenance: Option, + invariant: Option, + consequence: Option, + tier: Option, + evidence: Vec, + category: Option, + value: Option, + _config: &AphoriaConfig, +) -> ExitCode { + // Validate tier if provided + if let Some(ref t) = tier { + if let Err(e) = parse_authority_tier(t) { + eprintln!("Error: {e}"); + return ExitCode::from(3); + } + } + + let root = match project_root() { + Ok(r) => r, + Err(code) => return code, + }; + let path = ClaimsFile::default_path(&root); + let mut claims_file = match ClaimsFile::load(&path) { + Ok(f) => f, + Err(e) => { + eprintln!("Error loading claims file: {e}"); + return ExitCode::from(3); + } + }; + + let now = chrono::Utc::now().format("%Y-%m-%dT%H:%M:%SZ").to_string(); + + let result = claims_file.update(&id, |c| { + if let Some(p) = provenance { + c.provenance = p; + } + if let Some(i) = invariant { + c.invariant = i; + } + if let Some(con) = consequence { + c.consequence = con; + } + if let Some(t) = tier { + c.authority_tier = t.to_lowercase(); + } + if !evidence.is_empty() { + for e in evidence { + if !c.evidence.contains(&e) { + c.evidence.push(e); + } + } + } + if let Some(cat) = category { + c.category = cat; + } + if let Some(v) = value { + c.value = AuthoredValue::parse(&v); + } + c.updated_at = Some(now); + }); + + if let Err(e) = result { + eprintln!("Error: {e}"); + return ExitCode::from(3); + } + + if let Err(e) = claims_file.save(&path) { + eprintln!("Error saving claims file: {e}"); + return ExitCode::from(3); + } + + println!("Updated claim '{id}'"); + ExitCode::SUCCESS +} + +#[allow(clippy::too_many_arguments)] +async fn handle_claims_supersede( + old_id: String, + new_id: Option, + value: Option, + provenance: Option, + invariant: Option, + consequence: Option, + tier: Option, + evidence: Vec, + by: Option, + _config: &AphoriaConfig, +) -> ExitCode { + let root = match project_root() { + Ok(r) => r, + Err(code) => return code, + }; + let path = ClaimsFile::default_path(&root); + let mut claims_file = match ClaimsFile::load(&path) { + Ok(f) => f, + Err(e) => { + eprintln!("Error loading claims file: {e}"); + return ExitCode::from(3); + } + }; + + // Get the old claim to copy fields from + let old_claim = match claims_file.find_by_id(&old_id) { + Some(c) => c.clone(), + None => { + eprintln!("Claim not found: {old_id}"); + return ExitCode::from(3); + } + }; + + let now = chrono::Utc::now().format("%Y-%m-%dT%H:%M:%SZ").to_string(); + let actual_new_id = new_id.unwrap_or_else(|| format!("{old_id}-v2")); + + // Check for duplicate + if claims_file.find_by_id(&actual_new_id).is_some() { + eprintln!("Error: Claim with ID '{actual_new_id}' already exists"); + return ExitCode::from(3); + } + + // Validate new tier if provided + let new_tier = tier.map(|t| t.to_lowercase()).unwrap_or(old_claim.authority_tier.clone()); + if let Err(e) = parse_authority_tier(&new_tier) { + eprintln!("Error: {e}"); + return ExitCode::from(3); + } + + let new_claim = AuthoredClaim { + id: actual_new_id.clone(), + concept_path: old_claim.concept_path.clone(), + predicate: old_claim.predicate.clone(), + value: value.map(|v| AuthoredValue::parse(&v)).unwrap_or(old_claim.value.clone()), + comparison: old_claim.comparison.clone(), + provenance: provenance.unwrap_or(old_claim.provenance.clone()), + invariant: invariant.unwrap_or(old_claim.invariant.clone()), + consequence: consequence.unwrap_or(old_claim.consequence.clone()), + authority_tier: new_tier, + evidence: if evidence.is_empty() { old_claim.evidence.clone() } else { evidence }, + category: old_claim.category.clone(), + status: ClaimStatus::Active, + supersedes: Some(old_id.clone()), + created_by: by.unwrap_or(old_claim.created_by.clone()), + created_at: now, + updated_at: None, + }; + + if let Err(e) = claims_file.supersede(&old_id, new_claim) { + eprintln!("Error: {e}"); + return ExitCode::from(3); + } + + if let Err(e) = claims_file.save(&path) { + eprintln!("Error saving claims file: {e}"); + return ExitCode::from(3); + } + + println!("Created claim '{actual_new_id}' superseding '{old_id}'"); + ExitCode::SUCCESS +} + +async fn handle_claims_deprecate(id: String, reason: String, _config: &AphoriaConfig) -> ExitCode { + let root = match project_root() { + Ok(r) => r, + Err(code) => return code, + }; + let path = ClaimsFile::default_path(&root); + let mut claims_file = match ClaimsFile::load(&path) { + Ok(f) => f, + Err(e) => { + eprintln!("Error loading claims file: {e}"); + return ExitCode::from(3); + } + }; + + let now = chrono::Utc::now().format("%Y-%m-%dT%H:%M:%SZ").to_string(); + + // Update the claim with deprecation info + let result = claims_file.update(&id, |c| { + c.status = ClaimStatus::Deprecated; + c.updated_at = Some(format!("{now} (deprecated: {reason})")); + }); + + if let Err(e) = result { + eprintln!("Error: {e}"); + return ExitCode::from(3); + } + + if let Err(e) = claims_file.save(&path) { + eprintln!("Error saving claims file: {e}"); + return ExitCode::from(3); + } + + println!("Deprecated claim '{id}': {reason}"); + ExitCode::SUCCESS +} diff --git a/applications/aphoria/src/handlers/corpus.rs b/applications/aphoria/src/handlers/corpus.rs index 78e2e10..a4ff495 100644 --- a/applications/aphoria/src/handlers/corpus.rs +++ b/applications/aphoria/src/handlers/corpus.rs @@ -43,6 +43,20 @@ pub async fn handle_corpus_command(command: CorpusCommands, config: &AphoriaConf } } + CorpusCommands::ExportPack { name, output, only, offline } => { + let only_parsed = only.map(|s| s.split(',').map(|s| s.trim().to_string()).collect()); + match aphoria::export_corpus_as_pack(name, output, only_parsed, offline, config).await { + Ok(count) => { + println!("Exported {count} assertions as Trust Pack"); + ExitCode::SUCCESS + } + Err(e) => { + eprintln!("Export error: {e}"); + ExitCode::from(3) + } + } + } + CorpusCommands::List => { let sources = aphoria::list_corpus_sources(config); println!("Available corpus sources:"); diff --git a/applications/aphoria/src/handlers/governance.rs b/applications/aphoria/src/handlers/governance.rs index 9b9f3b4..32ba2cf 100644 --- a/applications/aphoria/src/handlers/governance.rs +++ b/applications/aphoria/src/handlers/governance.rs @@ -19,6 +19,17 @@ pub async fn handle_governance_command( config: &AphoriaConfig, ) -> ExitCode { if !config.governance.enabled && !matches!(command, GovernanceCommands::Status { .. }) { + // For Pending: return empty results with exit 0 (not an error) + if let GovernanceCommands::Pending { format, .. } = &command { + if format == "json" { + println!("{{\"pending\": [], \"message\": \"Governance is not enabled\"}}"); + } else { + println!("Governance is not enabled. No pending requests."); + println!("\nTo enable: add [governance] enabled = true to aphoria.toml"); + } + return ExitCode::SUCCESS; + } + // All other commands that modify state still fail eprintln!("Governance is not enabled. Add [governance] enabled = true to aphoria.toml"); return ExitCode::from(1); } diff --git a/applications/aphoria/src/handlers/lifecycle.rs b/applications/aphoria/src/handlers/lifecycle.rs index 4290b26..70ce5ea 100644 --- a/applications/aphoria/src/handlers/lifecycle.rs +++ b/applications/aphoria/src/handlers/lifecycle.rs @@ -422,6 +422,9 @@ async fn handle_list( if results.is_empty() { println!("No patterns found matching criteria."); + println!(); + println!("Available statuses: active, deprecated, sunset"); + println!("To add patterns, promote an extractor: aphoria extractors promote "); return ExitCode::SUCCESS; } @@ -533,7 +536,10 @@ async fn handle_migration_status( } if progress_list.is_empty() { - println!("No migration data found."); + println!("No deprecated patterns with tracked migrations."); + println!(); + println!("Migrations are tracked automatically when deprecated patterns have usages."); + println!("Run 'aphoria lifecycle list --status deprecated' to see deprecated patterns."); return ExitCode::SUCCESS; } diff --git a/applications/aphoria/src/handlers/mod.rs b/applications/aphoria/src/handlers/mod.rs index 849ec97..ae54c80 100644 --- a/applications/aphoria/src/handlers/mod.rs +++ b/applications/aphoria/src/handlers/mod.rs @@ -6,6 +6,7 @@ use aphoria::AphoriaConfig; use crate::cli::Commands; +mod claims; mod corpus; mod eval; mod extractors; @@ -19,11 +20,14 @@ mod scan; mod scope; mod shadow; mod utils; +mod verify; // Re-export for public API compatibility. // These are used by the CLI binary but not within this module, // so we allow unused imports for the re-export pattern. #[allow(unused_imports)] +pub use claims::*; +#[allow(unused_imports)] pub use corpus::*; #[allow(unused_imports)] pub use eval::*; @@ -49,6 +53,8 @@ pub use scope::*; pub use shadow::*; #[allow(unused_imports)] pub use utils::*; +#[allow(unused_imports)] +pub use verify::*; /// Dispatch and execute CLI commands pub async fn handle_command(command: Commands, config: &AphoriaConfig) -> ExitCode { @@ -133,5 +139,223 @@ pub async fn handle_command(command: Commands, config: &AphoriaConfig) -> ExitCo } Commands::Audit { command } => governance::handle_audit_command(command, config).await, + + Commands::Claims { command } => claims::handle_claims_command(command, config).await, + + Commands::Verify { command } => verify::handle_verify_command(command, config).await, + + Commands::Coverage { path, format, sort_by } => { + let project_root = if path.as_os_str() == "." { + match std::env::current_dir() { + Ok(p) => p, + Err(e) => { + eprintln!("Cannot determine project root: {e}"); + return ExitCode::from(1); + } + } + } else { + path + }; + + // Load claims and run scan to get observations + let claims_path = aphoria::claims_file::ClaimsFile::default_path(&project_root); + let claims_file = match aphoria::claims_file::ClaimsFile::load(&claims_path) { + Ok(cf) => cf, + Err(_) => aphoria::claims_file::ClaimsFile::new(), + }; + + let scan_args = aphoria::ScanArgs { + path: project_root.clone(), + format: "table".to_string(), + exit_code_enabled: false, + mode: aphoria::ScanMode::Ephemeral, + debug: false, + sync: false, + file_source: aphoria::FileSource::All, + benchmark: false, + show_claims: true, + strict: false, + }; + + let observations = match aphoria::run_scan(scan_args, config).await { + Ok(result) => result.claims.unwrap_or_default(), + Err(e) => { + eprintln!("Scan error: {e}"); + return ExitCode::from(1); + } + }; + + let project_name = project_root + .file_name() + .and_then(|n| n.to_str()) + .unwrap_or("project"); + + let report = aphoria::compute_coverage(&claims_file.claims, &observations, project_name); + + let output = match format.as_str() { + "json" => aphoria::format_coverage_json(&report), + "markdown" => aphoria::format_coverage_markdown(&report), + _ => aphoria::format_coverage_table(&report, &sort_by), + }; + println!("{output}"); + ExitCode::SUCCESS + } + + Commands::Explain { path, output, format } => { + let project_root = if path.as_os_str() == "." { + match std::env::current_dir() { + Ok(p) => p, + Err(e) => { + eprintln!("Cannot determine project root: {e}"); + return ExitCode::from(1); + } + } + } else { + path + }; + + match gather_explain_data(&project_root, config).await { + Ok((claims, observations, project_name)) => { + let verify_report = aphoria::verify_claims(&claims, &observations); + let coverage_report = aphoria::compute_coverage_from_report( + &claims, &observations, &verify_report, &project_name, + ); + let text = aphoria::explain::generate_onboarding( + &claims, &verify_report, &coverage_report, &project_name, &format, + ); + write_or_print(&text, output.as_deref()) + } + Err(code) => code, + } + } + + Commands::Docs { command } => { + match command { + crate::cli::DocsCommands::Generate { path, output, format } => { + let project_root = if path.as_os_str() == "." { + match std::env::current_dir() { + Ok(p) => p, + Err(e) => { + eprintln!("Cannot determine project root: {e}"); + return ExitCode::from(1); + } + } + } else { + path + }; + + match gather_explain_data(&project_root, config).await { + Ok((claims, observations, project_name)) => { + let verify_report = aphoria::verify_claims(&claims, &observations); + let coverage_report = aphoria::compute_coverage_from_report( + &claims, &observations, &verify_report, &project_name, + ); + let text = aphoria::explain::generate_full_docs( + &claims, &verify_report, &coverage_report, &project_name, &format, + ); + write_or_print(&text, output.as_deref()) + } + Err(code) => code, + } + } + } + } + + Commands::TrustPack { command } => { + match command { + crate::cli::TrustPackCommands::Install { name, registry } => { + if let Some(registry_url) = registry { + eprintln!("Custom registry not yet supported: {registry_url}"); + eprintln!("Use a built-in pack name or omit --registry."); + return ExitCode::from(1); + } + match aphoria::trust_pack_registry::lookup(&name) { + Ok(entry) => { + println!("Trust Pack: {}", entry.name); + println!(" {}", entry.description); + println!(" Tier: {}", entry.tier); + println!(" URL: {}", entry.url); + println!(); + println!("Download not yet implemented (requires hosting infrastructure)."); + println!("For now, use `aphoria corpus build` to build assertions locally,"); + println!("or `aphoria policy import ` to import a .pack file."); + ExitCode::SUCCESS + } + Err(e) => { + eprintln!("{e}"); + ExitCode::from(1) + } + } + } + crate::cli::TrustPackCommands::List => { + let packs = aphoria::trust_pack_registry::list_packs(); + println!("Available Trust Packs:"); + println!(); + for pack in packs { + println!(" {} ({})", pack.name, pack.tier); + println!(" {}", pack.description); + } + println!(); + println!("Install with: aphoria trust-pack install "); + ExitCode::SUCCESS + } + } + } } } + +/// Gather claims + observations for explain/docs commands. +/// Returns (claims, observations, project_name) or an ExitCode on error. +async fn gather_explain_data( + project_root: &std::path::Path, + config: &AphoriaConfig, +) -> Result<(Vec, Vec, String), ExitCode> { + let claims_path = aphoria::claims_file::ClaimsFile::default_path(project_root); + let claims_file = match aphoria::claims_file::ClaimsFile::load(&claims_path) { + Ok(cf) => cf, + Err(_) => aphoria::claims_file::ClaimsFile::new(), + }; + + let scan_args = aphoria::ScanArgs { + path: project_root.to_path_buf(), + format: "table".to_string(), + exit_code_enabled: false, + mode: aphoria::ScanMode::Ephemeral, + debug: false, + sync: false, + file_source: aphoria::FileSource::All, + benchmark: false, + show_claims: true, + strict: false, + }; + + let observations = match aphoria::run_scan(scan_args, config).await { + Ok(result) => result.claims.unwrap_or_default(), + Err(e) => { + eprintln!("Scan error: {e}"); + return Err(ExitCode::from(1)); + } + }; + + let project_name = project_root + .file_name() + .and_then(|n| n.to_str()) + .unwrap_or("project") + .to_string(); + + Ok((claims_file.claims, observations, project_name)) +} + +/// Write text to a file or print to stdout. +fn write_or_print(text: &str, output: Option<&std::path::Path>) -> ExitCode { + if let Some(out_path) = output { + if let Err(e) = std::fs::write(out_path, text) { + eprintln!("Failed to write to {}: {e}", out_path.display()); + return ExitCode::from(1); + } + println!("Written to {}", out_path.display()); + } else { + println!("{text}"); + } + ExitCode::SUCCESS +} diff --git a/applications/aphoria/src/handlers/scan.rs b/applications/aphoria/src/handlers/scan.rs index 92f719d..12c4c13 100644 --- a/applications/aphoria/src/handlers/scan.rs +++ b/applications/aphoria/src/handlers/scan.rs @@ -38,6 +38,7 @@ pub async fn handle_scan( file_source, benchmark, show_claims, + strict, }; // Apply stricter thresholds if requested @@ -102,6 +103,7 @@ pub async fn handle_community_preview( file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let claims = match extract_claims(&args, config).await { diff --git a/applications/aphoria/src/handlers/verify.rs b/applications/aphoria/src/handlers/verify.rs new file mode 100644 index 0000000..34776a6 --- /dev/null +++ b/applications/aphoria/src/handlers/verify.rs @@ -0,0 +1,238 @@ +//! Command handlers for `aphoria verify`. + +use std::path::PathBuf; +use std::process::ExitCode; + +use aphoria::claims_file::ClaimsFile; +use aphoria::extractors::ExtractorRegistry; +use aphoria::report::{format_verify_json, format_verify_table}; +use aphoria::verify; +use aphoria::AphoriaConfig; + +use crate::cli::VerifyCommands; + +/// Dispatch a verify subcommand. +pub async fn handle_verify_command(command: VerifyCommands, config: &AphoriaConfig) -> ExitCode { + match command { + VerifyCommands::Run { + path, + format, + exit_code, + changed_only, + show_unclaimed, + claim, + category, + } => { + handle_verify_run( + path, + format, + exit_code, + changed_only, + show_unclaimed, + claim, + category, + config, + ) + .await + } + VerifyCommands::Map { path } => handle_verify_map(path, config).await, + } +} + +/// Run verification: extract observations, compare against claims. +#[allow(clippy::too_many_arguments)] +async fn handle_verify_run( + path: PathBuf, + format: String, + exit_code: bool, + changed_only: bool, + show_unclaimed: bool, + claim_filter: Vec, + category_filter: Option, + config: &AphoriaConfig, +) -> ExitCode { + let project_root = path.canonicalize().unwrap_or(path); + + // 1. Load claims from .aphoria/claims.toml + let claims_path = ClaimsFile::default_path(&project_root); + let claims_file = match ClaimsFile::load(&claims_path) { + Ok(cf) => cf, + Err(e) => { + eprintln!("Error loading claims file: {e}"); + return ExitCode::from(3); + } + }; + + if claims_file.is_empty() { + eprintln!("No claims found in {}", claims_path.display()); + eprintln!("Create claims with: aphoria claims create"); + return ExitCode::SUCCESS; + } + + // 2. Filter claims by ID or category if specified + let mut claims: Vec = claims_file.claims; + + if !claim_filter.is_empty() { + claims.retain(|c| claim_filter.contains(&c.id)); + } + if let Some(ref cat) = category_filter { + claims.retain(|c| c.category == *cat); + } + + // 3. Walk the project and extract observations + let files = if changed_only { + match aphoria::walker::walk_staged_files(&project_root, config) { + Ok(f) => f, + Err(e) => { + eprintln!("Error walking staged files: {e}"); + return ExitCode::from(3); + } + } + } else { + match aphoria::walker::walk_project(&project_root, config) { + Ok(f) => f, + Err(e) => { + eprintln!("Error walking project: {e}"); + return ExitCode::from(3); + } + } + }; + + let registry = ExtractorRegistry::new(config); + let mut all_observations = Vec::new(); + for file in &files { + let content = match std::fs::read_to_string(&file.path) { + Ok(c) => c, + Err(_) => continue, + }; + let obs = registry.extract_all( + &file.path_segments, + &content, + file.language, + &file.relative_path, + ); + all_observations.extend(obs); + } + + // 4. Run verification + let report = verify::verify_claims(&claims, &all_observations); + + // 5. Format and output + let project_name = project_root + .file_name() + .and_then(|n| n.to_str()) + .unwrap_or("project"); + + let output = match format.as_str() { + "json" => format_verify_json(&report, show_unclaimed), + _ => format_verify_table(&report, project_name, show_unclaimed), + }; + + println!("{output}"); + + // 6. Exit codes: 0=pass, 1=missing/unclaimed, 2=conflicts, 3=error + if !exit_code { + return ExitCode::SUCCESS; + } + + if report.summary.conflict > 0 { + ExitCode::from(2) + } else if report.summary.missing > 0 { + ExitCode::from(1) + } else { + ExitCode::SUCCESS + } +} + +/// Show the mapping between extractors and claims. +async fn handle_verify_map(path: PathBuf, config: &AphoriaConfig) -> ExitCode { + let project_root = path.canonicalize().unwrap_or(path); + + // Load claims + let claims_path = ClaimsFile::default_path(&project_root); + let claims_file = match ClaimsFile::load(&claims_path) { + Ok(cf) => cf, + Err(e) => { + eprintln!("Error loading claims file: {e}"); + return ExitCode::from(3); + } + }; + + let registry = ExtractorRegistry::new(config); + + println!("Extractor → Claim Mapping"); + println!("{}", "=".repeat(60)); + println!(); + + if claims_file.is_empty() { + println!("No authored claims found."); + println!(); + println!("Registered Extractors ({}):", registry.extractor_names().len()); + for name in ®istry.extractor_names() { + let preds = registry + .extractors() + .iter() + .find(|e| e.name() == *name) + .map(|e| e.verifiable_predicates()) + .unwrap_or_default(); + if preds.is_empty() { + println!(" {name} (no declared predicates)"); + } else { + let pred_strs: Vec = + preds.iter().map(|(tp, p)| format!("{tp}::{p}")).collect(); + println!(" {name} [{}]", pred_strs.join(", ")); + } + } + } else { + let map = verify::compute_extractor_claim_map(&claims_file.claims, registry.extractors()); + + // Show per-claim coverage + println!("Claim Coverage ({} active claims):", map.claim_mappings.len()); + println!(); + + let mut covered = 0usize; + for mapping in &map.claim_mappings { + if mapping.covering_extractors.is_empty() { + println!( + " {} ({}) -> NO EXTRACTOR", + mapping.claim_id, mapping.claim_tail_path + ); + } else { + println!( + " {} ({}) -> {}", + mapping.claim_id, + mapping.claim_tail_path, + mapping.covering_extractors.join(", ") + ); + covered += 1; + } + } + + println!(); + let total = map.claim_mappings.len(); + println!( + "Coverage: {covered}/{total} claims have covering extractors ({:.0}%)", + if total > 0 { + (covered as f64 / total as f64) * 100.0 + } else { + 0.0 + } + ); + + // Show extractors that declare predicates but have no matching claims + if !map.unmatched_extractors.is_empty() { + println!(); + println!( + "Extractors with declared predicates but no matching claims ({}):", + map.unmatched_extractors.len() + ); + for ext in &map.unmatched_extractors { + let pred_strs: Vec = + ext.predicates.iter().map(|(tp, p)| format!("{tp}::{p}")).collect(); + println!(" {} [{}]", ext.name, pred_strs.join(", ")); + } + } + } + + ExitCode::SUCCESS +} diff --git a/applications/aphoria/src/init.rs b/applications/aphoria/src/init.rs index 8c266f7..161c298 100644 --- a/applications/aphoria/src/init.rs +++ b/applications/aphoria/src/init.rs @@ -39,6 +39,18 @@ pub async fn show_status(config: &AphoriaConfig) -> Result output.push_str(" Agent key: not generated\n"); } + let claims_path = project_root.join(".aphoria/claims.toml"); + if claims_path.exists() { + if let Ok(claims_file) = crate::claims_file::ClaimsFile::load(&claims_path) { + let active = claims_file.claims.iter() + .filter(|c| c.status == crate::types::authored_claim::ClaimStatus::Active) + .count(); + output.push_str(&format!(" Claims: {} ({} active)\n", claims_file.claims.len(), active)); + } + } else { + output.push_str(" Claims: none (run 'aphoria claims create' to add)\n"); + } + Ok(output) } diff --git a/applications/aphoria/src/learning/types.rs b/applications/aphoria/src/learning/types.rs index d1e8b89..d46e4d0 100644 --- a/applications/aphoria/src/learning/types.rs +++ b/applications/aphoria/src/learning/types.rs @@ -42,7 +42,7 @@ impl std::fmt::Display for ValueType { /// Template for generating claims from a learned pattern. /// -/// Describes how to create an `ExtractedClaim` when the pattern matches. +/// Describes how to create an `Observation` when the pattern matches. #[derive(Debug, Clone, Serialize, Deserialize)] pub struct ClaimTemplate { /// Subject path template (e.g., "tls/min_version", "db/pool_size"). diff --git a/applications/aphoria/src/lib.rs b/applications/aphoria/src/lib.rs index f0e8d55..1d2642b 100644 --- a/applications/aphoria/src/lib.rs +++ b/applications/aphoria/src/lib.rs @@ -4,6 +4,16 @@ //! and checks them against authoritative sources. It finds the places where what //! your code *does* contradicts what the specs *say*. //! +//! ## Observations vs Claims +//! +//! **Observations** are pattern matches extracted by regex-based extractors. +//! They lack provenance, invariants, and consequences—they're just grep results. +//! Observations are assigned Tier 4/5 based on confidence. +//! +//! **Claims** (`AuthoredClaim`) are human-authored assertions with full Episteme semantics: +//! provenance, invariants, consequences, authority tiers, and evidence chains. +//! These are stored in `.aphoria/claims.toml` and managed with `aphoria claim` commands. +//! //! # Architecture //! //! ```text @@ -42,15 +52,22 @@ pub mod ack_file; mod baseline; pub mod bridge; +pub mod claim_store; +pub mod claims_explain; +pub mod claims_file; pub mod community; mod config; +pub mod coverage; pub mod corpus; mod corpus_build; mod episteme; pub mod scope; -pub use episteme::{current_timestamp, current_timestamp_millis}; +pub use episteme::{ + compute_tier_breakdown, current_timestamp, current_timestamp_millis, AphoriaAuthorityLens, +}; mod error; pub mod eval; +pub mod explain; pub mod evidence; pub mod expiry; pub mod extractors; @@ -68,11 +85,16 @@ pub mod research; mod research_commands; mod scan; pub mod shadow; +pub mod trust_pack_registry; mod types; -mod walker; +pub mod verify; +pub mod walker; // Public re-exports pub use baseline::{set_baseline, show_diff}; +pub use bridge::{ + authored_claim_to_assertion, observation_to_assertion, observation_to_tier, +}; pub use community::{ compute_pattern_hash, AnonymizedObservation, CommunityClaimDef, CommunityExtractor, CommunityExtractorLoader, CommunityExtractorProvenance, CommunityObjectValue, PatternAggregate, @@ -83,15 +105,19 @@ pub use config::{ GovernanceConfig, HostedConfig, LearningConfig, LlmConfig, OfflineFallback, PredicateAliasConfig, PromotionConfig, ShadowConfig, SyncMode, }; +pub use coverage::{ + compute_coverage, compute_coverage_from_report, format_coverage_json, format_coverage_markdown, + format_coverage_table, CoverageReport, CoverageSummary, ModuleCoverage, +}; pub use corpus::{CorpusBuildResult, CorpusBuilderInfo, CorpusRegistry}; -pub use corpus_build::{build_corpus, list_corpus_sources, CorpusBuildArgs}; +pub use corpus_build::{build_corpus, export_corpus_as_pack, list_corpus_sources, CorpusBuildArgs}; pub use error::AphoriaError; pub use eval::{ BaselineComparison, BaselineMetrics, CategoryMetrics, ClaimMatcher, CorpusManifest, CorpusMetadata, EvalDatabase, EvalHarness, EvalMode, EvalResult, EvalRunConfig, EvalVerdict, ExpectedClaim, FinalClaim, Fixture, FixtureExpected, FixtureInput, FixtureLoader, FixtureMetadata, FixtureResult, FixtureScoring, FixtureStatus, FixtureSummary, MatchResult, - Metrics, Observation, ParsedClaim, Report, ReportFormat, ValidationError, + Metrics, Observation as EvalObservation, ParsedClaim, Report, ReportFormat, ValidationError, }; pub use evidence::{EvidenceDetector, EvidenceLevel, EvidenceSource, PatternEvidence}; pub use governance::{ @@ -109,8 +135,9 @@ pub use lifecycle::{ }; pub use policy::{PackPredicateAliasSet, PolicyManager, SignatureRecord, TrustPack}; pub use policy_ops::{ - acknowledge, bless, export_acks, export_policy, import_acks, import_policy, parse_value, - resign_policy, update, AckExportStats, AckImportStats, ImportStats, ResignStats, + acknowledge, bless, export_acks, export_claims_as_policy, export_policy, import_acks, + import_policy, parse_value, resign_policy, update, AckExportStats, AckImportStats, ImportStats, + ResignStats, }; pub use promotion::{ compute_metrics_delta, display_candidate, display_candidates_summary, ChangelogEntry, @@ -133,10 +160,19 @@ pub use shadow::{ ShadowDecision, ShadowDecisionKind, ShadowExecutor, ShadowExtractorRegistry, ShadowMatch, ShadowMetrics, ShadowStatus, ShadowStore, ShadowTest, }; +#[allow(deprecated)] +pub use types::ExtractedClaim; // Backward compat alias for Observation pub use types::{ - extract_leaf_concept, predicates, AcknowledgeArgs, BlessArgs, ConflictResult, ConflictTrace, - DeprecatedUsageResult, ExtractedClaim, FileSource, PolicySourceInfo, PredicateAliasSet, - ScanArgs, ScanMode, ScanResult, UpdateArgs, Verdict, + extract_leaf_concept, format_authority_tier, parse_authority_tier, predicates, + AcknowledgeArgs, AuthoredClaim, AuthoredValue, BlessArgs, ClaimStatus, ClaimValue, + ComparisonMode, ConflictResult, ConflictTrace, DeprecatedUsageResult, FileSource, Observation, + PolicySourceInfo, PredicateAliasSet, ScanArgs, ScanMode, ScanResult, TierBreakdown, UpdateArgs, + Verdict, +}; +pub use claim_store::{ClaimFilter, ClaimStore, ImportStats as ClaimImportStats, TomlClaimStore}; +pub use verify::{ + compute_extractor_claim_map, tail_path, verify_claims, AuditVerdict, ExtractorClaimMap, + ExtractorClaimMapping, UnmatchedExtractor, VerifyReport, VerifyResult, VerifySummary, }; #[cfg(test)] diff --git a/applications/aphoria/src/llm/extractor.rs b/applications/aphoria/src/llm/extractor.rs index 73dea43..07f48ff 100644 --- a/applications/aphoria/src/llm/extractor.rs +++ b/applications/aphoria/src/llm/extractor.rs @@ -26,7 +26,7 @@ use crate::llm::prompts::{ DEFAULT_SYSTEM_PROMPT, }; use crate::llm::types::{LlmClaim, LlmClaimsResponse}; -use crate::types::{ExtractedClaim, Language}; +use crate::types::{Observation, Language}; /// LLM-based claim extractor with ontology awareness. pub struct LlmExtractor { @@ -138,7 +138,7 @@ impl LlmExtractor { content: &str, language: Language, file_path: &str, - ) -> Vec { + ) -> Vec { // Check token budget if !self.within_budget() { debug!("Token budget exhausted, skipping LLM extraction"); @@ -236,7 +236,7 @@ impl LlmExtractor { } } - /// Parse LLM JSON response into ExtractedClaim structs. + /// Parse LLM JSON response into Observation structs. /// /// When vocabulary is available, validates claims against the ontology /// and uses fuzzy matching to correct near-misses. @@ -245,7 +245,7 @@ impl LlmExtractor { json: &str, concept_prefix: &str, file_path: &str, - ) -> Vec { + ) -> Vec { // Try to extract JSON from response (may have markdown code blocks) let json_str = extract_json(json); @@ -265,7 +265,7 @@ impl LlmExtractor { .collect() } - /// Validate a claim against the ontology and transform it to an ExtractedClaim. + /// Validate a claim against the ontology and transform it to an Observation. /// /// Returns None if the claim doesn't match any known concept. fn validate_and_transform_claim( @@ -273,7 +273,7 @@ impl LlmExtractor { claim: LlmClaim, concept_prefix: &str, file_path: &str, - ) -> Option { + ) -> Option { let value = match claim.value_type.as_str() { "boolean" => claim .value @@ -296,7 +296,7 @@ impl LlmExtractor { // If no vocabulary, accept all claims (backwards compatibility) let Some(vocab) = &self.vocabulary else { - return Some(ExtractedClaim { + return Some(Observation { concept_path: format!("{}/{}", concept_prefix, claim.subject), predicate: claim.predicate, value, @@ -315,7 +315,7 @@ impl LlmExtractor { predicate = %claim.predicate, "Claim matched ontology concept" ); - return Some(ExtractedClaim { + return Some(Observation { concept_path: format!("{}/{}", concept_prefix, concept.leaf_path), predicate: concept.predicate.clone(), value, @@ -343,7 +343,7 @@ impl LlmExtractor { matched = %concept.leaf_path, "Fuzzy matched claim to authority concept" ); - return Some(ExtractedClaim { + return Some(Observation { concept_path: format!("{}/{}", concept_prefix, concept.leaf_path), predicate: concept.predicate.clone(), value, diff --git a/applications/aphoria/src/llm/mod.rs b/applications/aphoria/src/llm/mod.rs index 06b2e26..10573f6 100644 --- a/applications/aphoria/src/llm/mod.rs +++ b/applications/aphoria/src/llm/mod.rs @@ -13,7 +13,7 @@ //! (skip if no) (return cached) (parse JSON) //! | //! v -//! [Vec] +//! [Vec] //! ``` //! //! # Ontology-Aware Extraction diff --git a/applications/aphoria/src/policy_ops.rs b/applications/aphoria/src/policy_ops.rs index 7dce393..76ebf7a 100644 --- a/applications/aphoria/src/policy_ops.rs +++ b/applications/aphoria/src/policy_ops.rs @@ -9,7 +9,7 @@ use crate::config::AphoriaConfig; use crate::episteme::LocalEpisteme; use crate::error::AphoriaError; use crate::policy::{PackPredicateAliasSet, SignatureRecord, TrustPack}; -use crate::types::{predicates, AcknowledgeArgs, ExtractedClaim, UpdateArgs}; +use crate::types::{predicates, AcknowledgeArgs, Observation, UpdateArgs}; /// Export policy from the current project. /// @@ -259,7 +259,7 @@ pub async fn acknowledge( }); // Create acknowledgment assertion with JSON payload - let claim = ExtractedClaim { + let claim = Observation { concept_path: args.concept_path.clone(), predicate: predicates::ACKNOWLEDGED.to_string(), value: stemedb_core::types::ObjectValue::Text(ack_payload.to_string()), @@ -317,7 +317,7 @@ pub async fn bless(args: BlessArgs, config: &AphoriaConfig) -> Result<(), Aphori let value = parse_value(&args.value); // Create the blessed assertion with the actual predicate (not "acknowledged") - let claim = ExtractedClaim { + let claim = Observation { concept_path: args.concept_path.clone(), predicate: args.predicate.clone(), // The actual predicate, not "acknowledged" value, @@ -363,7 +363,7 @@ pub async fn update(args: UpdateArgs, config: &AphoriaConfig) -> Result<(), Apho let value = parse_value(&args.value); // Create policy update assertion - let claim = ExtractedClaim { + let claim = Observation { concept_path: args.concept_path.clone(), predicate: predicates::POLICY_UPDATE.to_string(), value, @@ -650,7 +650,7 @@ pub async fn import_acks( }); // Create acknowledgment assertion - let claim = ExtractedClaim { + let claim = Observation { concept_path: entry.path.clone(), predicate: predicates::ACKNOWLEDGED.to_string(), value: stemedb_core::types::ObjectValue::Text(ack_payload.to_string()), @@ -671,3 +671,164 @@ pub async fn import_acks( Ok(stats) } + +/// Export authored claims from `.aphoria/claims.toml` as a signed Trust Pack. +/// +/// This bridges A2 claims authoring with Trust Pack distribution — authored claims +/// can be packaged and shared across projects. +#[instrument(skip(config), fields(name = %name, output = %output.display()))] +pub async fn export_claims_as_policy( + name: String, + output: PathBuf, + config: &AphoriaConfig, +) -> Result { + use crate::claims_file::ClaimsFile; + use crate::types::authored_claim::ClaimStatus; + + info!("Exporting authored claims as Trust Pack"); + + let project_root = std::env::current_dir()?; + let claims_path = ClaimsFile::default_path(&project_root); + let claims_file = ClaimsFile::load(&claims_path)?; + + // Only export active claims + let active_claims: Vec<_> = claims_file + .find_by_status(&ClaimStatus::Active) + .into_iter() + .cloned() + .collect(); + + if active_claims.is_empty() { + return Err(AphoriaError::Claims( + "No active claims found in .aphoria/claims.toml".to_string(), + )); + } + + let signing_key = bridge::load_or_generate_key(&project_root)?; + let timestamp = crate::current_timestamp(); + + // Convert authored claims to assertions + let mut assertions = Vec::with_capacity(active_claims.len()); + for claim in &active_claims { + let assertion = bridge::authored_claim_to_assertion(claim, &signing_key, timestamp)?; + assertions.push(assertion); + } + + let assertion_count = assertions.len(); + + // Include predicate aliases from config + let predicate_aliases: Vec = config + .predicate_aliases + .to_alias_sets() + .iter() + .map(PackPredicateAliasSet::from) + .collect(); + + let pack = TrustPack::new_with_predicate_aliases( + name, + "0.1.0".to_string(), + assertions, + vec![], // No aliases for claim packs + predicate_aliases, + &signing_key, + config.trust_pack.signer_name.clone(), + config.trust_pack.contact.clone(), + )?; + + pack.save(&output)?; + + info!( + claims = assertion_count, + output = %output.display(), + "Authored claims exported as Trust Pack" + ); + Ok(assertion_count) +} + +#[cfg(test)] +mod tests { + use super::*; + + #[tokio::test] + async fn test_export_claims_as_policy_empty_claims_file() { + use crate::claims_file::ClaimsFile; + + let tmp = tempfile::tempdir().expect("tmpdir"); + let aphoria_dir = tmp.path().join(".aphoria"); + std::fs::create_dir_all(&aphoria_dir).expect("mkdir"); + + // Write an empty claims file + let claims = ClaimsFile::new(); + let claims_path = ClaimsFile::default_path(tmp.path()); + claims.save(&claims_path).expect("save"); + + let config = AphoriaConfig::default(); + let output = tmp.path().join("out.pack"); + + // Run from the temp directory so current_dir() resolves correctly + let original_dir = std::env::current_dir().expect("cwd"); + std::env::set_current_dir(tmp.path()).expect("chdir"); + + let result = export_claims_as_policy("test".to_string(), output, &config).await; + + // Restore original directory + std::env::set_current_dir(original_dir).expect("restore"); + + assert!(result.is_err()); + let err_msg = format!("{}", result.unwrap_err()); + assert!( + err_msg.contains("No active claims"), + "Expected 'No active claims' error, got: {err_msg}" + ); + } + + #[test] + fn test_parse_value_boolean() { + let val = parse_value("true"); + assert!(matches!(val, stemedb_core::types::ObjectValue::Boolean(true))); + + let val = parse_value("false"); + assert!(matches!(val, stemedb_core::types::ObjectValue::Boolean(false))); + + let val = parse_value("TRUE"); + assert!(matches!(val, stemedb_core::types::ObjectValue::Boolean(true))); + } + + #[test] + fn test_parse_value_number() { + let val = parse_value("42.5"); + match val { + stemedb_core::types::ObjectValue::Number(n) => { + assert!((n - 42.5).abs() < f64::EPSILON); + } + _ => panic!("Expected Number"), + } + + let val = parse_value("100"); + match val { + stemedb_core::types::ObjectValue::Number(n) => { + assert!((n - 100.0).abs() < f64::EPSILON); + } + _ => panic!("Expected Number"), + } + } + + #[test] + fn test_parse_value_rejects_nan_and_infinity() { + // NaN and Infinity should be parsed as Text to avoid downstream issues + let val = parse_value("NaN"); + assert!(matches!(val, stemedb_core::types::ObjectValue::Text(_))); + + let val = parse_value("Infinity"); + assert!(matches!(val, stemedb_core::types::ObjectValue::Text(_))); + } + + #[test] + fn test_parse_value_text() { + let val = parse_value("some text"); + assert!(matches!(val, stemedb_core::types::ObjectValue::Text(_))); + + let val = parse_value("environment_or_vault"); + assert!(matches!(val, stemedb_core::types::ObjectValue::Text(_))); + } +} diff --git a/applications/aphoria/src/report/json.rs b/applications/aphoria/src/report/json.rs index f744aad..82ca1b1 100644 --- a/applications/aphoria/src/report/json.rs +++ b/applications/aphoria/src/report/json.rs @@ -81,6 +81,21 @@ impl ReportFormatter for JsonReport { conflict_json["acknowledged"] = ack_json; } + if let Some(breakdown) = &conflict.tier_breakdown { + let tb_json: Vec = breakdown + .iter() + .map(|tb| { + serde_json::json!({ + "tier": tb.tier, + "source_class": format!("{:?}", tb.source_class), + "assertion_count": tb.assertion_count, + "max_confidence": tb.max_confidence, + }) + }) + .collect(); + conflict_json["tier_breakdown"] = serde_json::json!(tb_json); + } + conflict_json }) .collect(); @@ -136,6 +151,7 @@ impl ReportFormatter for JsonReport { let mut report = serde_json::json!({ "project": result.project, "scan_id": result.scan_id, + "strict": result.strict, "summary": { "files_scanned": result.files_scanned, "claims_extracted": result.claims_extracted, @@ -195,7 +211,7 @@ impl ReportFormatter for JsonReport { #[cfg(test)] mod tests { use super::*; - use crate::types::{ConflictResult, ConflictingSource, ExtractedClaim}; + use crate::types::{ConflictResult, ConflictingSource, Observation}; use stemedb_core::types::{ObjectValue, SourceClass}; #[test] @@ -207,7 +223,7 @@ mod tests { files_scanned: 10, claims_extracted: 3, conflicts: vec![ConflictResult { - claim: ExtractedClaim { + claim: Observation { concept_path: "code://rust/test/jwt/aud".to_string(), predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), @@ -229,10 +245,12 @@ mod tests { verdict: Verdict::Block, acknowledged: None, trace: None, + tier_breakdown: None, }], drifts: vec![], format: "json".to_string(), debug: false, + strict: false, observations_recorded: 0, timing: None, claims: None, diff --git a/applications/aphoria/src/report/markdown.rs b/applications/aphoria/src/report/markdown.rs index 54b006b..9743be0 100644 --- a/applications/aphoria/src/report/markdown.rs +++ b/applications/aphoria/src/report/markdown.rs @@ -23,12 +23,16 @@ impl ReportFormatter for MarkdownReport { String::new() }; out.push_str(&format!( - "**{}** files scanned | **{}** claims extracted | **{}** conflicts{}\n\n", + "**{}** files scanned | **{}** claims extracted | **{}** conflicts{}\n", result.files_scanned, result.claims_extracted, result.conflicts.len(), drift_info )); + if result.strict { + out.push_str("\n**Mode:** strict (BLOCK >= 0.50, FLAG >= 0.30)\n"); + } + out.push('\n'); if result.conflicts.is_empty() && result.drifts.is_empty() { out.push_str("No conflicts or drifts found.\n"); @@ -153,6 +157,15 @@ impl ReportFormatter for MarkdownReport { out.push_str(&format!("- **Score:** {:.2}\n", conflict.conflict_score)); + // Show tier breakdown in debug mode + if let Some(breakdown) = &conflict.tier_breakdown { + let parts: Vec = breakdown + .iter() + .map(|tb| format!("{:?} (Tier {})", tb.source_class, tb.tier)) + .collect(); + out.push_str(&format!("- **Authority:** {}\n", parts.join(" > "))); + } + if let Some(ack) = &conflict.acknowledged { if ack.expired { // Expired acknowledgment @@ -289,7 +302,7 @@ impl ReportFormatter for MarkdownReport { #[cfg(test)] mod tests { use super::*; - use crate::types::{ConflictResult, ConflictingSource, ExtractedClaim}; + use crate::types::{ConflictResult, ConflictingSource, Observation}; use stemedb_core::types::{ObjectValue, SourceClass}; #[test] @@ -301,7 +314,7 @@ mod tests { files_scanned: 20, claims_extracted: 4, conflicts: vec![ConflictResult { - claim: ExtractedClaim { + claim: Observation { concept_path: "code://rust/test/cors/allow_origin".to_string(), predicate: "config_value".to_string(), value: ObjectValue::Text("*".to_string()), @@ -323,10 +336,12 @@ mod tests { verdict: Verdict::Block, acknowledged: None, trace: None, + tier_breakdown: None, }], drifts: vec![], format: "markdown".to_string(), debug: false, + strict: false, observations_recorded: 0, timing: None, claims: None, diff --git a/applications/aphoria/src/report/mod.rs b/applications/aphoria/src/report/mod.rs index f4b4bef..abbf7f0 100644 --- a/applications/aphoria/src/report/mod.rs +++ b/applications/aphoria/src/report/mod.rs @@ -10,11 +10,15 @@ mod json; mod markdown; mod sarif; mod table; +pub mod verify_json; +pub mod verify_table; pub use json::JsonReport; pub use markdown::MarkdownReport; pub use sarif::SarifReport; pub use table::TableReport; +pub use verify_json::format_verify_json; +pub use verify_table::format_verify_table; use crate::types::{ScanResult, Verdict}; diff --git a/applications/aphoria/src/report/sarif.rs b/applications/aphoria/src/report/sarif.rs index 8aa4c53..3213c60 100644 --- a/applications/aphoria/src/report/sarif.rs +++ b/applications/aphoria/src/report/sarif.rs @@ -119,6 +119,26 @@ impl ReportFormatter for SarifReport { source_details.join("; ") ); + let mut properties = serde_json::json!({ + "conflict_score": conflict.conflict_score, + "verdict": verdict_label(conflict.verdict), + }); + + if let Some(breakdown) = &conflict.tier_breakdown { + let tb_json: Vec = breakdown + .iter() + .map(|tb| { + serde_json::json!({ + "tier": tb.tier, + "source_class": format!("{:?}", tb.source_class), + "assertion_count": tb.assertion_count, + "max_confidence": tb.max_confidence, + }) + }) + .collect(); + properties["tier_breakdown"] = serde_json::json!(tb_json); + } + serde_json::json!({ "ruleId": rule_id, "ruleIndex": rule_index, @@ -137,10 +157,7 @@ impl ReportFormatter for SarifReport { } } }], - "properties": { - "conflict_score": conflict.conflict_score, - "verdict": verdict_label(conflict.verdict), - } + "properties": properties, }) }) .collect(); @@ -382,6 +399,7 @@ impl ReportFormatter for SarifReport { "claims_extracted": result.claims_extracted, "drifts_detected": result.drift_count(), "deprecated_usages": result.deprecated_usage_count(), + "strict": result.strict, } }] }] @@ -412,7 +430,7 @@ fn extract_rule_id(concept_path: &str) -> String { #[cfg(test)] mod tests { use super::*; - use crate::types::{ConflictResult, ConflictingSource, ExtractedClaim}; + use crate::types::{ConflictResult, ConflictingSource, Observation}; use stemedb_core::types::{ObjectValue, SourceClass}; #[test] @@ -424,7 +442,7 @@ mod tests { files_scanned: 42, claims_extracted: 5, conflicts: vec![ConflictResult { - claim: ExtractedClaim { + claim: Observation { concept_path: "code://rust/testproject/tls/cert_verification".to_string(), predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), @@ -446,10 +464,12 @@ mod tests { verdict: Verdict::Block, acknowledged: None, trace: None, + tier_breakdown: None, }], drifts: vec![], format: "sarif".to_string(), debug: false, + strict: false, observations_recorded: 0, timing: None, claims: None, diff --git a/applications/aphoria/src/report/table.rs b/applications/aphoria/src/report/table.rs index eeb742f..0b96fec 100644 --- a/applications/aphoria/src/report/table.rs +++ b/applications/aphoria/src/report/table.rs @@ -23,12 +23,16 @@ impl ReportFormatter for TableReport { String::new() }; output.push_str(&format!( - "Scanned: {} files | Claims: {} | Conflicts: {}{}\n\n", + "Scanned: {} files | Claims: {} | Conflicts: {}{}\n", result.files_scanned, result.claims_extracted, result.conflicts.len(), drift_info )); + if result.strict { + output.push_str("Mode: strict (BLOCK >= 0.50, FLAG >= 0.30)\n"); + } + output.push('\n'); if result.conflicts.is_empty() && result.drifts.is_empty() { output.push_str("No conflicts or drifts found.\n"); @@ -195,6 +199,26 @@ impl ReportFormatter for TableReport { output.push_str(" Action: Review recommended\n"); } + // Show tier breakdown in debug mode + if let Some(breakdown) = &conflict.tier_breakdown { + output.push_str(" Authority: "); + let parts: Vec = breakdown + .iter() + .map(|tb| format!("{:?} (Tier {})", tb.source_class, tb.tier)) + .collect(); + output.push_str(&parts.join(" > ")); + output.push('\n'); + } + + // Show full conflict trace in debug mode + if result.debug { + if let Some(trace) = &conflict.trace { + output.push_str(&format!(" Trace: code = \"{}\"\n", trace.code_claim)); + output.push_str(&format!(" auth = \"{}\"\n", trace.authority_match)); + output.push_str(&format!(" score = {:.2} → {}\n", trace.conflict_score, trace.resolution)); + } + } + output.push('\n'); } } @@ -364,7 +388,7 @@ fn format_number(n: usize) -> String { #[cfg(test)] mod tests { use super::*; - use crate::types::{ConflictResult, ConflictingSource, ExtractedClaim}; + use crate::types::{ConflictResult, ConflictingSource, Observation}; use stemedb_core::types::{ObjectValue, SourceClass}; fn sample_result() -> ScanResult { @@ -374,7 +398,7 @@ mod tests { files_scanned: 42, claims_extracted: 5, conflicts: vec![ConflictResult { - claim: ExtractedClaim { + claim: Observation { concept_path: "code://rust/testproject/tls/cert_verification".to_string(), predicate: "enabled".to_string(), value: ObjectValue::Boolean(false), @@ -396,10 +420,12 @@ mod tests { verdict: Verdict::Block, acknowledged: None, trace: None, + tier_breakdown: None, }], drifts: vec![], format: "table".to_string(), debug: false, + strict: false, observations_recorded: 0, timing: None, claims: None, diff --git a/applications/aphoria/src/report/verify_json.rs b/applications/aphoria/src/report/verify_json.rs new file mode 100644 index 0000000..11f079e --- /dev/null +++ b/applications/aphoria/src/report/verify_json.rs @@ -0,0 +1,84 @@ +//! JSON-formatted output for verification reports. + +use crate::report::object_value_to_json; +use crate::verify::{AuditVerdict, VerifyReport}; + +/// Format a verification report as JSON. +pub fn format_verify_json(report: &VerifyReport, show_unclaimed: bool) -> String { + let results: Vec = report + .results + .iter() + .filter(|r| r.verdict != AuditVerdict::Unclaimed || show_unclaimed) + .map(|r| { + let observations: Vec = r + .matching_observations + .iter() + .map(|o| { + serde_json::json!({ + "concept_path": o.concept_path, + "predicate": o.predicate, + "value": object_value_to_json(&o.value), + "file": o.file, + "line": o.line, + "confidence": o.confidence, + }) + }) + .collect(); + + if let Some(ref claim) = r.claim { + serde_json::json!({ + "claim_id": claim.id, + "concept_path": claim.concept_path, + "predicate": claim.predicate, + "verdict": r.verdict, + "comparison": claim.comparison.to_string(), + "explanation": r.explanation, + "matching_observations": observations, + }) + } else { + // Unclaimed observation — no backing claim + let obs = r.matching_observations.first(); + serde_json::json!({ + "claim_id": serde_json::Value::Null, + "concept_path": obs.map(|o| o.concept_path.as_str()).unwrap_or(""), + "predicate": obs.map(|o| o.predicate.as_str()).unwrap_or(""), + "verdict": r.verdict, + "comparison": serde_json::Value::Null, + "explanation": r.explanation, + "matching_observations": observations, + }) + } + }) + .collect(); + + let output = serde_json::json!({ + "summary": { + "total_claims": report.summary.total_claims, + "pass": report.summary.pass, + "conflict": report.summary.conflict, + "missing": report.summary.missing, + "unclaimed": report.summary.unclaimed, + }, + "results": results, + }); + + serde_json::to_string_pretty(&output).unwrap_or_else(|_| "{}".to_string()) +} + +#[cfg(test)] +mod tests { + use super::*; + use crate::verify::{VerifyReport, VerifySummary}; + + #[test] + fn test_empty_report_json() { + let report = VerifyReport { + results: vec![], + summary: VerifySummary::default(), + }; + let output = format_verify_json(&report, false); + let parsed: serde_json::Value = serde_json::from_str(&output).expect("valid json"); + assert_eq!(parsed["summary"]["total_claims"], 0); + assert_eq!(parsed["results"].as_array().map(|a| a.len()), Some(0)); + } +} diff --git a/applications/aphoria/src/report/verify_table.rs b/applications/aphoria/src/report/verify_table.rs new file mode 100644 index 0000000..ab72198 --- /dev/null +++ b/applications/aphoria/src/report/verify_table.rs @@ -0,0 +1,134 @@ +//! Table-formatted output for verification reports. + +use crate::verify::{AuditVerdict, VerifyReport}; + +/// Format a verification report as a terminal table. +pub fn format_verify_table(report: &VerifyReport, project_name: &str, show_unclaimed: bool) -> String { + let mut out = String::new(); + + out.push_str(&format!("Aphoria Verify - {project_name}\n")); + out.push_str(&"=".repeat(60)); + out.push('\n'); + out.push('\n'); + + let mut has_output = false; + + for result in &report.results { + if result.verdict == AuditVerdict::Unclaimed && !show_unclaimed { + continue; + } + + has_output = true; + let label = match result.verdict { + AuditVerdict::Pass => " PASS ", + AuditVerdict::Conflict => " CONFLICT", + AuditVerdict::Missing => " MISSING ", + AuditVerdict::Unclaimed => " UNCLAIMD", + }; + + // Claim summary line + let (claim_id, value_display) = if let Some(ref claim) = result.claim { + let display = match claim.comparison { + crate::types::ComparisonMode::Absent => { + format!("{} (absent)", claim.concept_path) + } + crate::types::ComparisonMode::Present => { + format!("{} (present)", claim.concept_path) + } + _ => { + format!( + "{}/{} = {}", + claim.concept_path, claim.predicate, claim.value + ) + } + }; + (claim.id.as_str(), display) + } else { + // Unclaimed observation — no backing claim + let display = if let Some(obs) = result.matching_observations.first() { + format!("{} ({})", obs.concept_path, obs.predicate) + } else { + "(unclaimed)".to_string() + }; + ("(unclaimed)", display) + }; + + out.push_str(&format!("{label} {claim_id} | {value_display}\n")); + + // Detail lines + match result.verdict { + AuditVerdict::Pass => { + if let Some(obs) = result.matching_observations.first() { + out.push_str(&format!( + " Matched: {}:{} (confidence {:.1})\n", + obs.file, obs.line, obs.confidence + )); + } + } + AuditVerdict::Conflict => { + for obs in &result.matching_observations { + out.push_str(&format!( + " Found: {}:{} ({} = {:?})\n", + obs.file, obs.line, obs.predicate, obs.value + )); + } + if let Some(ref claim) = result.claim { + if !claim.consequence.is_empty() { + out.push_str(&format!( + " Consequence: {}\n", + claim.consequence + )); + } + } + } + AuditVerdict::Missing => { + out.push_str(" No matching observation found\n"); + } + AuditVerdict::Unclaimed => { + for obs in &result.matching_observations { + out.push_str(&format!( + " At: {}:{}\n", + obs.file, obs.line + )); + } + } + } + out.push('\n'); + } + + if !has_output { + out.push_str(" No results to display.\n\n"); + } + + out.push_str(&"=".repeat(60)); + out.push('\n'); + + let s = &report.summary; + out.push_str(&format!( + "Claims: {} total | {} pass | {} conflict | {} missing", + s.total_claims, s.pass, s.conflict, s.missing + )); + if show_unclaimed { + out.push_str(&format!(" | {} unclaimed", s.unclaimed)); + } + out.push('\n'); + + out +} + +#[cfg(test)] +mod tests { + use super::*; + use crate::verify::{VerifyReport, VerifySummary}; + + #[test] + fn test_empty_report() { + let report = VerifyReport { + results: vec![], + summary: VerifySummary::default(), + }; + let output = format_verify_table(&report, "test-project", false); + assert!(output.contains("Aphoria Verify - test-project")); + assert!(output.contains("0 total")); + } +} diff --git a/applications/aphoria/src/research/gap_detector.rs b/applications/aphoria/src/research/gap_detector.rs index 655a43d..7e3eb68 100644 --- a/applications/aphoria/src/research/gap_detector.rs +++ b/applications/aphoria/src/research/gap_detector.rs @@ -8,7 +8,7 @@ use std::collections::HashSet; use tracing::{debug, instrument}; use crate::episteme::ConceptIndex; -use crate::types::ExtractedClaim; +use crate::types::Observation; /// A detected gap in authoritative coverage. #[derive(Debug, Clone)] @@ -37,7 +37,7 @@ pub struct Gap { impl Gap { /// Create a gap from an extracted claim. - pub fn from_claim(claim: &ExtractedClaim) -> Self { + pub fn from_claim(claim: &Observation) -> Self { let topic = extract_topic(&claim.concept_path); Self { @@ -71,7 +71,7 @@ impl Gap { /// /// A vector of detected gaps, deduplicated by topic+predicate. #[instrument(skip(claims, index), fields(claim_count = claims.len()))] -pub fn detect_gaps(claims: &[ExtractedClaim], index: &ConceptIndex) -> Vec { +pub fn detect_gaps(claims: &[Observation], index: &ConceptIndex) -> Vec { let mut gaps = Vec::new(); let mut seen_keys = HashSet::new(); @@ -127,8 +127,8 @@ mod tests { use super::*; use stemedb_core::types::ObjectValue; - fn make_claim(concept_path: &str, predicate: &str) -> ExtractedClaim { - ExtractedClaim { + fn make_claim(concept_path: &str, predicate: &str) -> Observation { + Observation { concept_path: concept_path.to_string(), predicate: predicate.to_string(), value: ObjectValue::Boolean(true), diff --git a/applications/aphoria/src/research/tests.rs b/applications/aphoria/src/research/tests.rs index 1314ba2..8201ac6 100644 --- a/applications/aphoria/src/research/tests.rs +++ b/applications/aphoria/src/research/tests.rs @@ -4,11 +4,11 @@ use tempfile::TempDir; use super::*; use crate::episteme::ConceptIndex; -use crate::types::ExtractedClaim; +use crate::types::Observation; use stemedb_core::types::ObjectValue; -fn make_claim(concept_path: &str, predicate: &str) -> ExtractedClaim { - ExtractedClaim { +fn make_claim(concept_path: &str, predicate: &str) -> Observation { + Observation { concept_path: concept_path.to_string(), predicate: predicate.to_string(), value: ObjectValue::Boolean(true), diff --git a/applications/aphoria/src/research_commands.rs b/applications/aphoria/src/research_commands.rs index 7ccca6a..be5865c 100644 --- a/applications/aphoria/src/research_commands.rs +++ b/applications/aphoria/src/research_commands.rs @@ -5,7 +5,7 @@ use crate::bridge; use crate::episteme::{self, ConceptIndex}; use crate::research::{self, GapRecord, GapStore, ResearchConfig, ResearchOutcome, Researcher}; -use crate::{AphoriaConfig, AphoriaError, ExtractedClaim}; +use crate::{AphoriaConfig, AphoriaError, Observation}; use tracing::{info, instrument}; /// Arguments for the research command. @@ -139,7 +139,7 @@ pub async fn run_research( /// This should be called after each scan to track gaps for research. #[instrument(skip(config, claims, index), fields(claim_count = claims.len()))] pub async fn record_scan_gaps( - claims: &[ExtractedClaim], + claims: &[Observation], index: &ConceptIndex, project_id: &str, config: &AphoriaConfig, diff --git a/applications/aphoria/src/scan/filter.rs b/applications/aphoria/src/scan/filter.rs index 7cad46c..87a1bde 100644 --- a/applications/aphoria/src/scan/filter.rs +++ b/applications/aphoria/src/scan/filter.rs @@ -9,7 +9,7 @@ use crate::config::AphoriaConfig; use crate::learning::{ normalize_pattern, ClaimTemplate, LearnedPattern, LocalPatternStore, PatternStore, ValueType, }; -use crate::types::{ExtractedClaim, Language, ScanMode}; +use crate::types::{Observation, Language, ScanMode}; /// Process extracted claims with optional pattern learning. /// @@ -57,7 +57,7 @@ impl ClaimProcessor { /// Record learned patterns for LLM-extracted claims. /// /// Returns the number of patterns recorded. - pub fn record_patterns(&self, claims: &[ExtractedClaim], language: Language) -> usize { + pub fn record_patterns(&self, claims: &[Observation], language: Language) -> usize { let Some(ref store) = self.pattern_store else { return 0; }; @@ -94,7 +94,7 @@ impl ClaimProcessor { /// Returns true if a pattern was recorded or updated successfully. fn record_learned_pattern( store: &LocalPatternStore, - claim: &ExtractedClaim, + claim: &Observation, language: Language, project_hash: &str, max_patterns: Option, diff --git a/applications/aphoria/src/scan/scanner.rs b/applications/aphoria/src/scan/scanner.rs index dbc9594..54a7b04 100644 --- a/applications/aphoria/src/scan/scanner.rs +++ b/applications/aphoria/src/scan/scanner.rs @@ -6,7 +6,7 @@ use std::time::Instant; use tracing::{info, instrument}; -use crate::bridge::{self, claim_to_observation}; +use crate::bridge::{self, observation_to_assertion}; use crate::config::{AphoriaConfig, SyncMode}; use crate::episteme::{ create_authoritative_corpus, current_timestamp_millis, ConceptIndex, EphemeralDetector, @@ -16,7 +16,7 @@ use crate::error::AphoriaError; use crate::hosted::HostedClient; use crate::policy::PolicyManager; use crate::types::{ - ConflictResult, DriftResult, ExtractedClaim, FileSource, ScanArgs, ScanMode, ScanResult, + ConflictResult, DriftResult, Observation, FileSource, ScanArgs, ScanMode, ScanResult, ScanTiming, }; use crate::walker::{walk_project, walk_staged_files}; @@ -109,6 +109,7 @@ pub async fn run_scan(args: ScanArgs, config: &AphoriaConfig) -> Result usize { /// Check claims for conflicts using either ephemeral or persistent mode. async fn check_conflicts( args: &ScanArgs, - all_claims: &[ExtractedClaim], + all_claims: &[Observation], project_root: &Path, config: &AphoriaConfig, ) -> Result { @@ -152,7 +153,7 @@ async fn check_conflicts( /// Fast in-memory conflict detection (no persistence). fn check_conflicts_ephemeral( - all_claims: &[ExtractedClaim], + all_claims: &[Observation], project_root: &Path, config: &AphoriaConfig, debug: bool, @@ -193,7 +194,7 @@ fn check_conflicts_ephemeral( /// - `remote-only`: Only push to remote (no local storage) /// - `local-and-remote`: Store locally AND push to remote async fn check_conflicts_persistent( - all_claims: &[ExtractedClaim], + all_claims: &[Observation], project_root: &Path, config: &AphoriaConfig, sync: bool, @@ -304,7 +305,7 @@ async fn check_conflicts_persistent( let observations: Vec<_> = novel_claims .iter() - .map(|c| claim_to_observation(c, &signing_key, timestamp)) + .map(|c| observation_to_assertion(c, &signing_key, timestamp)) .collect(); remote_count = client.push_observations(observations)?; @@ -337,7 +338,7 @@ pub fn generate_scan_id() -> String { pub async fn extract_claims( args: &ScanArgs, config: &AphoriaConfig, -) -> Result, AphoriaError> { +) -> Result, AphoriaError> { info!("Extracting claims for preview"); let project_root = args.path.canonicalize().unwrap_or_else(|_| args.path.clone()); diff --git a/applications/aphoria/src/scan/walker.rs b/applications/aphoria/src/scan/walker.rs index 416e741..7c7ccd5 100644 --- a/applications/aphoria/src/scan/walker.rs +++ b/applications/aphoria/src/scan/walker.rs @@ -2,6 +2,7 @@ use std::path::Path; +use rayon::prelude::*; use tracing::{info, warn}; use crate::config::AphoriaConfig; @@ -9,7 +10,7 @@ use crate::corpus::{CorpusBuilder, HardcodedCorpusBuilder}; use crate::error::AphoriaError; use crate::extractors::ExtractorRegistry; use crate::llm::{is_high_value_file, GeminiClient, LlmCache, LlmExtractor, OntologyVocabulary}; -use crate::types::{ExtractedClaim, ScanMode}; +use crate::types::{Observation, ScanMode}; use super::filter::ClaimProcessor; @@ -20,14 +21,16 @@ use super::filter::ClaimProcessor; /// LLM-extracted claims are recorded for potential promotion to declarative extractors. /// /// The `project_root` is used to compute a stable project hash for pattern learning. +/// +/// When LLM extraction is not active (the common case), file extraction is parallelized +/// across all available cores using rayon for significant speedup on large codebases. pub fn extract_claims_from_files( files: &[crate::walker::WalkedFile], config: &AphoriaConfig, mode: ScanMode, project_root: &Path, -) -> Result, AphoriaError> { +) -> Result, AphoriaError> { let registry = ExtractorRegistry::new(config); - let mut all_claims = Vec::new(); // Initialize LLM extractor ONLY in persistent mode with LLM enabled let llm_extractor = if mode == ScanMode::Persistent && config.llm.enabled { @@ -49,9 +52,38 @@ pub fn extract_claims_from_files( None }; - // Initialize claim processor for pattern learning + // Fast path: no LLM — pure parallel regex extraction across all cores + if llm_extractor.is_none() { + let all_claims: Vec = files + .par_iter() + .flat_map(|file| { + let content = match std::fs::read_to_string(&file.path) { + Ok(c) => c, + Err(e) => { + warn!(file = %file.relative_path, error = %e, "Failed to read file"); + return vec![]; + } + }; + registry.extract_all( + &file.path_segments, + &content, + file.language, + &file.relative_path, + ) + }) + .collect(); + return Ok(all_claims); + } + + // Slow path: LLM extraction stays sequential (HTTP rate limits, token budgets, + // mutable pattern learning state) + // Safety: llm_extractor is guaranteed Some — we returned early on None above + let Some(ref llm) = llm_extractor else { + return Ok(Vec::new()); + }; let processor = ClaimProcessor::new(mode, config, project_root)?; + let mut all_claims = Vec::new(); let mut llm_files_processed = 0; let mut llm_claims_found = 0; let mut patterns_recorded = 0; @@ -66,33 +98,34 @@ pub fn extract_claims_from_files( }; // Run regex extractors first - let regex_claims = - registry.extract_all(&file.path_segments, &content, file.language, &file.relative_path); + let regex_claims = registry.extract_all( + &file.path_segments, + &content, + file.language, + &file.relative_path, + ); - // If no regex claims AND LLM available AND file is high-value, try LLM extraction + // If no regex claims AND file is high-value, try LLM extraction if regex_claims.is_empty() { - if let Some(ref llm) = llm_extractor { - // Only call LLM if high_value_only is false OR file is high-value - let should_try_llm = - !config.llm.high_value_only || is_high_value_file(&file.relative_path); + let should_try_llm = + !config.llm.high_value_only || is_high_value_file(&file.relative_path); - if should_try_llm { - let claims = llm.extract( - &file.path_segments, - &content, - file.language, - &file.relative_path, - ); - if !claims.is_empty() { - llm_files_processed += 1; - llm_claims_found += claims.len(); + if should_try_llm { + let claims = llm.extract( + &file.path_segments, + &content, + file.language, + &file.relative_path, + ); + if !claims.is_empty() { + llm_files_processed += 1; + llm_claims_found += claims.len(); - // Record patterns for LLM-extracted claims (if learning enabled) - let count = processor.record_patterns(&claims, file.language); - patterns_recorded += count; - } - all_claims.extend(claims); + // Record patterns for LLM-extracted claims (if learning enabled) + let count = processor.record_patterns(&claims, file.language); + patterns_recorded += count; } + all_claims.extend(claims); } } else { all_claims.extend(regex_claims); @@ -100,15 +133,13 @@ pub fn extract_claims_from_files( } // Log LLM usage summary - if let Some(ref llm) = llm_extractor { - info!( - tokens_used = llm.tokens_used(), - budget = config.llm.max_tokens_per_scan, - files_processed = llm_files_processed, - claims_found = llm_claims_found, - "LLM extraction complete" - ); - } + info!( + tokens_used = llm.tokens_used(), + budget = config.llm.max_tokens_per_scan, + files_processed = llm_files_processed, + claims_found = llm_claims_found, + "LLM extraction complete" + ); // Log pattern learning summary if patterns_recorded > 0 { diff --git a/applications/aphoria/src/tests/conflict_detection.rs b/applications/aphoria/src/tests/conflict_detection.rs index 51f0790..bc4fcbb 100644 --- a/applications/aphoria/src/tests/conflict_detection.rs +++ b/applications/aphoria/src/tests/conflict_detection.rs @@ -46,6 +46,7 @@ async fn test_conflict_detection_tls_disabled() { file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let mut config = AphoriaConfig::default(); @@ -114,6 +115,7 @@ async fn test_conflict_detection_jwt_audience_disabled() { file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let mut config = AphoriaConfig::default(); @@ -184,6 +186,7 @@ async fn test_no_conflicts_when_compliant() { file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let mut config = AphoriaConfig::default(); diff --git a/applications/aphoria/src/tests/drift_detection.rs b/applications/aphoria/src/tests/drift_detection.rs index f63457f..437826f 100644 --- a/applications/aphoria/src/tests/drift_detection.rs +++ b/applications/aphoria/src/tests/drift_detection.rs @@ -13,11 +13,11 @@ use std::path::PathBuf; use stemedb_core::types::ObjectValue; use crate::report::{JsonReport, ReportFormatter, SarifReport, TableReport}; -use crate::types::{DriftResult, ExtractedClaim, PriorObservation, ScanResult, Verdict}; +use crate::types::{DriftResult, Observation, PriorObservation, ScanResult, Verdict}; /// Helper to create a test claim -fn make_claim(concept_path: &str, value: ObjectValue) -> ExtractedClaim { - ExtractedClaim { +fn make_claim(concept_path: &str, value: ObjectValue) -> Observation { + Observation { concept_path: concept_path.to_string(), predicate: "config_value".to_string(), value, @@ -30,7 +30,7 @@ fn make_claim(concept_path: &str, value: ObjectValue) -> ExtractedClaim { } /// Helper to create a drift result -fn make_drift(claim: ExtractedClaim, prior_value: ObjectValue) -> DriftResult { +fn make_drift(claim: Observation, prior_value: ObjectValue) -> DriftResult { DriftResult { claim, prior: PriorObservation { @@ -65,6 +65,7 @@ fn test_scan_result_has_drifts() { drifts: vec![drift], format: "table".to_string(), debug: false, + strict: false, observations_recorded: 0, timing: None, deprecated_usages: vec![], @@ -99,6 +100,7 @@ fn test_drift_json_output_format() { drifts: vec![drift], format: "json".to_string(), debug: false, + strict: false, observations_recorded: 0, timing: None, deprecated_usages: vec![], @@ -135,6 +137,7 @@ fn test_drift_sarif_output_format() { drifts: vec![drift], format: "sarif".to_string(), debug: false, + strict: false, observations_recorded: 0, timing: None, deprecated_usages: vec![], @@ -173,6 +176,7 @@ fn test_drift_table_output_format() { drifts: vec![drift], format: "table".to_string(), debug: false, + strict: false, observations_recorded: 0, timing: None, deprecated_usages: vec![], diff --git a/applications/aphoria/src/tests/golden_path.rs b/applications/aphoria/src/tests/golden_path.rs index 63f45f1..a559b79 100644 --- a/applications/aphoria/src/tests/golden_path.rs +++ b/applications/aphoria/src/tests/golden_path.rs @@ -30,7 +30,7 @@ async fn test_golden_path_bless_export_import_scan() { .expect("open A"); // Create blessed assertion (not "acknowledged", but the actual predicate "enabled") - let claim = ExtractedClaim { + let claim = Observation { concept_path: "code://rust/acme/grpc/tls".to_string(), predicate: "enabled".to_string(), value: stemedb_core::types::ObjectValue::Boolean(true), @@ -52,7 +52,7 @@ async fn test_golden_path_bless_export_import_scan() { let signing_key = crate::bridge::load_or_generate_key(temp_dir_a.path()).expect("load key A"); // Create a blessed assertion for the pack using the bridge helper - let blessed_claim = ExtractedClaim { + let blessed_claim = Observation { concept_path: "code://rust/acme/grpc/tls".to_string(), predicate: "enabled".to_string(), value: stemedb_core::types::ObjectValue::Boolean(true), @@ -129,6 +129,7 @@ version = "0.1.0" file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let result = run_scan(args, &config_b).await.expect("scan should succeed"); diff --git a/applications/aphoria/src/tests/mod.rs b/applications/aphoria/src/tests/mod.rs index 8add7e1..3277686 100644 --- a/applications/aphoria/src/tests/mod.rs +++ b/applications/aphoria/src/tests/mod.rs @@ -24,3 +24,4 @@ mod predicate_alias_persistence; mod scan_basic; mod scan_modes; mod staged_scanning; +mod verify; diff --git a/applications/aphoria/src/tests/policy_source.rs b/applications/aphoria/src/tests/policy_source.rs index d2550ae..4322e16 100644 --- a/applications/aphoria/src/tests/policy_source.rs +++ b/applications/aphoria/src/tests/policy_source.rs @@ -19,7 +19,7 @@ async fn test_policy_source_info_in_conflict() { let signing_key = crate::bridge::load_or_generate_key(temp_dir.path()).expect("load key"); // Create assertion using bridge helper - let tls_claim = ExtractedClaim { + let tls_claim = Observation { concept_path: "rfc://custom/tls/cert_verification".to_string(), predicate: "enabled".to_string(), value: stemedb_core::types::ObjectValue::Boolean(true), @@ -90,7 +90,7 @@ async fn test_persistent_mode_policy_source_tracking() { .unwrap_or(0); // Create assertion using bridge helper - let policy_claim = ExtractedClaim { + let policy_claim = Observation { concept_path: "rfc://persistent/test/policy".to_string(), predicate: "enabled".to_string(), value: stemedb_core::types::ObjectValue::Boolean(true), diff --git a/applications/aphoria/src/tests/predicate_alias_persistence.rs b/applications/aphoria/src/tests/predicate_alias_persistence.rs index c566628..7408a2b 100644 --- a/applications/aphoria/src/tests/predicate_alias_persistence.rs +++ b/applications/aphoria/src/tests/predicate_alias_persistence.rs @@ -23,7 +23,7 @@ async fn test_predicate_alias_persistence_during_import() { let signing_key = crate::bridge::load_or_generate_key(temp_dir.path()).expect("load key"); // Create a simple assertion - let claim = ExtractedClaim { + let claim = Observation { concept_path: "rfc://test/tls/cert".to_string(), predicate: "required".to_string(), // Note: uses alias, not canonical value: stemedb_core::types::ObjectValue::Boolean(true), @@ -103,7 +103,7 @@ async fn test_predicate_alias_survives_restart() { .map(|d| d.as_secs()) .unwrap_or(0); - let claim = ExtractedClaim { + let claim = Observation { concept_path: "rfc://test/jwt/signing".to_string(), predicate: "permitted".to_string(), value: stemedb_core::types::ObjectValue::Boolean(true), @@ -173,7 +173,7 @@ async fn test_predicate_alias_merge_from_multiple_packs() { config.episteme.data_dir = temp_dir.path().join(".aphoria").join("db"); // Pack 1: enabled ↔ required - let claim1 = ExtractedClaim { + let claim1 = Observation { concept_path: "rfc://test/tls/version".to_string(), predicate: "required".to_string(), value: stemedb_core::types::ObjectValue::Text("1.3".to_string()), @@ -204,7 +204,7 @@ async fn test_predicate_alias_merge_from_multiple_packs() { pack1.save(&pack1_path).expect("save pack 1"); // Pack 2: enabled ↔ mandatory (same canonical, different alias) - let claim2 = ExtractedClaim { + let claim2 = Observation { concept_path: "rfc://test/tls/ciphers".to_string(), predicate: "mandatory".to_string(), value: stemedb_core::types::ObjectValue::Text("AES-GCM".to_string()), @@ -274,7 +274,7 @@ async fn test_index_normalization_with_persisted_aliases() { .unwrap_or(0); // Create authority assertion with predicate "required" - let authority_claim = ExtractedClaim { + let authority_claim = Observation { concept_path: "rfc://5246/tls/cert".to_string(), predicate: "required".to_string(), // Using alias value: stemedb_core::types::ObjectValue::Boolean(true), @@ -342,7 +342,7 @@ async fn test_asymmetric_predicate_conflict_detection() { .unwrap_or(0); // Authority says: required = true - let authority_claim = ExtractedClaim { + let authority_claim = Observation { concept_path: "rfc://5246/tls/cert_verification".to_string(), predicate: "required".to_string(), // Authority uses "required" value: stemedb_core::types::ObjectValue::Boolean(true), @@ -356,7 +356,7 @@ async fn test_asymmetric_predicate_conflict_detection() { crate::bridge::claim_to_assertion(&authority_claim, &signing_key, timestamp); // Code says: enabled = false (should conflict!) - let code_claim = ExtractedClaim { + let code_claim = Observation { concept_path: "code://myapp/tls/cert_verification".to_string(), predicate: "enabled".to_string(), // Code uses "enabled" (canonical) value: stemedb_core::types::ObjectValue::Boolean(false), diff --git a/applications/aphoria/src/tests/scan_basic.rs b/applications/aphoria/src/tests/scan_basic.rs index 66b04cb..9323b3c 100644 --- a/applications/aphoria/src/tests/scan_basic.rs +++ b/applications/aphoria/src/tests/scan_basic.rs @@ -40,6 +40,7 @@ async fn test_scan_returns_result() { file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let mut config = AphoriaConfig::default(); @@ -95,7 +96,7 @@ async fn test_acknowledge_succeeds() { let mut episteme = crate::episteme::LocalEpisteme::open(&config, temp_dir.path()).await.expect("open"); - let claim = ExtractedClaim { + let claim = Observation { concept_path: "code://rust/test/jwt/audience_validation".to_string(), predicate: "acknowledged".to_string(), value: stemedb_core::types::ObjectValue::Text("Internal service".to_string()), diff --git a/applications/aphoria/src/tests/scan_modes.rs b/applications/aphoria/src/tests/scan_modes.rs index 3b83e0c..9bf97b5 100644 --- a/applications/aphoria/src/tests/scan_modes.rs +++ b/applications/aphoria/src/tests/scan_modes.rs @@ -33,6 +33,7 @@ version = "0.1.0" file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let mut config = AphoriaConfig::default(); @@ -89,6 +90,7 @@ version = "0.1.0" file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let mut config = AphoriaConfig::default(); @@ -154,6 +156,7 @@ version = "0.1.0" file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let ephemeral_result = run_scan(ephemeral_args, &config).await.expect("ephemeral scan"); @@ -169,6 +172,7 @@ version = "0.1.0" file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let persistent_result = run_scan(persistent_args, &config).await.expect("persistent scan"); @@ -246,6 +250,7 @@ version = "0.1.0" file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let result = run_scan(args, &config).await.expect("scan should succeed"); @@ -297,6 +302,7 @@ version = "0.1.0" file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let result = run_scan(args, &config).await.expect("scan should succeed"); @@ -342,6 +348,7 @@ version = "0.1.0" file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let result = run_scan(args, &config).await.expect("scan should succeed"); @@ -396,6 +403,7 @@ version = "0.1.0" file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let result1 = run_scan(args1, &config).await.expect("first scan should succeed"); @@ -424,6 +432,7 @@ version = "0.1.0" file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let result2 = run_scan(args2, &config).await.expect("second scan should succeed"); @@ -480,6 +489,7 @@ version = "0.1.0" file_source: FileSource::All, benchmark: false, show_claims: false, + strict: false, }; let result = run_scan(args, &config).await.expect("scan should succeed"); diff --git a/applications/aphoria/src/tests/staged_scanning.rs b/applications/aphoria/src/tests/staged_scanning.rs index 0dea4e2..d05dbae 100644 --- a/applications/aphoria/src/tests/staged_scanning.rs +++ b/applications/aphoria/src/tests/staged_scanning.rs @@ -239,6 +239,7 @@ async fn test_staged_with_persist_and_sync() { file_source: FileSource::Staged, benchmark: false, show_claims: false, + strict: false, }; let result = run_scan(args, &config).await.expect("scan should succeed"); diff --git a/applications/aphoria/src/tests/verify.rs b/applications/aphoria/src/tests/verify.rs new file mode 100644 index 0000000..6856404 --- /dev/null +++ b/applications/aphoria/src/tests/verify.rs @@ -0,0 +1,263 @@ +//! Integration tests for the verification engine. +//! +//! Tests the full verify pipeline: claims + observations → verdicts. + +use crate::claims_file::ClaimsFile; +use crate::types::authored_claim::{AuthoredClaim, AuthoredValue, ClaimStatus, ComparisonMode}; +use crate::types::Observation; +use crate::verify::{verify_claims, AuditVerdict}; +use stemedb_core::types::ObjectValue; + +fn make_claim( + id: &str, + concept_path: &str, + predicate: &str, + value: AuthoredValue, + comparison: ComparisonMode, +) -> AuthoredClaim { + AuthoredClaim { + id: id.to_string(), + concept_path: concept_path.to_string(), + predicate: predicate.to_string(), + value, + comparison, + provenance: "test".to_string(), + invariant: "test invariant".to_string(), + consequence: "test consequence".to_string(), + authority_tier: "expert".to_string(), + evidence: vec![], + category: "test".to_string(), + status: ClaimStatus::Active, + supersedes: None, + created_by: "tester".to_string(), + created_at: "2026-02-08T12:00:00Z".to_string(), + updated_at: None, + } +} + +fn make_obs(concept_path: &str, predicate: &str, value: ObjectValue) -> Observation { + Observation { + concept_path: concept_path.to_string(), + predicate: predicate.to_string(), + value, + file: "src/test.rs".to_string(), + line: 42, + matched_text: "test match".to_string(), + confidence: 1.0, + description: "test".to_string(), + } +} + +#[test] +fn test_full_verify_mixed_verdicts() { + let claims = vec![ + // This should PASS — observation matches + make_claim( + "pass-claim", + "project/tls/cert_verification", + "enabled", + AuthoredValue::Bool(true), + ComparisonMode::Equals, + ), + // This should CONFLICT — value differs + make_claim( + "conflict-claim", + "project/config/timeout", + "value", + AuthoredValue::Number(30.0), + ComparisonMode::Equals, + ), + // This should be MISSING — no observation + make_claim( + "missing-claim", + "project/auth/mfa", + "enabled", + AuthoredValue::Bool(true), + ComparisonMode::Present, + ), + ]; + + let observations = vec![ + make_obs( + "code://rust/project/tls/cert_verification", + "enabled", + ObjectValue::Boolean(true), + ), + make_obs( + "code://rust/project/config/timeout", + "value", + ObjectValue::Number(60.0), + ), + // An unclaimed observation + make_obs( + "code://rust/project/cors/allow_origin", + "origin", + ObjectValue::Text("*".to_string()), + ), + ]; + + let report = verify_claims(&claims, &observations); + + assert_eq!(report.summary.total_claims, 3); + assert_eq!(report.summary.pass, 1); + assert_eq!(report.summary.conflict, 1); + assert_eq!(report.summary.missing, 1); + assert_eq!(report.summary.unclaimed, 1); + + // Verify individual results + let pass = report.results.iter().find(|r| { + r.claim.as_ref().map(|c| c.id.as_str()) == Some("pass-claim") + }); + assert_eq!(pass.map(|r| &r.verdict), Some(&AuditVerdict::Pass)); + + let conflict = report.results.iter().find(|r| { + r.claim.as_ref().map(|c| c.id.as_str()) == Some("conflict-claim") + }); + assert_eq!(conflict.map(|r| &r.verdict), Some(&AuditVerdict::Conflict)); + + let missing = report.results.iter().find(|r| { + r.claim.as_ref().map(|c| c.id.as_str()) == Some("missing-claim") + }); + assert_eq!(missing.map(|r| &r.verdict), Some(&AuditVerdict::Missing)); +} + +#[test] +fn test_claims_file_roundtrip_with_comparison() { + let temp_dir = tempfile::TempDir::new().expect("create temp dir"); + let path = temp_dir.path().join("claims.toml"); + + let mut file = ClaimsFile::new(); + file.add(make_claim( + "absent-claim", + "core/imports/tokio", + "imported", + AuthoredValue::Bool(true), + ComparisonMode::Absent, + )); + file.add(make_claim( + "present-claim", + "project/tls/cert", + "enabled", + AuthoredValue::Bool(true), + ComparisonMode::Present, + )); + + file.save(&path).expect("save"); + + let loaded = ClaimsFile::load(&path).expect("load"); + assert_eq!(loaded.len(), 2); + assert_eq!(loaded.claims[0].comparison, ComparisonMode::Absent); + assert_eq!(loaded.claims[1].comparison, ComparisonMode::Present); +} + +#[test] +fn test_verifiable_predicates_coverage() { + use crate::config::AphoriaConfig; + use crate::extractors::ExtractorRegistry; + + let config = AphoriaConfig::default(); + let registry = ExtractorRegistry::new(&config); + + // Count extractors that declare verifiable predicates + let declaring_count = registry + .extractors() + .iter() + .filter(|e| !e.verifiable_predicates().is_empty()) + .count(); + + // We implemented verifiable_predicates() on 10 extractors; + // self_audit is opt-in so 9 are present in default config + assert!( + declaring_count >= 9, + "Expected at least 9 extractors with verifiable_predicates(), got {declaring_count}" + ); + + // Verify specific extractors declare the right predicates + let tls_verify = registry + .extractors() + .iter() + .find(|e| e.name() == "tls_verify"); + assert!(tls_verify.is_some()); + let preds = tls_verify.map(|e| e.verifiable_predicates()).unwrap_or_default(); + assert!(preds.contains(&("tls/cert_verification", "enabled"))); + + // Verify wildcard pattern for import_graph + let import_graph = registry + .extractors() + .iter() + .find(|e| e.name() == "import_graph"); + assert!(import_graph.is_some()); + let preds = import_graph.map(|e| e.verifiable_predicates()).unwrap_or_default(); + assert!(preds.contains(&("imports/*", "imported"))); +} + +#[test] +fn test_extractor_claim_map_with_dogfood_claims() { + use crate::config::AphoriaConfig; + use crate::extractors::ExtractorRegistry; + use crate::verify::compute_extractor_claim_map; + + let config = AphoriaConfig::default(); + let registry = ExtractorRegistry::new(&config); + + // Claims matching our dogfood claims.toml + let claims = vec![ + make_claim( + "aphoria-tls-verify-001", + "aphoria/tls/cert_verification", + "enabled", + AuthoredValue::Bool(false), + ComparisonMode::Absent, + ), + make_claim( + "aphoria-no-md5-001", + "aphoria/crypto/hashing/algorithm", + "algorithm", + AuthoredValue::Text("md5".to_string()), + ComparisonMode::NotEquals, + ), + make_claim( + "aphoria-no-wildcard-cors-001", + "aphoria/cors/allow_origin", + "config_value", + AuthoredValue::Text("*".to_string()), + ComparisonMode::Absent, + ), + ]; + + let map = compute_extractor_claim_map(&claims, registry.extractors()); + + // All 3 claims should have covering extractors + for mapping in &map.claim_mappings { + assert!( + !mapping.covering_extractors.is_empty(), + "Claim {} should have a covering extractor", + mapping.claim_id + ); + } +} + +#[test] +fn test_absent_mode_integration() { + // "core MUST NOT import tokio" — claim says tokio import should be absent + let claims = vec![make_claim( + "no-tokio", + "core/imports/tokio", + "imported", + AuthoredValue::Bool(true), + ComparisonMode::Absent, + )]; + + // No tokio import found — PASS + let report = verify_claims(&claims, &[]); + assert_eq!(report.summary.pass, 1); + + // Tokio import found — CONFLICT + let obs = vec![make_obs( + "code://rust/core/imports/tokio", + "imported", + ObjectValue::Boolean(true), + )]; + let report = verify_claims(&claims, &obs); + assert_eq!(report.summary.conflict, 1); +} diff --git a/applications/aphoria/src/trust_pack_registry.rs b/applications/aphoria/src/trust_pack_registry.rs new file mode 100644 index 0000000..ac55135 --- /dev/null +++ b/applications/aphoria/src/trust_pack_registry.rs @@ -0,0 +1,103 @@ +//! Curated Trust Pack registry. +//! +//! Provides a hardcoded registry of curated Trust Pack names and their URLs. +//! When hosting infrastructure is ready, these URLs will point to a real +//! pack distribution service. + +use crate::AphoriaError; + +/// A curated Trust Pack entry in the registry. +#[derive(Debug, Clone)] +pub struct TrustPackEntry { + /// Short name used for `aphoria trust-pack install `. + pub name: String, + /// Human-readable description. + pub description: String, + /// Download URL (placeholder until hosting is ready). + pub url: String, + /// What tier the pack's assertions target. + pub tier: &'static str, +} + +/// Built-in registry of curated Trust Packs. +static CURATED_PACKS: &[(&str, &str, &str, &str)] = &[ + ( + "security-hardening", + "Hardcoded + vendor security assertions for common frameworks", + "https://packs.aphoria.dev/security-hardening/latest.pack", + "Tier 0-2", + ), + ( + "rfc-compliance", + "All RFC normative statements (JWT, OAuth, TLS, HTTP)", + "https://packs.aphoria.dev/rfc-compliance/latest.pack", + "Tier 0", + ), + ( + "owasp-top10", + "OWASP Cheat Sheet recommendations with CWE references", + "https://packs.aphoria.dev/owasp-top10/latest.pack", + "Tier 1", + ), +]; + +/// Look up a curated pack by name. +pub fn lookup(name: &str) -> Result { + for &(pack_name, description, url, tier) in CURATED_PACKS { + if pack_name == name { + return Ok(TrustPackEntry { + name: pack_name.to_string(), + description: description.to_string(), + url: url.to_string(), + tier, + }); + } + } + + Err(AphoriaError::Config(format!( + "Unknown trust pack '{}'. Available packs: {}", + name, + CURATED_PACKS.iter().map(|(n, _, _, _)| *n).collect::>().join(", ") + ))) +} + +/// List all available curated packs. +pub fn list_packs() -> Vec { + CURATED_PACKS + .iter() + .map(|&(name, description, url, tier)| TrustPackEntry { + name: name.to_string(), + description: description.to_string(), + url: url.to_string(), + tier, + }) + .collect() +} + +#[cfg(test)] +mod tests { + use super::*; + + #[test] + fn test_registry_lookup_exists() { + let entry = lookup("security-hardening").expect("should find pack"); + assert_eq!(entry.name, "security-hardening"); + assert!(entry.url.contains("security-hardening")); + } + + #[test] + fn test_registry_lookup_not_found() { + let result = lookup("nonexistent-pack"); + assert!(result.is_err()); + } + + #[test] + fn test_list_packs() { + let packs = list_packs(); + assert_eq!(packs.len(), 3); + let names: Vec<&str> = packs.iter().map(|p| p.name.as_str()).collect(); + assert!(names.contains(&"security-hardening")); + assert!(names.contains(&"rfc-compliance")); + assert!(names.contains(&"owasp-top10")); + } +} diff --git a/applications/aphoria/src/types/authored_claim.rs b/applications/aphoria/src/types/authored_claim.rs new file mode 100644 index 0000000..0d40998 --- /dev/null +++ b/applications/aphoria/src/types/authored_claim.rs @@ -0,0 +1,249 @@ +//! Authored claim types for human-written claims. +//! +//! Unlike `Observation` (grep results from extractors), an `AuthoredClaim` +//! is a deliberate assertion with provenance, invariants, and consequences. +//! +//! Example: "All wallet atomics MUST use SeqCst" is a claim. +//! "ordering = SeqCst found at line 42" is an observation. + +use serde::{Deserialize, Serialize}; +use stemedb_core::types::{ObjectValue, SourceClass}; + +use crate::AphoriaError; + +/// A human-authored claim with full provenance. +/// +/// Authored claims live in `.aphoria/claims.toml` and represent deliberate +/// architectural decisions, safety invariants, or policy requirements. +#[derive(Debug, Clone, Serialize, Deserialize)] +pub struct AuthoredClaim { + /// Human-readable slug (e.g., "wallet-seqcst-001"). + pub id: String, + + /// Concept path (e.g., "maxwell/wallet/atomics/ordering"). + pub concept_path: String, + + /// Predicate (e.g., "required_ordering"). + pub predicate: String, + + /// The claimed value. + pub value: AuthoredValue, + + /// How to compare the claim value against observations. + #[serde(default)] + pub comparison: ComparisonMode, + + /// Who/what established this claim (e.g., "Safety analysis by lead developer"). + pub provenance: String, + + /// The invariant this claim enforces (e.g., "All wallet atomics MUST use SeqCst"). + pub invariant: String, + + /// What happens if violated (e.g., "Double-spend race condition"). + pub consequence: String, + + /// Authority tier as a string: "regulatory", "clinical", "observational", "expert", "community", "anecdotal". + pub authority_tier: String, + + /// Supporting evidence references (e.g., ["wallet ADR-003", "Intel SDM Vol 4"]). + #[serde(default)] + pub evidence: Vec, + + /// Category: "safety", "architecture", "imports", "constants", "derives", etc. + pub category: String, + + /// Claim lifecycle status. + #[serde(default)] + pub status: ClaimStatus, + + /// ID of claim this supersedes (if any). + #[serde(skip_serializing_if = "Option::is_none")] + pub supersedes: Option, + + /// Author who created this claim. + pub created_by: String, + + /// ISO 8601 creation timestamp. + pub created_at: String, + + /// ISO 8601 last-update timestamp. + #[serde(skip_serializing_if = "Option::is_none")] + pub updated_at: Option, +} + +/// TOML-friendly value types (no nested enums). +#[derive(Debug, Clone, Serialize, Deserialize, PartialEq)] +#[serde(untagged)] +pub enum AuthoredValue { + /// Boolean value. + Bool(bool), + /// Numeric value. + Number(f64), + /// Text value. + Text(String), +} + +impl std::fmt::Display for AuthoredValue { + fn fmt(&self, f: &mut std::fmt::Formatter<'_>) -> std::fmt::Result { + match self { + AuthoredValue::Bool(b) => write!(f, "{b}"), + AuthoredValue::Number(n) => write!(f, "{n}"), + AuthoredValue::Text(s) => write!(f, "{s}"), + } + } +} + +impl AuthoredValue { + /// Convert to Episteme's `ObjectValue` for bridge conversion. + pub fn to_object_value(&self) -> ObjectValue { + match self { + AuthoredValue::Bool(b) => ObjectValue::Boolean(*b), + AuthoredValue::Number(n) => ObjectValue::Number(*n), + AuthoredValue::Text(s) => ObjectValue::Text(s.clone()), + } + } + + /// Parse from a CLI string value. + /// + /// Tries boolean, then number, then falls back to text. + pub fn parse(s: &str) -> Self { + if let Ok(b) = s.parse::() { + return AuthoredValue::Bool(b); + } + if let Ok(n) = s.parse::() { + return AuthoredValue::Number(n); + } + AuthoredValue::Text(s.to_string()) + } +} + +/// How to compare an authored claim's value against observations. +#[derive(Debug, Clone, Serialize, Deserialize, Default, PartialEq, Eq)] +#[serde(rename_all = "snake_case")] +pub enum ComparisonMode { + /// Observation value must equal claim value. + #[default] + Equals, + /// Observation value must differ from claim value. + NotEquals, + /// At least one observation must exist at this path. + Present, + /// No observation should exist at this path. + Absent, +} + +impl std::fmt::Display for ComparisonMode { + fn fmt(&self, f: &mut std::fmt::Formatter<'_>) -> std::fmt::Result { + match self { + ComparisonMode::Equals => write!(f, "equals"), + ComparisonMode::NotEquals => write!(f, "not_equals"), + ComparisonMode::Present => write!(f, "present"), + ComparisonMode::Absent => write!(f, "absent"), + } + } +} + +/// Claim lifecycle status. +#[derive(Debug, Clone, Serialize, Deserialize, Default, PartialEq, Eq)] +#[serde(rename_all = "lowercase")] +pub enum ClaimStatus { + /// Claim is active and enforced. + #[default] + Active, + /// Claim has been deprecated (no longer enforced). + Deprecated, + /// Claim has been superseded by a newer claim. + Superseded, +} + +impl std::fmt::Display for ClaimStatus { + fn fmt(&self, f: &mut std::fmt::Formatter<'_>) -> std::fmt::Result { + match self { + ClaimStatus::Active => write!(f, "active"), + ClaimStatus::Deprecated => write!(f, "deprecated"), + ClaimStatus::Superseded => write!(f, "superseded"), + } + } +} + +/// Parse an authority tier string into a `SourceClass`. +/// +/// Accepted values: "regulatory", "clinical", "observational", "expert", "community", "anecdotal". +pub fn parse_authority_tier(s: &str) -> Result { + match s.to_lowercase().as_str() { + "regulatory" => Ok(SourceClass::Regulatory), + "clinical" => Ok(SourceClass::Clinical), + "observational" => Ok(SourceClass::Observational), + "expert" => Ok(SourceClass::Expert), + "community" => Ok(SourceClass::Community), + "anecdotal" => Ok(SourceClass::Anecdotal), + _ => Err(AphoriaError::Claims(format!( + "Unknown authority tier '{s}'. Expected: regulatory, clinical, observational, expert, community, anecdotal" + ))), + } +} + +/// Format a `SourceClass` for display (e.g., "Expert (Tier 3)"). +pub fn format_authority_tier(source_class: SourceClass) -> String { + let name = match source_class { + SourceClass::Regulatory => "Regulatory", + SourceClass::Clinical => "Clinical", + SourceClass::Observational => "Observational", + SourceClass::Expert => "Expert", + SourceClass::Community => "Community", + SourceClass::Anecdotal => "Anecdotal", + }; + format!("{name} (Tier {tier})", tier = source_class.tier()) +} + +#[cfg(test)] +mod tests { + use super::*; + + #[test] + fn test_authored_value_parse() { + assert_eq!(AuthoredValue::parse("true"), AuthoredValue::Bool(true)); + assert_eq!(AuthoredValue::parse("false"), AuthoredValue::Bool(false)); + assert_eq!(AuthoredValue::parse("42"), AuthoredValue::Number(42.0)); + assert_eq!(AuthoredValue::parse("3.14"), AuthoredValue::Number(3.14)); + assert_eq!(AuthoredValue::parse("SeqCst"), AuthoredValue::Text("SeqCst".to_string())); + } + + #[test] + fn test_authored_value_to_object_value() { + assert_eq!(AuthoredValue::Bool(true).to_object_value(), ObjectValue::Boolean(true)); + assert_eq!(AuthoredValue::Number(42.0).to_object_value(), ObjectValue::Number(42.0)); + assert_eq!( + AuthoredValue::Text("hello".to_string()).to_object_value(), + ObjectValue::Text("hello".to_string()) + ); + } + + #[test] + fn test_parse_authority_tier() { + assert_eq!(parse_authority_tier("regulatory").ok(), Some(SourceClass::Regulatory)); + assert_eq!(parse_authority_tier("Expert").ok(), Some(SourceClass::Expert)); + assert_eq!(parse_authority_tier("CLINICAL").ok(), Some(SourceClass::Clinical)); + assert!(parse_authority_tier("unknown").is_err()); + } + + #[test] + fn test_format_authority_tier() { + assert_eq!(format_authority_tier(SourceClass::Expert), "Expert (Tier 3)"); + assert_eq!(format_authority_tier(SourceClass::Regulatory), "Regulatory (Tier 0)"); + } + + #[test] + fn test_claim_status_display() { + assert_eq!(ClaimStatus::Active.to_string(), "active"); + assert_eq!(ClaimStatus::Deprecated.to_string(), "deprecated"); + assert_eq!(ClaimStatus::Superseded.to_string(), "superseded"); + } + + #[test] + fn test_authored_value_display() { + assert_eq!(AuthoredValue::Bool(true).to_string(), "true"); + assert_eq!(AuthoredValue::Number(3.14).to_string(), "3.14"); + assert_eq!(AuthoredValue::Text("SeqCst".to_string()).to_string(), "SeqCst"); + } +} diff --git a/applications/aphoria/src/types/claim.rs b/applications/aphoria/src/types/claim.rs index 432463f..ae4daed 100644 --- a/applications/aphoria/src/types/claim.rs +++ b/applications/aphoria/src/types/claim.rs @@ -1,10 +1,15 @@ //! Claim extraction types. +use serde::{Deserialize, Serialize}; use stemedb_core::types::{ObjectValue, SourceClass}; -/// A claim extracted from source code. +/// An observation extracted from source code. +/// +/// This is what extractors produce: pattern matches with confidence scores. +/// These are NOT claims—they lack provenance, invariants, and consequences. +/// See `AuthoredClaim` for real claims with full Episteme semantics. #[derive(Debug, Clone)] -pub struct ExtractedClaim { +pub struct Observation { /// The full ConceptPath for this claim. pub concept_path: String, @@ -30,6 +35,55 @@ pub struct ExtractedClaim { pub description: String, } +/// Type alias for backward compatibility. +/// +/// `ExtractedClaim` is the old name for `Observation`. +/// This alias allows external code to continue using the old name. +#[deprecated(since = "0.9.0", note = "Use Observation instead")] +pub type ExtractedClaim = Observation; + +/// Serializable wrapper for ObjectValue used in TOML claims. +/// +/// We store ObjectValue as a string in TOML files for simplicity. +/// When loading into Episteme, we parse back to the appropriate ObjectValue variant. +/// +/// Note: This is a compatibility type. The canonical authored claim type is +/// `AuthoredClaim` in `authored_claim.rs` which uses `AuthoredValue`. +#[derive(Debug, Clone, Serialize, Deserialize)] +#[serde(untagged)] +pub enum ClaimValue { + /// Text string value + Text(String), + /// Numeric value + Number(f64), + /// Boolean value + Boolean(bool), +} + +impl From for ClaimValue { + fn from(val: ObjectValue) -> Self { + match val { + ObjectValue::Text(s) => ClaimValue::Text(s), + ObjectValue::Number(n) => ClaimValue::Number(n), + ObjectValue::Boolean(b) => ClaimValue::Boolean(b), + ObjectValue::Reference(_) => { + // References not supported in authored claims yet + ClaimValue::Text("(reference)".to_string()) + } + } + } +} + +impl From for ObjectValue { + fn from(val: ClaimValue) -> Self { + match val { + ClaimValue::Text(s) => ObjectValue::Text(s), + ClaimValue::Number(n) => ObjectValue::Number(n), + ClaimValue::Boolean(b) => ObjectValue::Boolean(b), + } + } +} + /// A source that conflicts with the code claim. #[derive(Debug, Clone)] pub struct ConflictingSource { diff --git a/applications/aphoria/src/types/command.rs b/applications/aphoria/src/types/command.rs index cc43b70..5e181a9 100644 --- a/applications/aphoria/src/types/command.rs +++ b/applications/aphoria/src/types/command.rs @@ -65,6 +65,9 @@ pub struct ScanArgs { /// When enabled, all claims (not just conflicts) are included in the /// scan result, sorted by file path and line number. pub show_claims: bool, + + /// Whether strict mode is active (lower thresholds: BLOCK >= 0.50, FLAG >= 0.30). + pub strict: bool, } /// Arguments for the acknowledge command. diff --git a/applications/aphoria/src/types/language.rs b/applications/aphoria/src/types/language.rs index 81bc60b..f43d69e 100644 --- a/applications/aphoria/src/types/language.rs +++ b/applications/aphoria/src/types/language.rs @@ -7,7 +7,7 @@ use std::str::FromStr; use serde::{Deserialize, Serialize}; /// Detected language of a file. -#[derive(Debug, Clone, Copy, PartialEq, Eq, Serialize, Deserialize)] +#[derive(Debug, Clone, Copy, PartialEq, Eq, Hash, Serialize, Deserialize)] #[serde(rename_all = "lowercase")] pub enum Language { /// Rust source files. diff --git a/applications/aphoria/src/types/mod.rs b/applications/aphoria/src/types/mod.rs index 5cfbf71..846d7c8 100644 --- a/applications/aphoria/src/types/mod.rs +++ b/applications/aphoria/src/types/mod.rs @@ -1,5 +1,6 @@ //! Core types for Aphoria. +pub mod authored_claim; mod claim; mod command; mod language; @@ -7,12 +8,19 @@ mod result; mod verdict; // Re-export all public types to maintain the same API -pub use claim::{ConflictingSource, ExtractedClaim, PolicySourceInfo}; +pub use authored_claim::{ + format_authority_tier, parse_authority_tier, AuthoredClaim, AuthoredValue, ClaimStatus, + ComparisonMode, +}; +// Re-export Observation as the primary type +#[allow(deprecated)] +pub use claim::ExtractedClaim; // For backward compat only +pub use claim::{ClaimValue, ConflictingSource, Observation, PolicySourceInfo}; pub use command::{AcknowledgeArgs, BlessArgs, FileSource, ScanArgs, ScanMode, UpdateArgs}; pub use language::Language; pub use result::{ ConflictResult, ConflictTrace, DeprecatedUsageResult, DriftResult, PriorObservation, - ScanResult, ScanTiming, + ScanResult, ScanTiming, TierBreakdown, }; pub use result::AcknowledgmentInfo; diff --git a/applications/aphoria/src/types/result.rs b/applications/aphoria/src/types/result.rs index 850d545..29650fe 100644 --- a/applications/aphoria/src/types/result.rs +++ b/applications/aphoria/src/types/result.rs @@ -7,7 +7,7 @@ use stemedb_core::types::SourceClass; use stemedb_core::types::ObjectValue; -use super::claim::{ConflictingSource, ExtractedClaim}; +use super::claim::{ConflictingSource, Observation}; use super::verdict::Verdict; /// Result of a scan operation. @@ -37,6 +37,9 @@ pub struct ScanResult { /// Whether debug traces are included. pub debug: bool, + /// Whether strict mode was active during this scan. + pub strict: bool, + /// Number of Tier 4 observations recorded (when --sync is enabled). /// These are claims with no authority conflict that become "project memory". pub observations_recorded: usize, @@ -48,7 +51,7 @@ pub struct ScanResult { /// /// When present, contains all claims extracted during the scan, sorted by /// file path and line number for easy verification and debugging. - pub claims: Option>, + pub claims: Option>, /// Deprecated pattern usages detected. /// @@ -91,6 +94,7 @@ impl ScanResult { drifts: vec![], format: format.to_string(), debug: false, + strict: false, observations_recorded: 0, timing: None, claims: None, @@ -148,7 +152,7 @@ impl ScanResult { #[derive(Debug, Clone)] pub struct ConflictResult { /// The extracted claim. - pub claim: ExtractedClaim, + pub claim: Observation, /// Sources that conflict with this claim. pub conflicts: Vec, @@ -164,6 +168,22 @@ pub struct ConflictResult { /// Debug trace explaining why this conflict was raised. pub trace: Option, + + /// Per-tier breakdown of authority assertions (only populated in debug mode). + pub tier_breakdown: Option>, +} + +/// Per-tier summary of authority assertions involved in a conflict. +#[derive(Debug, Clone)] +pub struct TierBreakdown { + /// Tier number (0-5). + pub tier: u8, + /// Source class for this tier. + pub source_class: SourceClass, + /// Number of assertions in this tier. + pub assertion_count: usize, + /// Maximum confidence among assertions in this tier. + pub max_confidence: f32, } impl fmt::Display for ConflictResult { @@ -209,6 +229,18 @@ impl fmt::Display for ConflictResult { writeln!(f, " Resolution: {}", trace.resolution)?; } + // Display tier breakdown if present + if let Some(breakdown) = &self.tier_breakdown { + writeln!(f, " --- Tier Breakdown ---")?; + for tb in breakdown { + writeln!( + f, + " Tier {} ({:?}): {} assertions, max confidence {:.2}", + tb.tier, tb.source_class, tb.assertion_count, tb.max_confidence + )?; + } + } + Ok(()) } } @@ -300,7 +332,7 @@ pub struct AcknowledgmentInfo { #[derive(Debug, Clone)] pub struct DriftResult { /// The current claim that differs from the prior observation. - pub claim: ExtractedClaim, + pub claim: Observation, /// The prior observation that was recorded. pub prior: PriorObservation, @@ -433,6 +465,7 @@ mod tests { drifts: vec![], format: "table".to_string(), debug: false, + strict: false, observations_recorded: 0, timing: None, claims: None, @@ -446,4 +479,73 @@ mod tests { assert!(!result.has_deprecated_usages()); assert_eq!(result.deprecated_usage_count(), 0); } + + #[test] + fn test_conflict_result_display_with_tier_breakdown() { + use super::super::claim::Observation; + use stemedb_core::types::ObjectValue; + + let claim = Observation { + concept_path: "test/path".to_string(), + predicate: "enabled".to_string(), + value: ObjectValue::Boolean(false), + file: "test.rs".to_string(), + line: 42, + matched_text: "test = false".to_string(), + confidence: 0.9, + description: "TLS disabled".to_string(), + }; + + let tier_breakdown = vec![ + TierBreakdown { + tier: 0, + source_class: SourceClass::Regulatory, + assertion_count: 2, + max_confidence: 0.95, + }, + TierBreakdown { + tier: 1, + source_class: SourceClass::Clinical, + assertion_count: 1, + max_confidence: 0.85, + }, + ]; + + let conflict = ConflictResult { + claim, + conflicts: vec![], + conflict_score: 0.92, + verdict: Verdict::Block, + acknowledged: None, + trace: None, + tier_breakdown: Some(tier_breakdown), + }; + + let display = format!("{}", conflict); + + // Verify tier breakdown appears in output + assert!(display.contains("Tier Breakdown")); + assert!(display.contains("Tier 0")); + assert!(display.contains("Regulatory")); + assert!(display.contains("2 assertions")); + assert!(display.contains("max confidence 0.95")); + assert!(display.contains("Tier 1")); + assert!(display.contains("Clinical")); + assert!(display.contains("1 assertions")); + } + + #[test] + fn test_tier_breakdown_formatting() { + let breakdown = TierBreakdown { + tier: 0, + source_class: SourceClass::Regulatory, + assertion_count: 5, + max_confidence: 0.98, + }; + + // Verify the fields are accessible (no Display impl on TierBreakdown itself) + assert_eq!(breakdown.tier, 0); + assert_eq!(breakdown.assertion_count, 5); + assert!((breakdown.max_confidence - 0.98).abs() < f32::EPSILON); + } } diff --git a/applications/aphoria/src/verify.rs b/applications/aphoria/src/verify.rs new file mode 100644 index 0000000..61e7f33 --- /dev/null +++ b/applications/aphoria/src/verify.rs @@ -0,0 +1,726 @@ +//! Verification engine for matching authored claims against observations. +//! +//! This module compares what developers have declared in `.aphoria/claims.toml` +//! against what extractors actually find in code. It produces a `VerifyReport` +//! with pass/conflict/missing/unclaimed verdicts for each claim. + +use std::collections::HashMap; + +use serde::Serialize; + +use crate::types::authored_claim::{AuthoredClaim, ClaimStatus, ComparisonMode}; +use crate::types::Observation; + +/// Result of verifying a single claim against observations. +#[derive(Debug, Clone)] +pub struct VerifyResult { + /// The claim being verified (None for unclaimed observations). + pub claim: Option, + /// The verdict: pass, conflict, missing, or unclaimed. + pub verdict: AuditVerdict, + /// Observations that matched this claim's tail-path. + pub matching_observations: Vec, + /// Human-readable explanation of the verdict. + pub explanation: String, +} + +/// Verdict for a single claim verification. +#[derive(Debug, Clone, PartialEq, Eq, Serialize)] +#[serde(rename_all = "snake_case")] +pub enum AuditVerdict { + /// Observation matches the claim. + Pass, + /// Observation contradicts the claim. + Conflict, + /// No matching observation found for the claim. + Missing, + /// Observation exists but has no covering claim (only for unclaimed observations). + Unclaimed, +} + +impl std::fmt::Display for AuditVerdict { + fn fmt(&self, f: &mut std::fmt::Formatter<'_>) -> std::fmt::Result { + match self { + AuditVerdict::Pass => write!(f, "PASS"), + AuditVerdict::Conflict => write!(f, "CONFLICT"), + AuditVerdict::Missing => write!(f, "MISSING"), + AuditVerdict::Unclaimed => write!(f, "UNCLAIMED"), + } + } +} + +/// Summary counts for a verification report. +#[derive(Debug, Clone, Default, Serialize)] +pub struct VerifySummary { + /// Total number of active claims verified. + pub total_claims: usize, + /// Claims whose observations match. + pub pass: usize, + /// Claims contradicted by observations. + pub conflict: usize, + /// Claims with no matching observations. + pub missing: usize, + /// Observations with no covering claim. + pub unclaimed: usize, +} + +/// Full verification report: per-claim results plus summary. +#[derive(Debug, Clone)] +pub struct VerifyReport { + /// Per-claim results. + pub results: Vec, + /// Aggregate counts. + pub summary: VerifySummary, +} + +/// Extract the tail path (last 2 segments) from a concept path. +/// +/// Mirrors `ConceptIndex::make_key` logic but without the predicate suffix. +/// +/// # Examples +/// - `"code://rust/myapp/tls/cert_verification"` → `Some("tls/cert_verification")` +/// - `"maxwell/wallet/atomics/ordering"` → `Some("atomics/ordering")` +/// - `"single"` → `None` (fewer than 2 segments) +pub fn tail_path(concept_path: &str) -> Option { + // Strip scheme if present + let path = concept_path + .find("://") + .map(|i| &concept_path[i + 3..]) + .unwrap_or(concept_path); + + let mut segments = path.rsplit('/').filter(|s| !s.is_empty()); + let tail2 = segments.next()?; + let tail1 = segments.next()?; + Some(format!("{tail1}/{tail2}")) +} + +/// Verify authored claims against extracted observations. +/// +/// For each active claim: +/// 1. Compute the tail-path from the claim's concept_path +/// 2. Look up observations with matching tail-paths +/// 3. Apply the claim's `ComparisonMode` to determine the verdict +/// +/// Observations whose tail-paths are not covered by any claim are reported +/// as `Unclaimed`. +pub fn verify_claims(claims: &[AuthoredClaim], observations: &[Observation]) -> VerifyReport { + // Index observations by tail-path + let mut obs_by_tail: HashMap> = HashMap::new(); + for obs in observations { + if let Some(tp) = tail_path(&obs.concept_path) { + obs_by_tail.entry(tp).or_default().push(obs); + } + } + + let mut results = Vec::new(); + let mut claimed_tails: HashMap = HashMap::new(); + let mut summary = VerifySummary::default(); + + // Verify each active claim + for claim in claims { + if claim.status != ClaimStatus::Active { + continue; + } + + let tp = match tail_path(&claim.concept_path) { + Some(tp) => tp, + None => { + results.push(VerifyResult { + claim: Some(claim.clone()), + verdict: AuditVerdict::Missing, + matching_observations: Vec::new(), + explanation: format!( + "Cannot compute tail-path from concept_path '{}'", + claim.concept_path + ), + }); + summary.missing += 1; + summary.total_claims += 1; + continue; + } + }; + + claimed_tails.insert(tp.clone(), true); + + let matching: Vec<&Observation> = obs_by_tail + .get(&tp) + .map(|v| v.as_slice()) + .unwrap_or(&[]) + .to_vec(); + + let claim_obj_value = claim.value.to_object_value(); + let (verdict, explanation) = match claim.comparison { + ComparisonMode::Equals => { + if matching.is_empty() { + ( + AuditVerdict::Missing, + "No matching observation found".to_string(), + ) + } else if matching.iter().any(|o| o.value == claim_obj_value) { + ( + AuditVerdict::Pass, + format!( + "Observation matches claim value: {}", + claim.value + ), + ) + } else { + let found_values: Vec = matching + .iter() + .map(|o| format!("{:?}", o.value)) + .collect(); + ( + AuditVerdict::Conflict, + format!( + "Expected {}, found: {}", + claim.value, + found_values.join(", ") + ), + ) + } + } + ComparisonMode::NotEquals => { + if matching.is_empty() { + // No observations means no contradiction — pass + ( + AuditVerdict::Pass, + "No observations found (no contradiction)".to_string(), + ) + } else if matching.iter().any(|o| o.value == claim_obj_value) { + ( + AuditVerdict::Conflict, + format!( + "Found observation with forbidden value: {}", + claim.value + ), + ) + } else { + ( + AuditVerdict::Pass, + "All observations differ from forbidden value".to_string(), + ) + } + } + ComparisonMode::Present => { + if matching.is_empty() { + ( + AuditVerdict::Missing, + "Expected observation to be present, but none found".to_string(), + ) + } else { + ( + AuditVerdict::Pass, + format!("Found {} matching observation(s)", matching.len()), + ) + } + } + ComparisonMode::Absent => { + if matching.is_empty() { + ( + AuditVerdict::Pass, + "No observations found (as expected)".to_string(), + ) + } else { + let locations: Vec = matching + .iter() + .map(|o| format!("{}:{}", o.file, o.line)) + .collect(); + ( + AuditVerdict::Conflict, + format!( + "Expected absent, but found at: {}", + locations.join(", ") + ), + ) + } + } + }; + + match verdict { + AuditVerdict::Pass => summary.pass += 1, + AuditVerdict::Conflict => summary.conflict += 1, + AuditVerdict::Missing => summary.missing += 1, + AuditVerdict::Unclaimed => summary.unclaimed += 1, + } + summary.total_claims += 1; + + results.push(VerifyResult { + claim: Some(claim.clone()), + verdict, + matching_observations: matching.into_iter().cloned().collect(), + explanation, + }); + } + + // Find unclaimed observations + for (tp, obs_list) in &obs_by_tail { + if !claimed_tails.contains_key(tp) { + summary.unclaimed += obs_list.len(); + for obs in obs_list { + results.push(VerifyResult { + claim: None, + verdict: AuditVerdict::Unclaimed, + matching_observations: vec![(*obs).clone()], + explanation: format!("Observation at {tp} has no covering claim"), + }); + } + } + } + + VerifyReport { results, summary } +} + +/// Entry in the extractor→claim map showing which extractors cover which claims. +#[derive(Debug, Clone, Serialize)] +pub struct ExtractorClaimMapping { + /// Claim ID. + pub claim_id: String, + /// Claim tail-path. + pub claim_tail_path: String, + /// Extractor names that can verify this claim. + pub covering_extractors: Vec, +} + +/// Entry for extractors that have no matching claims. +#[derive(Debug, Clone, Serialize)] +pub struct UnmatchedExtractor { + /// Extractor name. + pub name: String, + /// Predicates the extractor declares. + pub predicates: Vec<(String, String)>, +} + +/// Full extractor↔claim map result. +#[derive(Debug, Clone, Serialize)] +pub struct ExtractorClaimMap { + /// Per-claim coverage. + pub claim_mappings: Vec, + /// Extractors without matching claims. + pub unmatched_extractors: Vec, +} + +/// Check if a wildcard pattern matches a tail-path suffix. +/// +/// Supports `*` as a single-segment wildcard. E.g., `"imports/*"` matches +/// `"imports/tokio"` but not `"imports/tokio/runtime"`. +fn wildcard_matches(pattern: &str, target: &str) -> bool { + if pattern == target { + return true; + } + if let Some(prefix) = pattern.strip_suffix("/*") { + if let Some(rest) = target.strip_prefix(prefix) { + // Must match exactly one segment after the prefix + return rest.starts_with('/') && !rest[1..].contains('/'); + } + } + false +} + +/// Compute the mapping between extractors and authored claims. +/// +/// For each active claim, finds extractors whose `verifiable_predicates()` +/// match the claim's tail-path. Reports claims with no covering extractor +/// and extractors with no matching claims. +pub fn compute_extractor_claim_map( + claims: &[AuthoredClaim], + extractors: &[Box], +) -> ExtractorClaimMap { + let mut claim_mappings = Vec::new(); + let mut extractor_matched: HashMap = HashMap::new(); + + // Initialize all extractors as unmatched + for ext in extractors { + extractor_matched.insert(ext.name().to_string(), false); + } + + for claim in claims { + if claim.status != ClaimStatus::Active { + continue; + } + + let claim_tp = match tail_path(&claim.concept_path) { + Some(tp) => tp, + None => continue, + }; + + let mut covering = Vec::new(); + + for ext in extractors { + let preds = ext.verifiable_predicates(); + for (tp_pattern, pred) in &preds { + if wildcard_matches(tp_pattern, &claim_tp) && *pred == claim.predicate { + covering.push(ext.name().to_string()); + extractor_matched.insert(ext.name().to_string(), true); + break; + } + } + } + + claim_mappings.push(ExtractorClaimMapping { + claim_id: claim.id.clone(), + claim_tail_path: claim_tp, + covering_extractors: covering, + }); + } + + let unmatched_extractors = extractors + .iter() + .filter(|ext| { + let preds = ext.verifiable_predicates(); + !preds.is_empty() && !extractor_matched.get(ext.name()).copied().unwrap_or(false) + }) + .map(|ext| UnmatchedExtractor { + name: ext.name().to_string(), + predicates: ext + .verifiable_predicates() + .into_iter() + .map(|(a, b)| (a.to_string(), b.to_string())) + .collect(), + }) + .collect(); + + ExtractorClaimMap { + claim_mappings, + unmatched_extractors, + } +} + +#[cfg(test)] +mod tests { + use super::*; + use crate::types::authored_claim::AuthoredValue; + use stemedb_core::types::ObjectValue; + + fn make_claim( + id: &str, + concept_path: &str, + predicate: &str, + value: AuthoredValue, + comparison: ComparisonMode, + ) -> AuthoredClaim { + AuthoredClaim { + id: id.to_string(), + concept_path: concept_path.to_string(), + predicate: predicate.to_string(), + value, + comparison, + provenance: "test".to_string(), + invariant: "test invariant".to_string(), + consequence: "test consequence".to_string(), + authority_tier: "expert".to_string(), + evidence: vec![], + category: "test".to_string(), + status: ClaimStatus::Active, + supersedes: None, + created_by: "tester".to_string(), + created_at: "2026-02-08T12:00:00Z".to_string(), + updated_at: None, + } + } + + fn make_obs(concept_path: &str, predicate: &str, value: ObjectValue) -> Observation { + Observation { + concept_path: concept_path.to_string(), + predicate: predicate.to_string(), + value, + file: "src/test.rs".to_string(), + line: 42, + matched_text: "test match".to_string(), + confidence: 1.0, + description: "test observation".to_string(), + } + } + + #[test] + fn test_tail_path() { + assert_eq!( + tail_path("code://rust/myapp/tls/cert_verification"), + Some("tls/cert_verification".to_string()) + ); + assert_eq!( + tail_path("maxwell/wallet/atomics/ordering"), + Some("atomics/ordering".to_string()) + ); + assert_eq!(tail_path("single"), None); + assert_eq!( + tail_path("rfc://5246/tls/cert_verification"), + Some("tls/cert_verification".to_string()) + ); + } + + #[test] + fn test_verify_pass_equals() { + let claims = vec![make_claim( + "c1", + "project/atomics/ordering", + "required_ordering", + AuthoredValue::Text("SeqCst".to_string()), + ComparisonMode::Equals, + )]; + let obs = vec![make_obs( + "code://rust/project/atomics/ordering", + "ordering", + ObjectValue::Text("SeqCst".to_string()), + )]; + + let report = verify_claims(&claims, &obs); + assert_eq!(report.summary.pass, 1); + assert_eq!(report.summary.conflict, 0); + } + + #[test] + fn test_verify_conflict_equals() { + let claims = vec![make_claim( + "c1", + "project/atomics/ordering", + "required_ordering", + AuthoredValue::Text("SeqCst".to_string()), + ComparisonMode::Equals, + )]; + let obs = vec![make_obs( + "code://rust/project/atomics/ordering", + "ordering", + ObjectValue::Text("Relaxed".to_string()), + )]; + + let report = verify_claims(&claims, &obs); + assert_eq!(report.summary.conflict, 1); + assert_eq!(report.summary.pass, 0); + } + + #[test] + fn test_verify_missing() { + let claims = vec![make_claim( + "c1", + "project/config/timeout", + "timeout_ms", + AuthoredValue::Number(30.0), + ComparisonMode::Equals, + )]; + let obs: Vec = vec![]; + + let report = verify_claims(&claims, &obs); + assert_eq!(report.summary.missing, 1); + } + + #[test] + fn test_verify_unclaimed() { + let claims: Vec = vec![]; + let obs = vec![make_obs( + "code://rust/project/tls/cert_verification", + "enabled", + ObjectValue::Boolean(false), + )]; + + let report = verify_claims(&claims, &obs); + assert_eq!(report.summary.unclaimed, 1); + } + + #[test] + fn test_verify_absent_pass() { + let claims = vec![make_claim( + "c1", + "core/imports/tokio", + "imported", + AuthoredValue::Bool(true), + ComparisonMode::Absent, + )]; + let obs: Vec = vec![]; + + let report = verify_claims(&claims, &obs); + assert_eq!(report.summary.pass, 1); + } + + #[test] + fn test_verify_absent_conflict() { + let claims = vec![make_claim( + "c1", + "core/imports/tokio", + "imported", + AuthoredValue::Bool(true), + ComparisonMode::Absent, + )]; + let obs = vec![make_obs( + "code://rust/core/imports/tokio", + "imported", + ObjectValue::Boolean(true), + )]; + + let report = verify_claims(&claims, &obs); + assert_eq!(report.summary.conflict, 1); + } + + #[test] + fn test_verify_present_pass() { + let claims = vec![make_claim( + "c1", + "project/tls/cert_verification", + "enabled", + AuthoredValue::Bool(true), + ComparisonMode::Present, + )]; + let obs = vec![make_obs( + "code://rust/project/tls/cert_verification", + "enabled", + ObjectValue::Boolean(true), + )]; + + let report = verify_claims(&claims, &obs); + assert_eq!(report.summary.pass, 1); + } + + #[test] + fn test_verify_present_missing() { + let claims = vec![make_claim( + "c1", + "project/tls/cert_verification", + "enabled", + AuthoredValue::Bool(true), + ComparisonMode::Present, + )]; + let obs: Vec = vec![]; + + let report = verify_claims(&claims, &obs); + assert_eq!(report.summary.missing, 1); + } + + #[test] + fn test_verify_not_equals_pass() { + let claims = vec![make_claim( + "c1", + "project/tls/min_version", + "version", + AuthoredValue::Text("1.0".to_string()), + ComparisonMode::NotEquals, + )]; + let obs = vec![make_obs( + "code://rust/project/tls/min_version", + "version", + ObjectValue::Text("1.3".to_string()), + )]; + + let report = verify_claims(&claims, &obs); + assert_eq!(report.summary.pass, 1); + } + + #[test] + fn test_verify_not_equals_conflict() { + let claims = vec![make_claim( + "c1", + "project/tls/min_version", + "version", + AuthoredValue::Text("1.0".to_string()), + ComparisonMode::NotEquals, + )]; + let obs = vec![make_obs( + "code://rust/project/tls/min_version", + "version", + ObjectValue::Text("1.0".to_string()), + )]; + + let report = verify_claims(&claims, &obs); + assert_eq!(report.summary.conflict, 1); + } + + #[test] + fn test_deprecated_claims_skipped() { + let mut claim = make_claim( + "c1", + "project/atomics/ordering", + "required_ordering", + AuthoredValue::Text("SeqCst".to_string()), + ComparisonMode::Equals, + ); + claim.status = ClaimStatus::Deprecated; + + let obs = vec![make_obs( + "code://rust/project/atomics/ordering", + "ordering", + ObjectValue::Text("Relaxed".to_string()), + )]; + + let report = verify_claims(&[claim], &obs); + // Deprecated claim should not be verified — only unclaimed observation + assert_eq!(report.summary.total_claims, 0); + assert_eq!(report.summary.unclaimed, 1); + } + + #[test] + fn test_backward_compat_no_comparison_field() { + // Simulate a TOML claim without the `comparison` field — should default to Equals + let toml_str = r#" +[[claim]] +id = "old-claim" +concept_path = "test/concept/path" +predicate = "test_pred" +value = "test_value" +provenance = "Test" +invariant = "Test invariant" +consequence = "Test consequence" +authority_tier = "expert" +category = "safety" +created_by = "tester" +created_at = "2026-02-08T12:00:00Z" +"#; + let claims_file: crate::claims_file::ClaimsFile = + toml::from_str(toml_str).expect("parse TOML without comparison field"); + assert_eq!(claims_file.claims.len(), 1); + assert_eq!(claims_file.claims[0].comparison, ComparisonMode::Equals); + } + + #[test] + fn test_wildcard_matches() { + assert!(wildcard_matches("imports/*", "imports/tokio")); + assert!(wildcard_matches("imports/*", "imports/serde")); + assert!(!wildcard_matches("imports/*", "exports/tokio")); + assert!(!wildcard_matches("imports/*", "imports/tokio/runtime")); + assert!(wildcard_matches("tls/cert_verification", "tls/cert_verification")); + assert!(!wildcard_matches("tls/cert_verification", "tls/min_version")); + } + + #[test] + fn test_compute_extractor_claim_map() { + use crate::extractors::ExtractorRegistry; + use crate::config::AphoriaConfig; + + let config = AphoriaConfig::default(); + let registry = ExtractorRegistry::new(&config); + + let claims = vec![ + make_claim( + "tls-001", + "project/tls/cert_verification", + "enabled", + AuthoredValue::Bool(true), + ComparisonMode::Equals, + ), + make_claim( + "import-001", + "core/imports/tokio", + "imported", + AuthoredValue::Bool(true), + ComparisonMode::Absent, + ), + ]; + + let map = compute_extractor_claim_map(&claims, registry.extractors()); + + // tls_verify should cover tls-001 + let tls_mapping = map.claim_mappings.iter().find(|m| m.claim_id == "tls-001"); + assert!(tls_mapping.is_some()); + assert!( + tls_mapping + .map(|m| m.covering_extractors.contains(&"tls_verify".to_string())) + .unwrap_or(false) + ); + + // import_graph should cover import-001 via wildcard + let import_mapping = map.claim_mappings.iter().find(|m| m.claim_id == "import-001"); + assert!(import_mapping.is_some()); + assert!( + import_mapping + .map(|m| m.covering_extractors.contains(&"import_graph".to_string())) + .unwrap_or(false) + ); + } +} diff --git a/crates/stemedb-api/src/handlers/assert.rs b/crates/stemedb-api/src/handlers/assert.rs index baf3b69..a4abd52 100644 --- a/crates/stemedb-api/src/handlers/assert.rs +++ b/crates/stemedb-api/src/handlers/assert.rs @@ -57,6 +57,8 @@ pub async fn create_assertion( // Append to WAL via group commit buffer state.commit_buffer.append(payload).await?; + metrics::counter!("stemedb_assertions_ingested_total").increment(1); + let response = CreateResponse { hash: hash.to_hex().to_string(), status: "created".to_string() }; diff --git a/crates/stemedb-api/src/handlers/constraints.rs b/crates/stemedb-api/src/handlers/constraints.rs index ba2d917..17b49a2 100644 --- a/crates/stemedb-api/src/handlers/constraints.rs +++ b/crates/stemedb-api/src/handlers/constraints.rs @@ -69,6 +69,8 @@ pub async fn constraints_query( State(state): State, AxumQuery(params): AxumQuery, ) -> Result> { + let query_start = std::time::Instant::now(); + metrics::counter!("stemedb_queries_total", "endpoint" => "constraints").increment(1); // Build query for all assertions with this subject // We need ALL predicates, not just one specific one let query = Query::builder().subject(¶ms.subject).build(); @@ -104,6 +106,9 @@ pub async fn constraints_query( .map(|a| assertion_to_constraint_entry(a, "prefer:")) .collect(); + metrics::histogram!("stemedb_query_latency_seconds", "endpoint" => "constraints") + .record(query_start.elapsed().as_secs_f64()); + Ok(Json(ConstraintsResponse { subject: params.subject, must_use, diff --git a/crates/stemedb-api/src/handlers/health.rs b/crates/stemedb-api/src/handlers/health.rs index d1493ef..e1d080e 100644 --- a/crates/stemedb-api/src/handlers/health.rs +++ b/crates/stemedb-api/src/handlers/health.rs @@ -4,12 +4,15 @@ use axum::{extract::State, Json}; use tracing::instrument; use crate::{dto::HealthResponse, error::Result, state::AppState}; -use stemedb_storage::{key_codec, KVStore}; +use stemedb_storage::{key_codec, CircuitBreakerStore, KVStore, QuarantineStore}; /// Health check endpoint. /// /// Returns service status ("healthy"), API version, and the total number of assertions /// currently stored in the database. Useful for monitoring and load balancer health checks. +/// +/// Also updates Prometheus gauges for assertions_total, quarantine_pending, +/// and circuit_breakers_open on each call. #[utoipa::path( get, path = "/v1/health", @@ -23,6 +26,25 @@ pub async fn health_check(State(state): State) -> Result, AxumQuery(params): AxumQuery, ) -> Result> { + let query_start = std::time::Instant::now(); + metrics::counter!("stemedb_queries_total", "endpoint" => "layered").increment(1); let computed_at = std::time::SystemTime::now() .duration_since(std::time::UNIX_EPOCH) .map(|d| d.as_secs()) @@ -126,6 +128,9 @@ pub async fn layered_query( let overall_winner = layered.overall_winner.map(assertion_to_dto).transpose()?; + metrics::histogram!("stemedb_query_latency_seconds", "endpoint" => "layered") + .record(query_start.elapsed().as_secs_f64()); + Ok(Json(LayeredQueryResponse { subject: params.subject, predicate: params.predicate, diff --git a/crates/stemedb-api/src/handlers/query.rs b/crates/stemedb-api/src/handlers/query.rs index 25850f3..326f284 100644 --- a/crates/stemedb-api/src/handlers/query.rs +++ b/crates/stemedb-api/src/handlers/query.rs @@ -71,6 +71,9 @@ pub async fn query_assertions( headers: HeaderMap, AxumQuery(params): AxumQuery, ) -> Result> { + let query_start = std::time::Instant::now(); + metrics::counter!("stemedb_queries_total", "endpoint" => "query").increment(1); + let query_start_timestamp = std::time::SystemTime::now() .duration_since(std::time::UNIX_EPOCH) .map(|d| d.as_secs()) @@ -259,6 +262,9 @@ pub async fn query_assertions( let total_count = assertion_responses.len(); + metrics::histogram!("stemedb_query_latency_seconds", "endpoint" => "query") + .record(query_start.elapsed().as_secs_f64()); + Ok(Json(QueryResponse { assertions: assertion_responses, total_count, diff --git a/crates/stemedb-api/src/handlers/skeptic.rs b/crates/stemedb-api/src/handlers/skeptic.rs index 447e3b3..eb0e966 100644 --- a/crates/stemedb-api/src/handlers/skeptic.rs +++ b/crates/stemedb-api/src/handlers/skeptic.rs @@ -61,6 +61,8 @@ pub async fn skeptic_query( State(state): State, AxumQuery(params): AxumQuery, ) -> Result> { + let query_start = std::time::Instant::now(); + metrics::counter!("stemedb_queries_total", "endpoint" => "skeptic").increment(1); // Create the resolver with vote and trust stores let vote_store = std::sync::Arc::new(GenericVoteStore::new(state.store.clone())); let trust_store = std::sync::Arc::new(GenericTrustRankStore::new(state.store.clone())); @@ -89,6 +91,9 @@ pub async fn skeptic_query( // Enrich with source warnings (P3.2 Cascade Flagging) enrich_claims_with_warnings(&state, &mut response).await; + metrics::histogram!("stemedb_query_latency_seconds", "endpoint" => "skeptic") + .record(query_start.elapsed().as_secs_f64()); + Ok(Json(response)) } diff --git a/docs/grafana/stemedb-overview.json b/docs/grafana/stemedb-overview.json new file mode 100644 index 0000000..dc34dbc --- 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}, + "id": 31, + "targets": [ + { + "expr": "rate(stemedb_assertions_ingested_total[5m])", + "legendFormat": "Assertions ingested/sec" + } + ], + "title": "Assertion Ingestion Rate", + "type": "timeseries" + }, + { + "datasource": { "type": "prometheus", "uid": "${DS_PROMETHEUS}" }, + "fieldConfig": { + "defaults": { + "unit": "ops", + "custom": { "drawStyle": "line", "fillOpacity": 20 } + } + }, + "gridPos": { "h": 8, "w": 12, "x": 12, "y": 24 }, + "id": 32, + "targets": [ + { + "expr": "rate(stemedb_assertions_synced_total[5m])", + "legendFormat": "{{ peer }}" + } + ], + "title": "Sync Throughput by Peer", + "type": "timeseries" + } + ], + "schemaVersion": 39, + "tags": ["stemedb", "episteme"], + "templating": { "list": [] }, + "time": { "from": "now-1h", "to": "now" }, + "timepicker": {}, + "timezone": "browser", + "title": "StemeDB Overview", + "uid": "stemedb-overview", + "version": 1 +} diff --git a/docs/planning/aphoria-claims-api.md b/docs/planning/aphoria-claims-api.md new file mode 100644 index 0000000..0cb88be --- /dev/null +++ b/docs/planning/aphoria-claims-api.md @@ -0,0 +1,448 @@ +# Aphoria Claims API — Sidecar Service + +> **Goal:** A lightweight HTTP API that exposes the same claim operations the `aphoria-claims` Claude Code skill performs — review diffs, identify claimable patterns, check existing claims, suggest new claims, create/update/verify claims — so any tool, agent, or CI pipeline can build claim authoring flows. +> +> **Key insight:** The skill is just an LLM calling CLI commands. This API replaces the CLI calls with HTTP endpoints and replaces the Claude skill prompt with a Gemini call for the reasoning. Same workflow, any client. + +--- + +## Architecture + +``` + ┌──────────────────────────┐ + │ Any Client │ + │ (CI, IDE, ADK agent, │ + │ custom UI, webhook) │ + └───────────┬──────────────┘ + │ HTTP + ▼ + ┌──────────────────────────┐ + │ aphoria-claims-api │ + │ (Rust, axum, port 18189) │ + │ │ + │ ┌─────────┐ ┌─────────┐ │ + │ │ Claims │ │ Gemini │ │ + │ │ Engine │ │ Client │ │ + │ └────┬────┘ └────┬────┘ │ + │ │ │ │ + │ ┌────▼───────────▼────┐ │ + │ │ aphoria lib crate │ │ + │ │ (ClaimsFile, │ │ + │ │ verify_claims, │ │ + │ │ extract_claims, │ │ + │ │ run_scan) │ │ + │ └─────────────────────┘ │ + └──────────────────────────┘ + │ + ┌───────────▼──────────────┐ + │ .aphoria/claims.toml │ + │ (project claim store) │ + └──────────────────────────┘ +``` + +The sidecar calls `aphoria` as a library crate (not shelling out to CLI). It links against the same types: `ClaimsFile`, `AuthoredClaim`, `Observation`, `verify_claims()`, `extract_claims()`. + +For the reasoning parts (identifying claimable patterns in diffs, suggesting claims), it calls Gemini via the HTTP API. + +--- + +## Why a Sidecar, Not Extending stemedb-api + +Aphoria claims are file-based (`.aphoria/claims.toml`) and project-scoped. The StemeDB API serves the knowledge graph (assertions, lenses, queries). These are different concerns: + +| | stemedb-api (18180) | aphoria-claims-api (18189) | +|---|---|---| +| **Data** | Episteme assertions (append-only DAG) | Authored claims (TOML file) | +| **Scope** | Cluster-wide knowledge | Single project | +| **Storage** | WAL + KV | `.aphoria/claims.toml` | +| **Auth** | API keys, per-agent | Local only (or simple token) | + +The sidecar runs alongside a project checkout. It needs filesystem access to the project root (for claims.toml, extractors, git). + +--- + +## API Surface + +### Claims CRUD + +These mirror `aphoria claims create|list|explain|update|supersede|deprecate`: + +``` +POST /v1/claims Create a claim +GET /v1/claims List claims (filter by ?category=&status=&format=json) +GET /v1/claims/:id Get a single claim +PATCH /v1/claims/:id Update claim fields +POST /v1/claims/:id/supersede Create superseding claim +DELETE /v1/claims/:id Deprecate a claim (body: {reason}) +``` + +**Request/response types use the existing `AuthoredClaim` struct** serialized as JSON. The API reads/writes `.aphoria/claims.toml` via `ClaimsFile`. + +### Verification + +Mirrors `aphoria verify run`: + +``` +POST /v1/verify Run verification (claims vs observations) +GET /v1/verify/map Show claim-to-extractor mapping +``` + +**POST /v1/verify** body: +```json +{ + "path": ".", + "show_unclaimed": true, + "categories": ["safety", "imports"], + "claims": ["wallet-seqcst-001"] +} +``` + +**Response:** `VerifyReport` as JSON — per-claim verdicts (pass/conflict/missing/unclaimed) + summary counts. + +### Coverage (A5.1) + +``` +GET /v1/coverage Coverage metrics per module +``` + +**Response:** +```json +{ + "project": "maxwell", + "summary": { + "total_observations": 67, + "total_claims": 12, + "claimed_percentage": 45.2, + "unclaimed_count": 37 + }, + "modules": [ + { + "module_path": "wallet/atomics", + "observation_count": 5, + "claim_count": 3, + "density": 0.6 + } + ] +} +``` + +### Diff Review (A5.3 — the reasoning endpoint) + +This is the one that calls Gemini. It does what the `aphoria-claims` skill does: + +``` +POST /v1/review Review a diff for claimable patterns +``` + +**Request:** +```json +{ + "diff": "... unified diff text ...", + "context": { + "repo": "maxwell", + "branch": "feat/new-ordering" + } +} +``` + +Internally: +1. Load existing claims from `.aphoria/claims.toml` +2. Run extractors on changed files to get observations +3. Run `verify_claims()` to check for violations +4. Send diff + existing claims + observations to Gemini with the claim-identification prompt +5. Return structured suggestions + +**Response:** +```json +{ + "violations": [ + { + "claim_id": "wallet-seqcst-001", + "invariant": "All wallet atomics MUST use SeqCst", + "violation": "Ordering::Relaxed at sync.rs:42", + "action": "fix_code_or_supersede" + } + ], + "suggestions": [ + { + "observation": { + "file": "src/pool.rs", + "line": 15, + "matched_text": "const MAX_POOL_SIZE: u32 = 50;" + }, + "suggested_claim": { + "id": "maxwell-pool-max-001", + "concept_path": "maxwell/db/pool/max_size", + "predicate": "max_value", + "value": "50", + "category": "constants", + "invariant": "Database pool size MUST NOT exceed 50", + "consequence": "OOM under sustained load", + "authority_tier": "observational" + }, + "reason": "New constant with non-obvious value. Similar to 2 existing claims about pool configuration.", + "confidence": 0.85 + } + ], + "no_claim_needed": [ + { + "pattern": "whitespace change in types.rs", + "reason": "Internal refactor, no behavioral change" + } + ] +} +``` + +### Docs Generation (A5.2) + +``` +POST /v1/docs/generate Generate claims-explained documentation +``` + +**Response:** Markdown string or JSON with full provenance chains, verification status, coverage gaps. + +### Onboarding (A5.4) + +``` +GET /v1/explain Narrative project overview from claims +``` + +**Response:** Markdown narrative: architectural boundaries, safety invariants, key constants with provenance, coverage gaps. + +--- + +## Gemini Integration + +The reasoning endpoints (`/v1/review`, docs generation, onboarding narrative) call Gemini for LLM tasks. + +**Config:** +```toml +# In aphoria.toml or env vars +[claims_api] +gemini_model = "gemini-2.5-flash" +``` + +``` +GEMINI_API_KEY=AIzaSy... # env var, never in config files +``` + +**Gemini calls are structured, not conversational.** Each call has: +1. A system prompt (the same logic from the `aphoria-claims` SKILL.md — claimability rules, category reference, authority tier guide) +2. Structured input (diff text, existing claims as JSON, observations as JSON) +3. Structured output (JSON schema for suggestions) + +The prompt is essentially the skill document converted to a system prompt, with the human-in-the-loop parts replaced by structured JSON output. + +### Prompt Structure for `/v1/review` + +``` +System: You are an expert at identifying architectural decisions, safety +invariants, and policy requirements in code changes. + +Given: +- A unified diff +- Existing authored claims (JSON) +- Observations extracted from changed files (JSON) + +Identify: +1. Violations: Does the diff contradict any existing claim? +2. Suggestions: What new claims should be authored? (Only if a violation + would break something, a new team member would need to know, or there's + a non-obvious reason for the choice) +3. No-claim-needed: What patterns don't need claims and why? + +For each suggestion, provide: +- id, concept_path, predicate, value, category +- invariant (what MUST be true) +- consequence (what breaks if violated) +- authority_tier (regulatory/clinical/observational/expert/community) +- reason (why this needs a claim) +- confidence (0.0-1.0) + +Respond in JSON matching this schema: { ... } +``` + +--- + +## Implementation + +### Crate Structure + +New binary in `applications/aphoria-claims-api/`: + +``` +applications/aphoria-claims-api/ + Cargo.toml # depends on aphoria (lib), axum, reqwest, serde_json + src/ + main.rs # axum server setup, routes + routes/ + claims.rs # CRUD endpoints + verify.rs # verification endpoint + coverage.rs # coverage metrics + review.rs # diff review (calls Gemini) + docs.rs # docs generation + explain.rs # onboarding narrative + gemini/ + client.rs # Gemini API client (generateContent) + prompts.rs # Prompt templates for each reasoning task + types.rs # Request/response types for Gemini API + state.rs # AppState (project_root, config, gemini client) + error.rs # Error types -> axum responses +``` + +### Dependencies + +- `aphoria` (path dependency) — all the domain logic +- `axum` — HTTP framework (already used by stemedb-api) +- `reqwest` — Gemini API calls +- `serde_json` — JSON serialization +- `tokio` — async runtime +- `tower-http` — CORS middleware +- `tracing` — structured logging + +### Key Design Decisions + +**Library, not shell-out.** The API imports `aphoria` as a crate and calls `ClaimsFile::load()`, `verify_claims()`, `extract_claims()` directly. No `Command::new("aphoria")`. + +**Stateless per request.** Each request reads `.aphoria/claims.toml` fresh. No in-memory cache of claims (the file is small, TOML parsing is fast). This means multiple clients can't corrupt each other's state. + +**File locking for writes.** `POST /v1/claims` and `PATCH /v1/claims/:id` acquire a file lock on `claims.toml` before read-modify-write. Use `fs2::FileExt` or `fd-lock`. + +**Gemini is optional.** The CRUD, verify, and coverage endpoints work without Gemini. Only `/v1/review`, `/v1/docs/generate`, and `/v1/explain` need LLM reasoning. If `GEMINI_API_KEY` is not set, these return 503 with a clear message. + +--- + +## Port Assignment + +Following the existing 181XX scheme: + +| Offset | Service | Port | +|--------|---------|------| +| +9 | Claims API | 18189 | + +Env var: `APHORIA_CLAIMS_API_BIND_ADDR` (default `127.0.0.1:18189`) + +--- + +## Example Flows + +### CI Pipeline: Block PR if Claims Violated + +```bash +# In CI script +DIFF=$(git diff origin/main...HEAD) + +RESULT=$(curl -s -X POST http://localhost:18189/v1/review \ + -H "Content-Type: application/json" \ + -d "{\"diff\": $(echo "$DIFF" | jq -Rs .)}") + +VIOLATIONS=$(echo "$RESULT" | jq '.violations | length') +if [ "$VIOLATIONS" -gt 0 ]; then + echo "Claims violated:" + echo "$RESULT" | jq '.violations[]' + exit 1 +fi +``` + +### IDE Extension: Suggest Claims on Save + +```typescript +// VS Code extension pseudocode +const diff = await getDiffSinceLastSave(); +const response = await fetch('http://localhost:18189/v1/review', { + method: 'POST', + body: JSON.stringify({ diff }) +}); +const { suggestions } = await response.json(); + +for (const s of suggestions) { + showInlineHint(s.observation.file, s.observation.line, + `Claim suggested: ${s.suggested_claim.invariant}`); +} +``` + +### ADK-Go Agent: Claims-Aware Code Generation + +```go +// Before generating code, check constraints via claims +resp, _ := http.Post("http://localhost:18189/v1/verify", + "application/json", + bytes.NewReader([]byte(`{"show_unclaimed": false}`))) + +var report VerifyReport +json.NewDecoder(resp.Body).Decode(&report) + +if report.Summary.Conflict > 0 { + // Don't generate code that conflicts with claims + return fmt.Errorf("existing claims would be violated") +} +``` + +### New Developer Onboarding + +```bash +curl -s http://localhost:18189/v1/explain | less +``` + +Gets the narrative: what this codebase claims about itself, why, and where to find evidence. + +--- + +## Gemini API Integration Details + +### Endpoint + +``` +POST https://generativelanguage.googleapis.com/v1beta/models/gemini-2.5-flash:generateContent?key=$GEMINI_API_KEY +``` + +### Request Shape + +```json +{ + "contents": [{ + "parts": [{ + "text": "System prompt + structured input" + }] + }], + "generationConfig": { + "responseMimeType": "application/json", + "responseSchema": { ... } + } +} +``` + +Using `responseMimeType: "application/json"` with a schema forces Gemini to return structured output matching our types. No parsing needed. + +### Cost Estimate + +Diff review for a typical PR (~500 lines): +- Input: ~2K tokens (prompt) + ~1K (diff) + ~1K (existing claims JSON) = ~4K tokens +- Output: ~500 tokens (suggestions JSON) +- At Gemini 2.5 Flash pricing: ~$0.001 per review + +Negligible. Run it on every PR. + +--- + +## What This Enables + +1. **Any LLM can author claims.** Not just Claude Code. Gemini, GPT, local models — they call the API. +2. **CI enforcement.** Block PRs that violate claims. No human needs to remember. +3. **IDE integration.** Inline suggestions as you type, not just at review time. +4. **ADK-Go agents.** Agents that generate code can check claims before writing, and author claims after. +5. **Custom dashboards.** Coverage metrics as a web service. Build whatever UI you want. +6. **The flywheel without the skill.** The `aphoria-claims` skill is great for Claude Code users. This API is for everyone else. + +--- + +## Implementation Order + +1. **Claims CRUD endpoints** — Wrap `ClaimsFile` in axum routes. No LLM needed. Test with curl. +2. **Verify endpoint** — Call `verify_claims()`, return JSON. No LLM needed. +3. **Coverage endpoint** — Compute from verify report. No LLM needed. +4. **Gemini client** — `reqwest` + structured output schema. +5. **Review endpoint** — The reasoning endpoint. Diff + claims + observations -> Gemini -> suggestions. +6. **Docs + Explain endpoints** — Narrative generation via Gemini. + +Steps 1-3 are pure engineering (wrap existing Rust functions in HTTP). Steps 4-6 add the Gemini reasoning layer. diff --git a/research-requests/a5-flywheel-skill-design.md b/research-requests/a5-flywheel-skill-design.md new file mode 100644 index 0000000..82c8f1c --- /dev/null +++ b/research-requests/a5-flywheel-skill-design.md @@ -0,0 +1,164 @@ +# A5 Flywheel Skill Design Research Directive + +You are an expert in AI-assisted developer tooling, specifically in designing Claude Code skills (prompt-based tool orchestration). You understand how LLM-based coding assistants work with CLI tools to create intelligent developer workflows. + +You are going to research how to design a Claude Code skill that creates a **flywheel effect** for a code-level claim system: the more claims developers author, the smarter the skill gets at identifying what needs claims and suggesting them. + +--- + +## Context + +### What We Have + +**Aphoria** is a code truth linter. It has: + +1. **42 regex extractors** that scan code and produce **observations** — structured grep results like `imported = true` or `ordering = SeqCst` at a specific file:line. + +2. **Authored claims** stored in `.aphoria/claims.toml` — human-written assertions with provenance, invariants, consequences, and evidence. Example: + ```toml + [[claim]] + id = "wallet-seqcst-001" + concept_path = "maxwell/wallet/atomics/ordering" + predicate = "required_ordering" + value = "SeqCst" + provenance = "Safety analysis by lead developer" + invariant = "All wallet atomics MUST use SeqCst" + consequence = "Double-spend race condition" + authority_tier = "expert" + evidence = ["wallet ADR-003", "Intel SDM Vol 4"] + category = "safety" + ``` + +3. **A verification engine** (`aphoria verify run`) that matches claims against observations and produces verdicts: PASS, CONFLICT, MISSING, UNCLAIMED. + +4. **An existing claims skill** (`.claude/skills/aphoria-claims/SKILL.md`) that reviews diffs, identifies claimable patterns, checks existing claims, and creates new ones via CLI. + +5. **CLI commands**: + - `aphoria claims list --format json` — all authored claims + - `aphoria claims create --id X --invariant "..." ...` — create a claim + - `aphoria verify run --format json --show-unclaimed` — verify claims vs code + - `aphoria scan . --show-claims --format json` — extract observations + - `aphoria claims explain` — render claims-explained markdown + +### What We Need (A5 — The Flywheel) + +Four features that make the system get smarter with use: + +**A5.1 Coverage Metrics** — "What percentage of this codebase has claims?" Per-module density, unclaimed observation gaps. Probably a new CLI command: `aphoria coverage`. + +**A5.2 Auto-Generated Claims-Explained** — `aphoria docs generate` produces full project documentation from the knowledge graph. Groups by module, includes provenance chains (claim A supersedes claim B), highlights coverage gaps. + +**A5.3 Skill Learning** — The skill reads existing claims, recognizes patterns, and when it sees analogous code, suggests new claims. "You have 3 claims about SeqCst ordering in wallet code. This new `Ordering::Relaxed` in sync.rs — should that also be SeqCst?" + +**A5.4 Onboarding Mode** — `aphoria explain` produces a narrative: "This codebase enforces 12 safety invariants. The wallet uses SeqCst everywhere because of double-spend risk (ADR-003)..." + +### The Hypothesis + +A5.1, A5.2, A5.4 are new Rust CLI commands. Straightforward engineering. + +A5.3 is the interesting one. The hypothesis is: **the skill just calls the CLI**. The "learning" is the LLM reasoning over the JSON output of `aphoria claims list` and `aphoria verify run --show-unclaimed`. There's no ML model, no vector embeddings, no training loop. Claude reads the claims, understands the patterns, and applies that understanding to new code. The flywheel is prompt engineering, not machine learning. + +--- + +## Research Questions + +### 1. Is the "skill calls CLI" pattern sufficient for claim suggestion? + +Given that Claude can read JSON output of `aphoria claims list` (typically 5-50 claims) and `aphoria verify run --show-unclaimed` (typically 10-200 unclaimed observations), can it effectively: + +- Group existing claims by semantic pattern (not string matching — understanding that "SeqCst in wallet" and "SeqCst in sync" are the same kind of safety invariant) +- Identify unclaimed observations that match existing claim patterns +- Generate suggested claims with meaningful invariant/consequence text (not template garbage) +- Prioritize suggestions by coverage impact + +What are the known limits? At what number of claims/observations does context window become a problem? What's the fallback? + +### 2. What skill prompt patterns produce the best "learning from examples" behavior? + +When you give an LLM N examples of authored claims and ask it to suggest new ones for unclaimed observations, what prompt structure works best? Specifically: + +- Few-shot with existing claims as examples vs. summarized patterns? +- Should the skill prompt include ALL claims or only those in relevant categories? +- Does chain-of-thought ("this observation at sync.rs:42 is analogous to claim wallet-seqcst-001 because both involve atomic ordering") improve suggestion quality? +- How should the skill handle the case where 0 claims exist yet (cold start)? + +### 3. What's the right CLI surface for A5.1/A5.2/A5.4? + +For the Rust CLI commands that support the flywheel: + +- **Coverage** (`aphoria coverage`): What metrics actually matter? Per-module claim density? Unclaimed-to-observation ratio? Something else? What do existing code quality/coverage tools (SonarQube, CodeClimate) show that developers actually act on? +- **Docs generation** (`aphoria docs generate`): What documentation formats do teams actually read? Is claims-explained.md (grouped by category, full provenance per claim) the right format, or should it be structured differently for consumption? +- **Onboarding** (`aphoria explain`): What information do new team members need in their first day/week? Is a narrative format better than structured? Should it be interactive (ask questions) or static? + +### 4. How do other tools create "flywheel" effects in developer workflows? + +Are there examples of developer tools where: +- The tool gets more useful as developers invest in it +- The "investment" is structured metadata (not just code) +- The tool surfaces that metadata in context-appropriate ways + +Examples might include: Conventional Commits + release automation, ADR tools that surface decisions during review, type systems that get stronger with more annotations, architecture fitness functions. What patterns work and which are abandoned? + +### 5. Cross-project claim patterns: what's the realistic scope? + +A5.3 mentions "confidence grows with consistency across projects." Is this realistic for v1? + +- How do tools like ESLint shared configs, Prettier presets, or security policy bundles handle cross-project knowledge? +- Can Trust Packs (our existing export/import format for claim bundles) serve as the cross-project learning mechanism? +- Or should v1 be single-project only, with cross-project deferred? + +--- + +## Methodology + +### Phase 1: Prompt Engineering for "Learning from Claims" + +- Look at research on few-shot learning with structured data in LLM contexts +- Find examples of LLM-based tools that improve with user-provided examples +- Study Claude Code skill patterns that demonstrate "reads context, applies judgment" +- Look at GitHub Copilot Workspace, Cursor rules, and similar tools that use project-specific context + +### Phase 2: Developer Tool Flywheel Patterns + +- Study adoption curves of tools that require upfront investment (TypeScript, linting configs, ADRs) +- Find data on what makes developers continue investing vs. abandon tools +- Look at code quality dashboard UX (SonarQube, CodeClimate, Codacy) for coverage metric design + +### Phase 3: CLI UX for Knowledge Graph Outputs + +- Study how tools present "code knowledge" (Sourcegraph insights, CodeScene, ndepend) +- Find examples of auto-generated documentation that teams actually use +- Look at onboarding documentation formats (READMEs vs. guided tours vs. interactive) + +### Phase 4: Synthesis + +- Compare findings across sources +- Identify which A5 features are "just engineering" vs. "need careful design" +- Validate or refute the "skill just calls CLI" hypothesis + +--- + +## Deliverables + +Produce a report with: + +1. **Executive Summary** — Is the "skill calls CLI" hypothesis correct? What's the biggest risk? +2. **Skill Prompt Design** — Concrete recommendations for how the A5.3 skill prompt should be structured, with examples +3. **CLI Command Recommendations** — What `aphoria coverage`, `aphoria docs generate`, and `aphoria explain` should output and why +4. **Flywheel Mechanics** — What specifically creates the positive feedback loop, and what could break it +5. **Cold Start Strategy** — How does A5 work when a project has 0 claims? What's the bootstrapping UX? +6. **Cross-Project Scope** — Include in v1 or defer? With evidence. +7. **Open Questions** — What still needs testing/prototyping + +--- + +## Success Criteria + +Research is complete when: + +- [ ] The "skill calls CLI" hypothesis has a clear verdict with supporting evidence +- [ ] There's a concrete skill prompt structure (not abstract — actual prompt text or template) +- [ ] CLI output formats are specified with rationale (what developers act on vs. ignore) +- [ ] At least 3 real-world flywheel examples from developer tools are analyzed +- [ ] Cold start problem has a specific solution +- [ ] Cross-project scope has a recommendation with evidence diff --git a/roadmap-archive.md b/roadmap-archive.md index ff28586..a9c1ba6 100644 --- a/roadmap-archive.md +++ b/roadmap-archive.md @@ -1,7 +1,7 @@ # Episteme (StemeDB) Roadmap Archive > **Purpose:** Historical record of completed phases. For current work, see [roadmap.md](./roadmap.md). -> **Last Updated:** 2026-02-05 +> **Last Updated:** 2026-02-08 --- @@ -19,6 +19,12 @@ | **7** | The Shield | ✅ Complete | Trust at Scale — EigenTrust, PoW, quarantine | | **8A** | Chaos | ✅ Complete | Partition testing, Jepsen-style verification | | **MVP** | Consumer Health | ✅ Complete | Real FDA data → conflicts detected → demo | +| **Pilot 1-3** | Pilot Prep (Partial) | ✅ Complete | Dashboard, demo data, impact analysis, load testing | +| **Pilot 4** | Production Hardening | ✅ Complete | API auth, backup/restore, Prometheus metrics | +| **Aphoria A1** | Observations vs Claims | ✅ Complete | Type system: Observation + AuthoredClaim, bridge tiers | +| **Aphoria A2** | Authoring Workflow | ✅ Complete | claims create/list/explain/update/supersede/deprecate | +| **Aphoria A3** | Verification Engine | ✅ Complete | verify.rs, verify run/map, pre-commit hook, self-audit | +| **Aphoria A4** | Corpus as Assertions | ✅ Complete | RFC/OWASP assertions, authority lens, trust packs | --- @@ -285,6 +291,54 @@ --- +## Enterprise Pilot Preparation (Partial) ✅ + +*Completed: Pilot-1, Pilot-2, Pilot-3, P4.1. Remaining: P4.2-P4.4, P5.1-P5.4 (still in roadmap.md)* + +### Pilot-1: Demo Dashboard (Complete) + +> **Deliverable:** React admin dashboard that makes the API visual + +- [x] **P1.1 Dashboard Scaffold**: Next.js + shadcn/ui project setup (`applications/stemedb-dashboard/`) +- [x] **P1.2 Skeptic Query Visualization**: Contradictions with conflict scores, tier badges, expandable claims +- [x] **P1.3 Layered Consensus View**: Per-tier breakdown with cross-tier conflict visualization +- [x] **P1.4 Quarantine Admin Panel**: Pending queue, approve/reject, filter by reason, metrics +- [x] **P1.5 Circuit Breaker Status**: Blocked agents, state badges (OPEN/HALF_OPEN/CLOSED), manual reset +- [x] **P1.6 Audit Trail Browser**: Recent queries, drilldown, filter by agent/time, export JSON/CSV + +### Pilot-2: Demo Data Seeder (Complete) + +> **Deliverable:** Pre-signed realistic demo data using Go SDK + +- [x] **P2.1 Demo Keypair Management**: 5 demo agents (FDA, PubMed, ClinicalTrials, Reddit, Internal) with deterministic keys +- [x] **P2.2 Conflict Scenarios**: 3 drugs (semaglutide, tirzepatide, liraglutide), 150+ assertions, real FDA content +- [x] **P2.3 Retractable Sources**: CARDIOVASC_MEGA_TRIAL with 110 cascade assertions across 5 agents +- [x] **P2.4 Historical Data**: Lifecycle evolution (Proposed → Approved → Deprecated), 17 historical assertions + +### Pilot-3: Impact Analysis (Complete) + +> **Deliverable:** Automatic cascade when source is retracted + +- [x] **P3.1 Impact Analysis Endpoint**: `GET /v1/sources/{hash}/impact`, quarantine with preview, restore, 17 tests +- [x] **P3.2 Cascade Flagging**: Query-time source status enrichment, `exclude_quarantined_sources` filter, CSV/JSON export +- [x] **P3.3 Impact Dashboard Widget**: Sources page, quarantine dialog with impact preview, impact ripple animation + +### Pilot-4: Production Hardening (Partial) + +- [x] **P4.1 Load Testing**: Go-based load tester, 10K assertions, 1K writes/sec, 100 concurrent readers, markdown reports + +### 5 Amazement Moments (Status at Archive) + +| # | Moment | Status | +|---|--------|--------| +| 1 | Contradictions visible with confidence scores | ✅ Complete | +| 2 | Cascade invalidation when source retracted | ✅ Complete | +| 3 | Full FDA-ready audit trail | ✅ Complete | +| 4 | Point-in-time queries + decay | ✅ API ready (no timeline UI) | +| 5 | Malicious agent blocked by circuit breaker | ✅ Complete | + +--- + ## Key Architectural Decisions (Historical) - **sled → redb/fjall**: sled abandoned. HybridStore routes by key prefix. @@ -321,3 +375,51 @@ | `stemedb-cluster` | Cluster membership (SWIM), sharding, gateway | | `stemedb-ontology` | Domain definitions (Pharma), subject builders, medical extractors | | `stemedb-chaos` | Chaos testing infrastructure | + +--- + +## Pilot-4: Production Hardening ✅ + +- [x] **P4.2 API Authentication**: API key middleware (`X-API-Key`), BLAKE3-hashed keys, 3 roles (admin/write/read), 5 CRUD endpoints, bootstrap via `STEMEDB_ROOT_API_KEY` +- [x] **P4.3 Backup/Restore**: `scripts/backup-stemedb.sh` + `scripts/restore-stemedb.sh`, WAL magic verify, rename-not-delete safety +- [x] **P4.4 Prometheus Metrics**: `/metrics` endpoint, `assertions_total`, `queries_total`, `query_latency_seconds`, `quarantine_pending`, Grafana dashboard template + +--- + +## Aphoria A1: Distinguish Observations from Claims ✅ + +*Goal: Type system reflects the real difference. No more pretending grep results are claims.* + +- [x] **A1.1 Rename ExtractedClaim to Observation**: Updated across all 42 extractors, bridge, scanner, CLI +- [x] **A1.2 Create Claim Type**: `AuthoredClaim` in `types/authored_claim.rs` with provenance/invariant/consequence/authority/evidence/status/supersedes. `ClaimStore` trait + `TomlClaimStore`. `ClaimsFile` TOML persistence in `.aphoria/claims.toml` +- [x] **A1.3 Update Bridge Tier Mapping**: Observations → Tier 4 (Community), authored claims get tier from `authority_tier` field via `authored_claim_to_assertion()` +- [x] **A1.4 Claim File Format**: `.aphoria/claims.toml` with `[[claim]]` TOML arrays, human-readable, version-controllable + +## Aphoria A2: Build the Authoring Workflow ✅ + +*Goal: The skill — not the scanner — is the primary interface for creating claims.* + +- [x] **A2.1 Claim Authoring Command**: `aphoria claims create` with all fields, authority tier validation +- [x] **A2.2 Claim Listing**: `aphoria claims list` with `--category`, `--status`, `--format json` +- [x] **A2.3 Claims Explained Generator**: `aphoria claims explain` groups by category with provenance/invariant/consequence +- [x] **A2.4 Enhance Aphoria Skill**: `.claude/skills/aphoria-claims/SKILL.md` for diff review, pattern table, authority tier guide +- [x] **A2.5 Claim Lifecycle**: `update`, `supersede` (with parent pointer), `deprecate` (with reason) + +## Aphoria A3: Pair Extractors with Claims ✅ + +*Goal: Extractors verify claims, not generate them. The audit finds real conflicts.* + +- [x] **A3.1 Verification Engine**: `ComparisonMode` (Equals/NotEquals/Present/Absent), `verify.rs` with tail-path matching, 4 verdicts (Pass/Conflict/Missing/Unclaimed), 11 unit tests +- [x] **A3.2 Verify Command**: `aphoria verify run|map`, `--exit-code` (0=pass, 1=missing, 2=conflicts, 3=error), `--claim` and `--category` filters +- [x] **A3.3 Verify Report Formatters**: `verify_table.rs` + `verify_json.rs` +- [x] **A3.4 Pre-Commit Hook**: `aphoria verify run --changed-only --exit-code` using `walk_staged_files()` +- [x] **A3.5 Self-Audit Extractors**: `self_audit.rs` (unwrap count, bridge tier, parent_hash, lifecycle), opt-in, 5+3 tests + +## Aphoria A4: Make the Corpus First-Class ✅ + +*Goal: RFC/OWASP knowledge lives in Episteme as real assertions, not hardcoded data.* + +- [x] **A4.1 Import RFC Corpus**: Tier 0/1 assertions with section references, source hash = content hash, `create_authoritative_assertion_with_metadata()` helper +- [x] **A4.2 Import OWASP Corpus**: OWASP → Tier 0/1 assertions with CWE references as metadata +- [x] **A4.3 Lens-Based Conflict Resolution**: `AphoriaAuthorityLens` implementing `stemedb_lens::Lens`, `TierBreakdown` in conflict results +- [x] **A4.4 Trust Packs as Claim Bundles**: `aphoria corpus export-pack`, `trust-pack list/install`, `export_claims_as_policy()` bridges claims → Trust Packs diff --git a/roadmap.md b/roadmap.md index 6539ebd..bd3d7c3 100644 --- a/roadmap.md +++ b/roadmap.md @@ -1,14 +1,14 @@ # Episteme (StemeDB) Roadmap > **Goal:** Build the "Git for Truth" substrate for autonomous AI research. -> **Current Focus:** Enterprise Pilot Preparation -> **Target Vertical:** BioTech/Pharma ("The Living Review") +> **Current Focus:** A5.3 Claim Suggester validation + Pilot 5 Operational Readiness +> **Target Vertical:** BioTech/Pharma ("The Living Review") + Code Truth (Aphoria) > **Endgame:** Distributed multi-writer cluster for millions of concurrent agents > -> **Infrastructure Status:** Phases 1-7 complete ✅ | Phase 8A (Chaos) complete ✅ -> **Pilot Status:** Consumer Health MVP complete ✅ | Enterprise Demo in progress +> **Infrastructure Status:** Phases 1-7 complete | Phase 8A (Chaos) complete | Pilot 1-4 complete +> **Aphoria Status:** A1-A4 complete (observations/claims/verify/corpus) | A5 flywheel 3/4 done > -> **Archive:** For completed phases 1-7, see [roadmap-archive.md](./roadmap-archive.md) +> **Archive:** For completed phases 1-8A + Pilot 1-3, see [roadmap-archive.md](./roadmap-archive.md) --- @@ -16,227 +16,76 @@ | Phase | Status | Summary | |-------|--------|---------| -| **1-7** | ✅ Complete | Core infrastructure, distributed cluster, trust & safety | -| **8A** | ✅ Complete | Chaos testing, Jepsen-style verification | -| **MVP** | ✅ Complete | Consumer Health demo with real FDA data | -| **Pilot Prep** | 🎯 In Progress | Dashboard, impact analysis, production hardening | -| **8B-C** | Planned | Observability, geo-distribution | +| **1-7, 8A** | ✅ Complete | Core infra, cluster, trust, chaos testing | +| **MVP, Pilot 1-4** | ✅ Complete | Consumer Health demo, dashboard, API auth, metrics | +| **Aphoria A1-A4** | ✅ Complete | Observations/claims/verify/corpus/authority lens | +| **Aphoria A5** | 🎯 In Progress | Flywheel: 3/4 done, A5.3 suggest skill needs validation | +| **Pilot 5** | Planned | Operational readiness: runbooks, ref arch, demo validation | +| **8B-C** | Planned | Distributed observability, geo-distribution | | **9** | Planned | Disaster recovery, compliance, storage management | --- -## 🎯 Phase: Enterprise Pilot Preparation (CURRENT) +## 🎯 Aphoria: From Scanner to Knowledge Graph Client (CURRENT) -> **Goal:** Make the pilot bulletproof. Amaze enterprise decision makers. -> **Timeline:** 5 weeks -> **Success Criteria:** Dr. Sarah Chen (skeptical VP of Data Infrastructure) fights her CFO for budget +> **Goal:** Transform Aphoria from "grep with Episteme vocabulary" into a real knowledge graph client that authors, stores, and audits claims with provenance and lineage. +> **Vision Document:** [applications/aphoria/docs/vision-gaps.md](./applications/aphoria/docs/vision-gaps.md) +> **Validation:** Maxwell scan (67 observations, 0 noise) + hand-written [claims-explained.md](./claims-explained.md) -### The 5 Amazement Moments We Must Deliver +### Completed Phases (A1-A4 + P4 — see [roadmap-archive.md](./roadmap-archive.md) for details) -| # | Moment | Current State | Gap | -|---|--------|---------------|-----| -| 1 | Contradictions visible with confidence scores | ✅ Complete | Dashboard scaffold + Skeptic Query UI ✅ | -| 2 | Cascade invalidation when source retracted | ✅ Complete | Full UI: Sources page + impact dialog (P3.1-3.3) ✅ | -| 3 | Full FDA-ready audit trail | ✅ Complete | Audit Trail Browser (P1.6) ✅ | -| 4 | Point-in-time queries + decay | ✅ API ready | No timeline UI | -| 5 | Malicious agent blocked by circuit breaker | ✅ Complete | Circuit Breaker Status (P1.5) ✅ | +| Phase | What It Delivered | +|-------|-------------------| +| **A1** | `Observation` vs `AuthoredClaim` types, bridge tier mapping, `.aphoria/claims.toml` format | +| **A2** | `aphoria claims create/list/explain/update/supersede/deprecate`, `aphoria-claims` skill | +| **A3** | `verify.rs` engine (Pass/Conflict/Missing/Unclaimed), `aphoria verify run/map`, pre-commit hook, self-audit | +| **A4** | RFC/OWASP as Episteme assertions, `AphoriaAuthorityLens`, Trust Pack export/install | +| **P4** | API auth (3 roles), backup/restore scripts, Prometheus metrics + Grafana dashboard | -### Pilot-1: Demo Dashboard (Week 1-2) +### Phase A5: The Flywheel -> **Deliverable:** React admin dashboard that makes the API visual +> **Goal:** The system gets smarter with use. Each claim makes the next claim easier. +> **Details:** [vision-gaps.md — §5](./applications/aphoria/docs/vision-gaps.md#5-the-claims-explainedmd-pattern-should-be-the-product) (claims-explained.md as the product) +> **Research:** [a5-flywheel-skill-design.md](./research-requests/a5-flywheel-skill-design.md) — validates "skill calls CLI" hypothesis +> **Key Insight:** LLM reasoning over CLI JSON output replaces ML training. The flywheel is prompt engineering, not machine learning. -- [x] **P1.1 Dashboard Scaffold**: Next.js + shadcn/ui project setup ✅ - - [x] Project structure: `applications/stemedb-dashboard/` - - [x] API client for StemeDB endpoints (`src/lib/api/client.ts`) - - [x] Authentication scaffold (API key header) - - [x] Dark mode (default), responsive layout with collapsible sidebar - - [x] shadcn/ui components: button, card, badge, input, separator, tabs - - [x] Live API status indicator (polls /health every 30s) - - [x] Port 18188, builds and runs successfully +- [x] **A5.1 Claim Coverage Metrics**: Per-module claim density and gap reporting + - [x] `coverage.rs`: `CoverageReport`, `ModuleCoverage`, `CoverageSummary` types + - [x] `compute_coverage()` uses `verify_claims()` as source of truth for claim-observation matching + - [x] Per-module: observation count, claim count, claimed/unclaimed, missing claims, density + - [x] `aphoria coverage` CLI: table, JSON, markdown formats, `--sort-by` (name/density/unclaimed/observations) + - [x] Coverage gaps section: modules with observations but no claims + - [x] 8 unit tests including deprecated claim exclusion +- [x] **A5.2 Auto-Generated Documentation**: `aphoria docs generate` + `aphoria claims explain` + - [x] `aphoria docs generate` CLI command with `--output` and `--format` (markdown/json) + - [x] `claims_explain.rs`: groups by category, includes provenance/invariant/consequence/evidence per claim + - [x] `explain.rs`: reads `.aphoria/claims.toml`, renders via `render_claims_markdown()` + - [x] Provenance chains preserved (supersedes references) +- [ ] **A5.3 Claim Suggester Skill**: LLM-powered pattern recognition via "skill calls CLI" + - [x] New skill: `.claude/skills/aphoria-suggest/SKILL.md` (3 modes: cold start / foundation / flywheel) + - [x] Workflow defined: `claims list` → `verify run --show-unclaimed` → reason by analogy → suggest + - [x] Few-shot learning: existing claims as gold-standard examples for style matching + - [x] Chain-of-thought: reasoning template before each suggestion + - [x] Cold start bootstrap: reads README/CLAUDE.md/tests/ADRs when 0 claims + - [x] Context tiers: local → semantic → summary → global (subagent) + - [x] Quality gates: non-trivial, not type-enforced, has consequence, not duplicate + - [x] **VG-022 CLOSED**: `verifiable_predicates()` on Extractor trait; 10 extractors declare predicates; `verify map` shows extractor→claim coverage + - [x] **Dogfood claims**: 10 total claims in `.aphoria/claims.toml` (3 arch + 7 security) covering all ComparisonModes + - [ ] **Validate**: Run skill against Aphoria's own codebase (dogfood) + - [ ] **Validate**: Run skill against an external project (cold start test) + - [ ] **Iterate**: Refine prompt based on suggestion quality from validation +- [x] **A5.4 Onboarding Mode**: `aphoria explain` for new team members + - [x] `explain.rs`: `generate_explanation()` reads claims, renders narrative + - [x] `aphoria explain` CLI with `--output` and `--format` (markdown/json) + - [x] Shows claim inventory grouped by category with provenance + - [x] Empty project handling: directs to `aphoria claims create` -- [x] **P1.2 Skeptic Query Visualization**: Show contradictions graphically ✅ - - [x] Query builder: subject, predicate inputs - - [x] Conflict score gauge (0.0-1.0 with color coding) - - [x] Claims table with weight bars, source tier badges - - [x] "CONTESTED" / "AGREED" / "UNANIMOUS" status badges - - [x] Expandable claim rows with source details, agents, provenance hashes - - [x] Loading skeleton, empty state, error state with retry +--- -- [x] **P1.3 Layered Consensus View**: Per-tier breakdown ✅ - - [x] Tier accordion showing each source class (T0→T5, empty tiers hidden) - - [x] Within-tier conflict score (compact gauge in accordion header) - - [x] Cross-tier conflict visualization (full gauge with stats) - - [x] Extended ConflictGauge with variant prop for reuse +## Pilot 5: Operational Readiness -- [x] **P1.4 Quarantine Admin Panel**: Content defense visibility ✅ - - [x] Pending queue with reason, timestamp, quality score - - `quarantine-panel.tsx`, `quarantine-list.tsx`, `quarantine-row.tsx` - - [x] Approve/Reject buttons with confirmation - - `ConfirmationDialog` with restore/delete actions - - [x] Filter by reason (duplicate, spam, untrusted high-confidence) - - `quarantine-filters.tsx` with dropdown selector - - [x] Metrics: pending count, approved/rejected today - - `quarantine-metrics.tsx` with MetricCard grid - -- [x] **P1.5 Circuit Breaker Status**: Trust & safety dashboard ✅ - - [x] Blocked agents list with failure count, retry time - - `circuit-list.tsx`, `circuit-card.tsx` with full details - - [x] State badges: OPEN (red), HALF_OPEN (yellow), CLOSED (green) - - `state-badge.tsx` with color-coded variants - - [x] Manual reset button for admin override - - `circuit-panel.tsx` - `handleReset` calls API - - [x] Summary with state counts - - `circuit-summary.tsx` replaces historical events (more useful) - - [x] Auto-refresh every 10 seconds - -- [x] **P1.6 Audit Trail Browser**: Query provenance explorer ✅ - - [x] Recent queries list with agent, timestamp, subject - - `audit-list.tsx`, `audit-row.tsx` with pagination - - [x] Drilldown: contributing assertions, weights, winner - - Expandable row details in `audit-row.tsx` - - [x] Filter by agent, time range, subject - - `audit-filters.tsx` with 1h/24h/7d/30d/all options - - [x] Export to JSON/CSV - - `audit-export.tsx` with proper escaping - -### Pilot-2: Demo Data Seeder (Week 2) - -> **Deliverable:** Pre-signed realistic demo data using Go SDK -> **Status:** All complete ✅ - -- [x] **P2.1 Demo Keypair Management**: Reproducible demo keys ✅ - - [x] 5 demo agents with realistic naming convention: - - `fda:drug-label-ingestor` (Tier 0 - Regulatory) - - `pubmed:abstract-indexer` (Tier 1 - Clinical) - - `clinicaltrials:study-importer` (Tier 1 - Clinical) - - `reddit:health-discussion-scraper` (Tier 5 - Anecdotal) - - `internal:clinical-ops-reviewer` (Tier 3 - Expert) - - [x] Keys stored in `demo/keys/` with README documenting each agent's role/scope - - `demo/keys/agents.json` with seeds, public keys, tiers, descriptions - - `demo/keys/README.md` with full documentation - - `demo/keys/keygen.go` for deterministic regeneration - - [x] Go SDK script: `cmd/demo-seed/main.go` - - Loads keys from `agents.json` - - Creates 260+ assertions with realistic data - - [x] One-command setup: `./scripts/run-demo.sh` (start DB → seed → open dashboard) - - Build detection, health check, auto-cleanup on exit - - `--clean` flag for fresh start, `--no-open` to skip browser - -- [x] **P2.2 Conflict Scenarios**: Pre-built disagreements with real data ✅ - - [x] 3 drugs: semaglutide (45), tirzepatide (38), liraglutide (32) assertions - - [x] 150+ assertions total using real FDA label excerpts - - [x] ClinicalTrials.gov summaries (STEP, SURMOUNT, SELECT, LEADER trials) - - [x] **Killer conflicts**: Weight loss (FDA 14.9% vs STEP UP 20.7% vs Reddit variable), Gastroparesis (FDA 0.2% vs UBC 3x risk) - - [x] 4 genuine conflicts per drug (weight loss, nausea, gastroparesis, CV benefit) - - [x] Source registry with 30+ deterministic hash sources across T0-T5 tiers - -- [x] **P2.3 Retractable Sources**: Set up cascade demo ✅ - - [x] New `CARDIOVASC_MEGA_TRIAL` source in `sources.go` (landmark multi-drug CV outcomes study) - - [x] 110 assertions citing this source across 8 categories (visceral cascade effect) - - Primary/Secondary CV Outcomes (30), Biomarkers (15), Subgroup Analyses (20) - - Expert Guidelines (15), Real-World Evidence (15), Comparative Efficacy (10), Community (5) - - [x] 5 agents represented: T0 (FDA), T1 (ClinicalTrials), T2 (PubMed), T3 (Internal), T5 (Reddit) - - [x] `printCascadeDemoCommands()` outputs curl commands for demo flow - - [x] Demo documentation updated in `amazement-demo.md` - - **Note:** API endpoints (P3.1) complete ✅, live demo ready - -- [x] **P2.4 Historical Data**: Time-travel via lifecycle evolution ✅ - - [x] **Approach:** Use lifecycle states (Proposed → Approved → Deprecated), not fake timestamps - - [x] Each lifecycle transition auditable with real timestamps (signature timestamps) - - [x] Demo scenario: Wegovy CV indication change (pre-March 2024 vs post-SELECT) - - [x] 8 historical scenarios: CV indication, SELECT trial evolution, ADA guidelines, Tirzepatide expansion - - [x] 17 historical assertions showing lifecycle progression - - [x] Demo commands for `as_of` queries - -### Pilot-3: Impact Analysis (Week 3) - -> **Deliverable:** Automatic cascade when source is retracted -> **Critical:** This unblocks P2.3 (retractable sources demo data) - -- [x] **P3.1 Impact Analysis Endpoint**: `GET /v1/sources/{hash}/impact` ✅ - - [x] Returns all assertions citing this source (verified: 110 assertions for CARDIOVASC_MEGA_TRIAL) - - [x] Returns count of queries that used those assertions - - [x] Returns list of affected agents/recommendations (verified: 4 agents) - - [x] Implementation in `stemedb-api/src/handlers/source_registry/handlers.rs:237-439` - - [x] `POST /v1/sources/{hash}/quarantine` with preview mode (preview=true shows impact without changes) - - [x] Preview response: "This will affect X assertions and Y agent recommendations" - - [x] Undo capability: `POST /v1/sources/{hash}/restore` (verified: restores 110 assertions) - - [x] 17 unit/integration tests passing - -- [x] **P3.2 Cascade Flagging**: Automatic downstream impact ✅ - - [x] When source status → quarantined, flag citing assertions - - Implemented query-time lookup (not index mutation) to preserve append-only immutability - - `SourceStatusEnricher` service batch-lookups source statuses from SourceRegistry - - `SourceWarningDto` attached to assertions with `warning_type`, `message`, `source_label`, `status_updated_at` - - [x] ~~New field on assertion index~~ → Query-time enrichment instead (preserves immutability) - - [x] Queries can filter by `exclude_quarantined_sources=true` - - Added to `QueryParams` in `dto/query_params.rs` - - POST-retrieval filter applied after query execution - - [x] Define query behavior: quarantined sources show with warning (not silently omitted) - - `source_warning` field added to `AssertionResponse` and `ClaimSummaryDto` - - Skeptic endpoint enriches claims with warnings - - [x] Export affected items list for regulatory documentation (CSV/JSON) - - `GET /v1/sources/{hash}/impact/export?format=csv|json` - - Returns `ImpactExportRow` with assertion_hash, subject, predicate, agent_id, timestamp, lifecycle, confidence - - CSV includes proper escaping, JSON returns array of objects - -- [x] **P3.3 Impact Dashboard Widget**: Visualize the cascade ✅ - - [x] Source status change UI (Active → Quarantined) - - `components/sources/status-badge.tsx` with color-coded badges - - `components/sources/tier-badge.tsx` with T0-T5 labels - - [x] Confirmation dialog: "This will affect 234 downstream assertions and 12 recommendations" - - `components/sources/quarantine-dialog.tsx` with impact preview - - Warning box shows exact affected counts from API - - [x] Choice: "Quarantine immediately" or "Review affected items first" - - Dual action buttons in dialog - - "Review first" opens `ImpactDetailPanel` with full assertion list - - [x] Animated "impact ripple" showing affected count - - `components/sources/impact-ripple.tsx` with Tailwind `animate-ping` - - Triggers on dialog open, counts pulse with amber styling - - [x] List of impacted queries with timestamp - - `components/sources/impact-detail-panel.tsx` shows affected assertions table - - Affected agents shown as chips - - [x] "Remediation status" tracking - - Source status visible in list, metrics show quarantined count - - `components/sources/sources-metrics.tsx` with Active/Deprecated/Quarantined counts - - [x] Audit trail: WHO retracted, WHEN, and WHY - - `RestoreDialog` and `QuarantineDialog` capture reason field - - Export to CSV/JSON for regulatory documentation - -### Pilot-4: Production Hardening (Week 4) - -> **Deliverable:** Load testing, authentication, backup documentation - -- [x] **P4.1 Load Testing**: Prove performance claims ✅ - - [x] Go-based load tester with native Ed25519 signing (`cmd/load-test/`) - - [x] Benchmark: 10K assertions baseline latency (p99 < 200ms target) - - [x] Benchmark: 1K writes/sec sustained for configurable duration - - [x] Benchmark: 100 concurrent readers, <2x degradation target - - [x] Markdown report generator with pass/fail status - - [x] One-command runner: `./scripts/run-load-test.sh` - - [x] Results saved to `uat/production-readiness/results/` - -- [ ] **P4.2 API Authentication**: Basic security for pilot - - [ ] API key middleware (`X-API-Key` header) - - [ ] Per-key rate limiting (separate from per-agent quota) - - [ ] Admin keys vs read-only keys - - [ ] Key management: `POST /v1/admin/api-keys` - -- [ ] **P4.3 Backup/Restore Documentation**: DR story - - [ ] Document WAL-based recovery procedure - - [ ] Script: `scripts/backup-stemedb.sh` (snapshot + WAL archive) - - [ ] Script: `scripts/restore-stemedb.sh` (restore from backup) - - [ ] Test restore procedure, document in UAT - -- [ ] **P4.4 Prometheus Metrics**: Observability baseline - - [ ] `GET /metrics` endpoint with prometheus format - - [ ] Key metrics: `assertions_total`, `queries_total`, `query_latency_seconds` - - [ ] Trust metrics: `quarantine_pending`, `circuit_breakers_open` - - [ ] Basic Grafana dashboard template - -### Pilot-5: Operational Readiness (Week 5) - -> **Deliverable:** Runbooks, monitoring, reference architecture +> **Goal:** Complete production readiness for enterprise pilot demo. +> **Context:** Pilot 1-4 complete (see [archive](./roadmap-archive.md)). - [ ] **P5.1 Operational Runbooks**: Common procedures documented - [ ] "Server won't start" troubleshooting @@ -260,44 +109,8 @@ - [ ] **P5.4 Executive Demo Script Validation**: End-to-end rehearsal - [ ] Run through `amazement-demo-2.md` with real dashboard - [ ] Time each segment (target: 20 minutes total) - - [ ] Record demo video for async sharing (backup if live demo fails) - - [ ] All 5 Aha Moments demonstrable with real data (not mockups) - - [ ] **Enterprise Skeptic Questions** (must have documented answers): - - What's the data ingestion latency? (FDA update → queryable) - - What happens when agents disagree on interpretation? - - Can I export an audit report for regulators? (PDF/CSV) - - What's the failure mode if service goes down mid-demo? - - How do I verify demo data is representative of my real data? - - If I retract a source, what happens to queries that would have used it? - -### Pilot Prep Deliverables Summary - -| Week | Deliverable | Owner | Acceptance Criteria | -|------|-------------|-------|---------------------| -| 1-2 | `stemedb-dashboard` | Frontend | ✅ 6 functional panels, connects to API (P1.1-P1.6) | -| 2 | `demo-seed` (P2.1-P2.4) | SDK | ✅ 260+ assertions, 3 drugs, real FDA content, lifecycle history, cascade data | -| 3 | Impact Analysis (P3.1) | Backend | ✅ `/v1/sources/{hash}/impact` + quarantine/restore endpoints | -| 3 | Cascade Flagging (P3.2) | Backend | ✅ Source warnings, exclude filter, impact export | -| 3 | Impact Dashboard (P3.3) | Frontend | ✅ Sources page, quarantine dialog, impact ripple, export | -| 3 | `demo-seed` (P2.3) | SDK | ✅ Retractable source with 110 cascade assertions | -| 4 | Load Test Results | QA | ✅ `cmd/load-test/` + `scripts/run-load-test.sh` | -| 4 | API Authentication | Backend | API keys work, rate limiting functional | -| 4 | Backup/Restore | Ops | Documented and tested procedure | -| 4 | Metrics Endpoint | Backend | `/metrics` returns Prometheus format | -| 5 | Runbooks | Ops | 5 runbooks in `docs/runbooks/` | -| 5 | Reference Architecture | Docs | Deployment guide complete | -| 5 | Demo Rehearsal | All | 20-minute demo runs smoothly | -| 5 | One-Command Demo | Ops | ✅ `./scripts/run-demo.sh` works (P2.1) | - -### Demo Data Quality Checklist (from Enterprise Skeptic Review) - -- [x] Real FDA label excerpts (public domain) - not synthetic ✅ -- [x] ClinicalTrials.gov summaries for plausibility ✅ -- [x] Agent names map to real-world roles (`fda:drug-label-ingestor`) - P2.1 ✅ -- [x] Conflicts are genuine (not "100% vs 0%" manufactured disagreements) - P2.2 ✅ -- [x] Cascade demo shows 100+ affected items (visceral impact) - 110 assertions ✅ -- [x] Export capability for regulatory documentation (CSV/JSON) - P3.2 ✅ -- [ ] Recovery story: what happens if demo breaks mid-presentation? + - [ ] Record demo video for async sharing + - [ ] All 5 Aha Moments demonstrable with real data --- @@ -308,28 +121,13 @@ ### 8B. Observability - [ ] **8B.1 Distributed Metrics**: Per-node, per-range, per-agent metrics. - - `sync_lag_seconds{peer}`, `merkle_diff_size{peer}`, `convergence_latency_p99` - - `assertions_total{node}`, `writes_per_second{node}` - - Crate: `metrics` + `metrics-exporter-prometheus` - - [ ] **8B.2 Admin Dashboard**: Cluster health visibility. - - `GET /v1/admin/cluster` → node list, range assignments, leader locations - - `GET /v1/admin/ranges` → range sizes, split/merge history - - `POST /v1/admin/sync` → force anti-entropy sync ### 8C. Production Hardening - [ ] **8C.1 Snapshot/Restore**: Fast replica bootstrap. - - Serialize full node state as snapshot - - New nodes join by restoring snapshot + replaying recent WAL - - [ ] **8C.2 Backpressure**: Don't overwhelm slow nodes. - - Track per-peer sync queue depth - - Throttle gossip to slow peers - - [ ] **8C.3 Geo-Distribution**: Multi-region deployment. - - Regional clusters with CRDT federation - - Locality-aware reads --- @@ -356,10 +154,6 @@ - [ ] **9C.2 Data Retention Policies**: Per-subject/predicate retention rules. - [ ] **9C.3 Audit Trail for Compliance**: Immutable admin action log. - [ ] **9C.4 SOC 2 Type II Certification**: External audit and certification. - - Gap assessment and remediation - - Evidence collection automation - - Auditor engagement - - Target: Q3 2026 ### 9D. Storage Management @@ -426,7 +220,14 @@ Write Path (Spine): Read Path (Cortex): | `stemedb-cluster` | Cluster membership (SWIM), sharding, gateway | ✅ | | `stemedb-ontology` | Domain definitions (Pharma), subject builders, medical extractors | ✅ | | `stemedb-chaos` | Chaos testing infrastructure | ✅ | -| `stemedb-dashboard` | Admin dashboard (React/Next.js) | 🎯 In Progress (7 panels complete) | +| `stemedb-dashboard` | Admin dashboard (React/Next.js) | ✅ (7 panels) | + +## Applications + +| App | Purpose | Status | +|-----|---------|--------| +| `aphoria` | Code-level truth linter — 42 extractors, claims, verify, coverage | 🎯 A5 flywheel | +| `disputed` | Controversy explorer | Planned | ## SDKs @@ -435,21 +236,6 @@ Write Path (Spine): Read Path (Cortex): | `sdk/go/steme` | Go HTTP client with Ed25519 signing and fluent builders | ✅ | | `sdk/go/adk` | ADK-Go tools and callbacks for AI agents | ✅ | -## Specialized Agents - -| Domain | Agent | When to use | -|--------|-------|-------------| -| **Product Vision** | `episteme-product-visionary` | Use cases, "why not Postgres?", product-market fit | -| **Pilot Prep** | `enterprise-skeptic-buyer` | Pressure-test demos, find gaps, prepare for tough questions | -| General Rust | `primary-developer` | Feature implementation, refactoring | -| Code Quality | `rust-quality-engineer` | Reviews, test coverage, clippy | -| Storage | `storage-engine-architect` | WAL, LSM, crash recovery | -| Graph Engine | `rust-graph-engine-architect` | Lock-free structures, cache optimization | -| Defensive | `defensive-systems-architect` | Rate limiting, circuit breakers, hostile input | -| Distributed | `distributed-systems-engineer` | CRDT replication, Raft coordination, Merkle sync | -| Lenses | `stemedb-lens-architect` | Query resolution, ranking algorithms | -| Planning | `stemedb-planner` | Milestone planning, roadmap | - --- ## Quick Reference @@ -468,6 +254,9 @@ cargo fmt --check # Run API server cargo run --bin stemedb-api +# Run Aphoria scan +cargo run --bin aphoria -- scan /path/to/project --show-observations + # Run demo script ./scripts/demo-consumer-health.sh ``` @@ -477,8 +266,9 @@ cargo run --bin stemedb-api ## Related Documents - [CLAUDE.md](./CLAUDE.md) — AI assistant instructions and project rules -- [roadmap-archive.md](./roadmap-archive.md) — Completed phases 1-7 detail +- [roadmap-archive.md](./roadmap-archive.md) — Completed phases 1-8A + Pilot 1-3 +- [applications/aphoria/docs/vision-gaps.md](./applications/aphoria/docs/vision-gaps.md) — Aphoria vision gap analysis +- [claims-explained.md](./claims-explained.md) — Hand-written Maxwell claims (the gold standard) - [docs/demo/pilot/amazement-demo.md](./docs/demo/pilot/amazement-demo.md) — Technical demo script - [docs/demo/pilot/amazement-demo-2.md](./docs/demo/pilot/amazement-demo-2.md) — Executive demo script - [uat/production-readiness/README.md](./uat/production-readiness/README.md) — Production verification checklist -- [.claude/agents/enterprise-skeptic-buyer.md](./.claude/agents/enterprise-skeptic-buyer.md) — Dr. Sarah Chen persona diff --git a/scripts/backup-stemedb.sh b/scripts/backup-stemedb.sh new file mode 100755 index 0000000..d14de18 --- /dev/null +++ b/scripts/backup-stemedb.sh @@ -0,0 +1,184 @@ +#!/usr/bin/env bash +# +# StemeDB Backup Script +# +# Creates a timestamped backup of WAL and database files. +# +# Usage: +# ./scripts/backup-stemedb.sh # Default backup to backups/ +# ./scripts/backup-stemedb.sh --output /mnt/nfs # Custom output directory +# ./scripts/backup-stemedb.sh --wal-only # Backup WAL only (faster) +# +# Exit codes: +# 0 - Backup completed successfully +# 1 - Backup failed +# + +set -euo pipefail + +# Configuration +readonly SCRIPT_DIR="$(cd "$(dirname "${BASH_SOURCE[0]}")" && pwd)" +readonly PROJECT_DIR="$(dirname "$SCRIPT_DIR")" +readonly WAL_DIR="${STEMEDB_WAL_DIR:-${PROJECT_DIR}/data/wal}" +readonly DB_DIR="${STEMEDB_DB_DIR:-${PROJECT_DIR}/data/db}" +readonly TIMESTAMP="$(date +%Y%m%d-%H%M%S)" + +# Colors (if terminal supports it) +if [[ -t 1 ]]; then + RED='\033[0;31m' + GREEN='\033[0;32m' + YELLOW='\033[0;33m' + BLUE='\033[0;34m' + NC='\033[0m' +else + RED='' + GREEN='' + YELLOW='' + BLUE='' + NC='' +fi + +# Logging helpers +info() { echo -e "${BLUE}[INFO]${NC} $*"; } +success() { echo -e "${GREEN}[OK]${NC} $*"; } +warn() { echo -e "${YELLOW}[WARN]${NC} $*"; } +fail() { echo -e "${RED}[FAIL]${NC} $*"; exit 1; } + +# Defaults +OUTPUT_DIR="${PROJECT_DIR}/backups" +WAL_ONLY=false + +# Parse arguments +while [[ $# -gt 0 ]]; do + case $1 in + --output) + OUTPUT_DIR="$2" + shift 2 + ;; + --wal-only) + WAL_ONLY=true + shift + ;; + --help|-h) + echo "Usage: $0 [--output ] [--wal-only]" + echo "" + echo "Create a timestamped backup of StemeDB data." + echo "" + echo "Options:" + echo " --output Output directory (default: backups/)" + echo " --wal-only Backup WAL directory only (skip DB)" + echo " --help Show this help message" + echo "" + echo "Environment:" + echo " STEMEDB_WAL_DIR WAL directory (default: data/wal)" + echo " STEMEDB_DB_DIR Database directory (default: data/db)" + exit 0 + ;; + *) + fail "Unknown argument: $1 (use --help for usage)" + ;; + esac +done + +readonly BACKUP_DIR="${OUTPUT_DIR}/stemedb-backup-${TIMESTAMP}" + +# Cleanup partial backup on failure +cleanup() { + local exit_code=$? + if [[ $exit_code -ne 0 && -d "$BACKUP_DIR" ]]; then + warn "Backup failed, removing partial backup at ${BACKUP_DIR}" + rm -rf "$BACKUP_DIR" + fi +} +trap cleanup EXIT + +main() { + echo "" + echo "==========================================" + echo " StemeDB Backup" + echo "==========================================" + echo "" + + # Validate source directories + if [[ ! -d "$WAL_DIR" ]]; then + fail "WAL directory not found: ${WAL_DIR}" + fi + + if [[ -z "$(ls -A "$WAL_DIR" 2>/dev/null)" ]]; then + fail "WAL directory is empty: ${WAL_DIR}" + fi + + if [[ "$WAL_ONLY" == "false" ]]; then + if [[ ! -d "$DB_DIR" ]]; then + fail "DB directory not found: ${DB_DIR}" + fi + if [[ -z "$(ls -A "$DB_DIR" 2>/dev/null)" ]]; then + fail "DB directory is empty: ${DB_DIR}" + fi + fi + + # Create backup directory + mkdir -p "$BACKUP_DIR" + info "Backup directory: ${BACKUP_DIR}" + + # Backup WAL (append-only, safe to copy live) + info "Copying WAL directory..." + rsync -a "${WAL_DIR}/" "${BACKUP_DIR}/wal/" + local wal_files + wal_files=$(find "${BACKUP_DIR}/wal" -type f | wc -l) + local wal_size + wal_size=$(du -sh "${BACKUP_DIR}/wal" | cut -f1) + success "WAL: ${wal_files} files, ${wal_size}" + + # Backup DB (unless --wal-only) + local db_files=0 + local db_size="0" + if [[ "$WAL_ONLY" == "false" ]]; then + info "Copying DB directory..." + rsync -a "${DB_DIR}/" "${BACKUP_DIR}/db/" + db_files=$(find "${BACKUP_DIR}/db" -type f | wc -l) + db_size=$(du -sh "${BACKUP_DIR}/db" | cut -f1) + success "DB: ${db_files} files, ${db_size}" + else + info "Skipping DB (--wal-only)" + fi + + # Compute total size + local total_size + total_size=$(du -sh "$BACKUP_DIR" | cut -f1) + + # Write metadata + cat > "${BACKUP_DIR}/backup-metadata.json" </dev/null | grep -o '"stemedb-api","version":"[^"]*"' | head -1 | cut -d'"' -f6 || echo "unknown")" +} +METADATA + success "Metadata written" + + # Summary + echo "" + echo "==========================================" + echo -e " ${GREEN}Backup complete${NC}" + echo "==========================================" + echo "" + echo " Location: ${BACKUP_DIR}" + echo " WAL files: ${wal_files} (${wal_size})" + if [[ "$WAL_ONLY" == "false" ]]; then + echo " DB files: ${db_files} (${db_size})" + fi + echo " Total: ${total_size}" + echo "" + echo "Restore with:" + echo " ./scripts/restore-stemedb.sh ${BACKUP_DIR}" + echo "" +} + +main "$@" diff --git a/scripts/restore-stemedb.sh b/scripts/restore-stemedb.sh new file mode 100755 index 0000000..39ee34c --- /dev/null +++ b/scripts/restore-stemedb.sh @@ -0,0 +1,220 @@ +#!/usr/bin/env bash +# +# StemeDB Restore Script +# +# Restores WAL and database files from a backup created by backup-stemedb.sh. +# +# Usage: +# ./scripts/restore-stemedb.sh backups/stemedb-backup-20260208-120000/ +# ./scripts/restore-stemedb.sh backups/stemedb-backup-*/ --force +# +# Safety: +# - Checks that StemeDB is NOT running before restore +# - Refuses to overwrite non-empty target dirs without --force +# - With --force, renames existing dirs (never deletes) +# +# Exit codes: +# 0 - Restore completed successfully +# 1 - Restore failed +# + +set -euo pipefail + +# Configuration +readonly SCRIPT_DIR="$(cd "$(dirname "${BASH_SOURCE[0]}")" && pwd)" +readonly PROJECT_DIR="$(dirname "$SCRIPT_DIR")" +readonly API_HOST="${STEMEDB_BIND_ADDR:-127.0.0.1:18180}" +readonly TIMESTAMP="$(date +%Y%m%d-%H%M%S)" + +# Colors (if terminal supports it) +if [[ -t 1 ]]; then + RED='\033[0;31m' + GREEN='\033[0;32m' + YELLOW='\033[0;33m' + BLUE='\033[0;34m' + NC='\033[0m' +else + RED='' + GREEN='' + YELLOW='' + BLUE='' + NC='' +fi + +# Logging helpers +info() { echo -e "${BLUE}[INFO]${NC} $*"; } +success() { echo -e "${GREEN}[OK]${NC} $*"; } +warn() { echo -e "${YELLOW}[WARN]${NC} $*"; } +fail() { echo -e "${RED}[FAIL]${NC} $*"; exit 1; } + +# Defaults +BACKUP_PATH="" +TARGET_WAL="${STEMEDB_WAL_DIR:-${PROJECT_DIR}/data/wal}" +TARGET_DB="${STEMEDB_DB_DIR:-${PROJECT_DIR}/data/db}" +FORCE=false + +# Parse arguments +while [[ $# -gt 0 ]]; do + case $1 in + --target-wal) + TARGET_WAL="$2" + shift 2 + ;; + --target-db) + TARGET_DB="$2" + shift 2 + ;; + --force) + FORCE=true + shift + ;; + --help|-h) + echo "Usage: $0 [--target-wal ] [--target-db ] [--force]" + echo "" + echo "Restore StemeDB from a backup." + echo "" + echo "Arguments:" + echo " Path to backup directory (must contain backup-metadata.json)" + echo "" + echo "Options:" + echo " --target-wal Target WAL directory (default: data/wal)" + echo " --target-db Target DB directory (default: data/db)" + echo " --force Overwrite existing data (renames to .pre-restore-TIMESTAMP)" + echo " --help Show this help message" + echo "" + echo "Environment:" + echo " STEMEDB_WAL_DIR WAL directory (default: data/wal)" + echo " STEMEDB_DB_DIR Database directory (default: data/db)" + echo " STEMEDB_BIND_ADDR API address for running check (default: 127.0.0.1:18180)" + exit 0 + ;; + -*) + fail "Unknown option: $1 (use --help for usage)" + ;; + *) + if [[ -z "$BACKUP_PATH" ]]; then + BACKUP_PATH="$1" + else + fail "Unexpected argument: $1" + fi + shift + ;; + esac +done + +if [[ -z "$BACKUP_PATH" ]]; then + fail "Backup path is required. Usage: $0 [--force]" +fi + +main() { + echo "" + echo "==========================================" + echo " StemeDB Restore" + echo "==========================================" + echo "" + + # Validate backup + if [[ ! -d "$BACKUP_PATH" ]]; then + fail "Backup directory not found: ${BACKUP_PATH}" + fi + + if [[ ! -f "${BACKUP_PATH}/backup-metadata.json" ]]; then + fail "Not a valid backup: missing backup-metadata.json in ${BACKUP_PATH}" + fi + + info "Backup: ${BACKUP_PATH}" + info "Metadata:" + cat "${BACKUP_PATH}/backup-metadata.json" | sed 's/^/ /' + echo "" + + # Check StemeDB is NOT running + info "Checking that StemeDB is not running..." + if curl -s --connect-timeout 2 "http://${API_HOST}/v1/health" > /dev/null 2>&1; then + fail "StemeDB is running at ${API_HOST}. Stop the server before restoring." + fi + success "StemeDB is not running" + + # Check what's in the backup + local has_wal=false + local has_db=false + [[ -d "${BACKUP_PATH}/wal" ]] && has_wal=true + [[ -d "${BACKUP_PATH}/db" ]] && has_db=true + + if [[ "$has_wal" == "false" ]]; then + fail "Backup contains no WAL directory" + fi + + # Handle existing target directories + if [[ -d "$TARGET_WAL" && -n "$(ls -A "$TARGET_WAL" 2>/dev/null)" ]]; then + if [[ "$FORCE" == "false" ]]; then + fail "Target WAL directory is not empty: ${TARGET_WAL}\n Use --force to rename existing data and proceed." + fi + local renamed="${TARGET_WAL}.pre-restore-${TIMESTAMP}" + warn "Renaming existing WAL: ${TARGET_WAL} -> ${renamed}" + mv "$TARGET_WAL" "$renamed" + fi + + if [[ "$has_db" == "true" && -d "$TARGET_DB" && -n "$(ls -A "$TARGET_DB" 2>/dev/null)" ]]; then + if [[ "$FORCE" == "false" ]]; then + fail "Target DB directory is not empty: ${TARGET_DB}\n Use --force to rename existing data and proceed." + fi + local renamed="${TARGET_DB}.pre-restore-${TIMESTAMP}" + warn "Renaming existing DB: ${TARGET_DB} -> ${renamed}" + mv "$TARGET_DB" "$renamed" + fi + + # Restore WAL + info "Restoring WAL..." + mkdir -p "$TARGET_WAL" + rsync -a "${BACKUP_PATH}/wal/" "${TARGET_WAL}/" + local wal_files + wal_files=$(find "$TARGET_WAL" -type f | wc -l) + success "WAL restored: ${wal_files} files" + + # Verify WAL header magic bytes (STEM = first 4 bytes) + local wal_valid=true + for wal_file in "${TARGET_WAL}"/*.wal; do + [[ -f "$wal_file" ]] || continue + local magic + magic=$(head -c 4 "$wal_file" | od -A n -t x1 | tr -d ' ') + if [[ "$magic" == "5354454d" ]]; then + success "WAL magic OK: $(basename "$wal_file")" + else + warn "WAL magic mismatch: $(basename "$wal_file") (got: ${magic})" + wal_valid=false + fi + done + + # Restore DB (if present in backup) + if [[ "$has_db" == "true" ]]; then + info "Restoring DB..." + mkdir -p "$TARGET_DB" + rsync -a "${BACKUP_PATH}/db/" "${TARGET_DB}/" + local db_files + db_files=$(find "$TARGET_DB" -type f | wc -l) + success "DB restored: ${db_files} files" + else + info "Backup is WAL-only, skipping DB restore" + fi + + # Summary + echo "" + echo "==========================================" + if [[ "$wal_valid" == "true" ]]; then + echo -e " ${GREEN}Restore complete${NC}" + else + echo -e " ${YELLOW}Restore complete (with WAL warnings)${NC}" + fi + echo "==========================================" + echo "" + echo " WAL: ${TARGET_WAL}" + if [[ "$has_db" == "true" ]]; then + echo " DB: ${TARGET_DB}" + fi + echo "" + echo "Start StemeDB with:" + echo " STEMEDB_WAL_DIR=${TARGET_WAL} STEMEDB_DB_DIR=${TARGET_DB} cargo run --bin stemedb-api" + echo "" +} + +main "$@" diff --git a/uat/aphoria-cli-uat-report.md b/uat/aphoria-cli-uat-report.md new file mode 100644 index 0000000..0689f4e --- /dev/null +++ b/uat/aphoria-cli-uat-report.md @@ -0,0 +1,209 @@ +# Aphoria CLI UAT Report + +**Date:** 2026-02-08 +**Binary:** `aphoria 0.1.0` (release build, 13MB) +**Target:** StemeDB codebase (~573 files, 112K LoC) +**Claims file:** `applications/aphoria/.aphoria/claims.toml` (10 claims) + +--- + +## Executive Summary + +| Metric | Value | +|--------|-------| +| Commands tested | 46 | +| Pass (exit 0, correct output) | 43 | +| Partial (works with caveats) | 2 | +| Fail (exit != 0 or wrong output) | 1 | +| **Weighted overall score** | **84.3 / 100** | +| **Verdict** | **PASS** | + +--- + +## Group 1: Smoke Tests (4 commands) + +| ID | Command | Exit | Time | Grade | Notes | +|----|---------|------|------|-------|-------| +| 1.1 | `--help` | 0 | <1s | **97** | Lists all 27 subcommands, clean formatting. Missing examples section. | +| 1.2 | `scan` (table) | 0 | 10.9s | **78** | Works correctly. 2 BLOCKs found. Slightly over 10s target. Parallel extraction using all cores. | +| 1.3 | `status` | 0 | <1s | **92** | Shows data dir, project root, baseline, agent key. Clean. | +| 1.4 | `scan --format json` | 0 | ~11s | **90** | Valid JSON with keys: conflicts, deprecated_usages, drifts, project, scan_id, summary. | + +**Group 1 average: 89.3** + +--- + +## Group 2: Scan Variants (7 commands) + +| ID | Command | Exit | Grade | Notes | +|----|---------|------|-------|-------| +| 2.1 | `scan --format markdown` | 0 | **95** | Clean markdown with table and detail sections. Ready for CI integration. | +| 2.2 | `scan --format sarif` | 0 | **95** | Valid SARIF 2.1.0 with schema URL, 1 run, 2 results. IDE-ready. | +| 2.3 | `scan --show-claims` | 0 | **90** | Shows all 2288 observations in 4607 lines. Table format with concept/value/file/line/confidence. | +| 2.4 | `scan --benchmark` | 0 | **93** | Shows timing breakdown: discovery 18ms, extraction 11243ms, conflict 1ms. Very useful. | +| 2.5 | `scan --staged` | 0 | **92** | Scans 13 staged files, 99 claims, 0 conflicts. Fast. | +| 2.6 | `scan --strict` | 0 | **60** | Output identical to default scan. No visible difference in thresholds or behavior. Either strict is a no-op or thresholds only matter when scores are marginal. | +| 2.7 | `scan --debug` | 0 | **65** | Adds "Authority: Tier X" line per finding. No conflict resolution traces, scoring breakdown, or query plan. Name implies more depth. | + +**Group 2 average: 84.3** + +--- + +## Group 3: Claims (6 commands) + +**Note:** Claims commands require cwd = directory containing `.aphoria/claims.toml`. From project root, `claims list` shows "No claims found." This is a discoverability issue. + +| ID | Command | Exit | Grade | Notes | +|----|---------|------|-------|-------| +| 3.1 | `claims list` | 0 | **88** | Shows 10 claims in table: ID, Category, Tier, Status, Invariant. Clean formatting. | +| 3.2 | `claims list --format json` | 0 | **92** | Valid JSON array of 10 claims. | +| 3.3 | `claims explain` | 0 | **95** | Detailed markdown with concept, predicate, invariant, consequence, provenance, authority, evidence, status, author. Grouped by category. | +| 3.4 | `claims explain --format json` | 0 | **78** | Valid JSON but returns flat array, not structured object with `type` field. Inconsistent with `explain --format json` which has `type: "onboarding"`. | +| 3.5 | `claims explain --claim ` | 0 | **95** | Single claim detail, clean markdown. | +| 3.6 | `claims list --category security` | 0 | **95** | Filtered to 6 security claims. Works correctly. | + +**Group 3 average: 90.5** + +--- + +## Group 4: Verification (5 commands) + +| ID | Command | Exit | Grade | Notes | +|----|---------|------|-------|-------| +| 4.1 | `verify run` | 0 | **95** | Shows 1 PASS, 6 CONFLICT, 3 MISSING with observation evidence and consequences. Rich, actionable output. | +| 4.2 | `verify run --format json` | 0 | **92** | Valid JSON: `{results: [...], summary: {pass:1, conflict:6, missing:3, unclaimed:1239}}`. | +| 4.3 | `verify run --show-unclaimed` | 0 | **90** | Appends 1239 unclaimed observations. Long but correct. | +| 4.4 | `verify map` | 0 | **97** | Shows claim→extractor mapping. 7/10 have extractors, 3 have "NO EXTRACTOR". Lists 2 extractors with predicates but no matching claims. Excellent. | +| 4.5 | `verify run --format table` | 0 | **85** | Same as default (table is default). Flag accepted, no error. | + +**Group 4 average: 91.8** + +--- + +## Group 5: Coverage & Docs (9 commands) + +| ID | Command | Exit | Grade | Notes | +|----|---------|------|-------|-------| +| 5.1 | `coverage` | 0 | **93** | Per-module table: Claims, Observations, Claimed, Unclaimed, Missing, Density. 33 modules. Summary at bottom. | +| 5.2 | `coverage --format json` | 0 | **95** | Valid JSON: `{modules, project, summary}`. | +| 5.3 | `coverage --format markdown` | 0 | **95** | Clean markdown with summary section and table. | +| 5.4 | `coverage --sort-by density` | 0 | **85** | Sorts but many modules show 0.0% density, so ordering among zeroes is arbitrary. Works for non-zero modules. | +| 5.5 | `coverage --sort-by unclaimed` | 0 | **90** | Correctly sorts by unclaimed count descending. Extractors (355) first. | +| 5.6 | `explain` | 0 | **97** | Onboarding summary: categories table, verification health, coverage snapshot, top uncovered modules. Excellent first-touch UX. | +| 5.7 | `explain --format json` | 0 | **97** | Valid JSON: `type: "onboarding"`, with categories, coverage, verification. | +| 5.8 | `docs generate` | 0 | **90** | Full 224-line reference doc combining claims explain + verification + coverage. Comprehensive. | +| 5.9 | `docs generate --format json` | 0 | **92** | Valid JSON: `type: "full_docs"`, with claims, coverage, verification. | + +**Group 5 average: 92.7** + +--- + +## Group 6: Corpus & Trust Packs (3 commands) + +| ID | Command | Exit | Grade | Notes | +|----|---------|------|-------|-------| +| 6.1 | `corpus list` | 0 | **90** | Shows 4 source types: hardcoded (Tier 0), RFC (Tier 0), OWASP (Tier 1), Vendor (Tier 2). Lists specific sources. | +| 6.2 | `corpus build --offline` | 0 | **90** | Builds 30 assertions (19 hardcoded + 11 vendor). Cleanly skips network sources. | +| 6.3 | `trust-pack list` | 0 | **92** | Lists 3 packs: security-hardening, rfc-compliance, owasp-top10. Shows install command. | + +**Group 6 average: 90.7** + +--- + +## Group 7: Learning & Extractors (4 commands) + +| ID | Command | Exit | Grade | Notes | +|----|---------|------|-------|-------| +| 7.1 | `extractors stats` | 0 | **88** | Shows zero counts and promotion thresholds. Helpful even when empty. | +| 7.2 | `extractors candidates` | 0 | **88** | "No patterns eligible" with explanation of eligibility criteria. Good empty state. | +| 7.3 | `extractors shadow-status` | 0 | **88** | "No shadow tests" with config hint for enabling. Good guidance. | +| 7.4 | `patterns status` | 0 | **90** | Shows store location, cross-project config, hosted server status. Comprehensive. | + +**Group 7 average: 88.5** + +--- + +## Group 8: Advanced Features (8 commands) + +| ID | Command | Exit | Grade | Notes | +|----|---------|------|-------|-------| +| 8.1 | `scope status` | 0 | **88** | Shows hierarchy, inheritance chain, overrides. Config hint provided. | +| 8.2 | `lifecycle list` | 0 | **82** | "No patterns found." Terse. Could show what statuses are available. | +| 8.3 | `governance pending` | 1 | **55** | Exits non-zero with "Governance is not enabled" message. Should exit 0 with informative message — non-zero suggests error. | +| 8.4 | `governance pending --format json` | 1 | **45** | Same non-zero exit. No JSON output — prints plain text error. Format flag silently ignored on error path. | +| 8.5 | `audit summary` | 0 | **88** | Shows request counts and total audit events (638). Works without governance enabled. | +| 8.6 | `audit summary --format json` | 0 | **90** | Valid JSON with 8 fields including approval_rate and avg_approval_days. | +| 8.7 | `migrations status` | 0 | **82** | "No deprecated patterns found." Correct but minimal. | +| 8.8 | `research status` | 0 | **82** | "Gap store: not initialized" with guidance. | + +**Group 8 average: 76.5** + +--- + +## Scoring Summary + +| Group | Weight | Average | Weighted | +|-------|--------|---------|----------| +| G1: Smoke Tests | 15% | 89.3 | 13.4 | +| G2: Scan Variants | 15% | 84.3 | 12.6 | +| G3: Claims | 12.5% | 90.5 | 11.3 | +| G4: Verification | 12.5% | 91.8 | 11.5 | +| G5: Coverage & Docs | 20% | 92.7 | 18.5 | +| G6: Corpus & Trust Packs | 8.3% | 90.7 | 7.5 | +| G7: Learning & Extractors | 8.3% | 88.5 | 7.3 | +| G8: Advanced Features | 8.3% | 76.5 | 6.3 | +| **Total** | **100%** | | **88.5** | + +**Weighted overall: 88.5 / 100 — PASS** + +--- + +## Top Issues Found + +### P1 — Critical (fix before next release) + +1. **Governance exits non-zero when disabled (8.3, 8.4):** `governance pending` returns exit code 1 when governance isn't enabled. CI/scripts checking exit codes will treat this as a failure. Should exit 0 with an informative message, or return empty JSON with `--format json`. + +2. **`--format json` ignored on error path (8.4):** When `governance pending --format json` fails, it prints plain text instead of JSON. Any format flag should produce structured error output: `{"error": "governance_not_enabled", "message": "..."}`. + +### P2 — Important (fix soon) + +3. **Claims commands require specific cwd (3.1):** `claims list` from project root shows "No claims found" even though `.aphoria/claims.toml` exists in `applications/aphoria/`. Should search upward or use `--project` flag. This confuses users who run from their repo root. + +4. **`--strict` has no visible effect (2.6):** `scan --strict` produces output identical to `scan`. Either the strict thresholds are too similar to defaults, or the flag isn't applied correctly. Users who opt into strict mode expect stricter behavior. + +5. **`--debug` is underwhelming (2.7):** Only adds "Authority: Tier X" per finding. No conflict resolution trace, scoring breakdown, or query plan. Rename to `--show-authority` or add actual debug output (concept matching attempts, score calculation, index lookups). + +6. **`claims explain --format json` inconsistent (3.4):** Returns flat array while `explain --format json` returns `{type: "onboarding", ...}`. Should wrap in `{type: "claims_explain", claims: [...]}` for consistency. + +### P3 — Polish (improve when convenient) + +7. **Scan takes ~11s on 573 files (1.2):** Extraction dominates at 11.2s. Discovery and conflict are fast (<20ms). This is acceptable but could be improved with better parallelism or caching. + +8. **Coverage density sorting among zeroes (5.4):** Most modules show 0.0% density, making sort-by-density less useful until more claims are authored. + +9. **Empty state messages vary in helpfulness (8.2, 8.7):** `lifecycle list` and `migrations status` just say "no X found" without guidance. Compare with `extractors candidates` which explains how to become eligible. + +--- + +## Recommendations + +1. **Standardize error handling:** All commands should exit 0 for "nothing to show" and reserve non-zero for actual errors. `--format json` must always produce JSON, even for errors. + +2. **Add `--project` flag:** Allow `aphoria claims list --project ./applications/aphoria` or auto-discover `.aphoria/` directories. + +3. **Improve debug output:** Add `--trace` for detailed resolution traces (concept matching, score calculation, tier comparison). Keep `--debug` for general verbosity. + +4. **Document `--strict` behavior:** If it works, show what threshold changed and what would pass under default but fails under strict. + +5. **Consistent JSON envelopes:** All `--format json` outputs should use `{type: "...", ...}` pattern. The `explain` and `docs generate` commands do this well; extend to `claims explain`. + +--- + +## Commands Skipped (46 tested / ~85 total) + +State-modifying commands intentionally excluded: `init`, `baseline`, `diff`, `bless`, `update`, `ack`, `claims create/update/supersede/deprecate`, `extractors review/promote/auto-promote/feedback/graduate/rollback`, `governance approve/reject/escalate/create`, `lifecycle deprecate/archive/reactivate`, `scope override/remove`, `patterns sync/pull-community`, `policy export/import/resign`, `corpus export-pack`, `trust-pack install`, `eval run/baseline/update-baseline`, `research run/gaps`. + +--- + +*Report generated by Aphoria CLI UAT, 2026-02-08* diff --git a/uat/production-readiness/README.md b/uat/production-readiness/README.md index ae19f2e..cf1d9cf 100644 --- a/uat/production-readiness/README.md +++ b/uat/production-readiness/README.md @@ -10,9 +10,9 @@ Systematic verification checklist for deploying StemeDB in production environmen | Signature Verification | ✅ Pass | 2026-02-05 | | End-to-End Pipeline | ✅ Pass | 2026-02-05 | | Load Testing | ✅ Tooling ready | Run `./scripts/run-load-test.sh` | -| API Security | ❌ Not done | - | -| Backup/Restore | ❌ Not done | - | -| Observability | ⚠️ Partial | - | +| API Security | ✅ Pass | 2026-02-08 | +| Backup/Restore | ✅ Pass | 2026-02-08 | +| Observability | ✅ Pass | 2026-02-08 | ## Verification Areas @@ -71,31 +71,67 @@ go run ./cmd/load-test --api-url http://localhost:18180 --scenario sustained --d - Ensure ~10-20GB disk space for 1-hour tests (~3.6M assertions) - Results saved to `uat/production-readiness/results/` -### 5. API Security (TODO) +### 5. API Security | Check | Implementation | Status | |-------|----------------|--------| -| Authentication | JWT or API keys | Not implemented | -| Rate limiting | Per-client limits | Not implemented | -| Input validation | Oversized payloads rejected | Partial | +| Authentication | `X-API-Key` header, BLAKE3-hashed storage | ✅ Implemented | +| RBAC | 3 roles: admin, write, read-only | ✅ Implemented | +| Per-key rate limiting | Token bucket per API key (separate from per-agent quota) | ✅ Implemented | +| Key management | 5 CRUD endpoints: create, list, revoke, rotate, update | ✅ Implemented | +| Bootstrap | `STEMEDB_ROOT_API_KEY` env var creates admin key on first start | ✅ Implemented | +| Input validation | Oversized payloads rejected | ✅ Partial | | TLS in transit | HTTPS termination | External (nginx/LB) | -### 6. Backup & Restore (TODO) +**Key files:** +- `crates/stemedb-api/src/middleware/api_key.rs` — X-API-Key middleware + RBAC + per-key rate limiting +- `crates/stemedb-storage/src/api_key_store/` — Storage trait + implementation +- `crates/stemedb-api/src/handlers/api_keys.rs` — Create, list, revoke, rotate, update endpoints +- `crates/stemedb-api/src/bootstrap.rs` — STEMEDB_ROOT_API_KEY bootstrap + +### 6. Backup & Restore | Check | Procedure | Status | |-------|-----------|--------| -| Point-in-time recovery | WAL replay | Not documented | -| WAL archival | S3/GCS upload | Not implemented | -| Restore test | Full recovery | Not tested | +| WAL backup | `./scripts/backup-stemedb.sh` — rsync WAL + DB, timestamped | ✅ Implemented | +| WAL-only backup | `./scripts/backup-stemedb.sh --wal-only` — faster, WAL only | ✅ Implemented | +| Restore | `./scripts/restore-stemedb.sh ` | ✅ Implemented | +| Safety checks | Server-not-running check, non-empty dir protection | ✅ Implemented | +| Force restore | `--force` renames existing dirs (never deletes) | ✅ Implemented | +| WAL verification | Magic bytes (`STEM`) checked on restore | ✅ Implemented | +| Metadata | `backup-metadata.json` with timestamp, file counts, sizes | ✅ Implemented | -### 7. Observability (Partial) +**Usage:** +```bash +# Create backup +./scripts/backup-stemedb.sh --output /mnt/backups + +# Restore from backup (stop server first) +./scripts/restore-stemedb.sh backups/stemedb-backup-20260208-120000/ --force +``` + +### 7. Observability | Check | Implementation | Status | |-------|----------------|--------| | Structured logs | `tracing` crate | ✅ Implemented | -| Metrics endpoint | `/metrics` Prometheus | Not implemented | -| Distributed tracing | OpenTelemetry | Not implemented | -| Alerting | WAL lag, errors | Not implemented | +| Metrics endpoint | `GET /metrics` Prometheus text format | ✅ Implemented | +| Application metrics | 6 metrics: assertions, queries, latency, quarantine, circuit breakers | ✅ Implemented | +| Sync/cluster metrics | 10 metrics: sync cycles, lag, convergence, node counts | ✅ Implemented | +| Grafana dashboard | `docs/grafana/stemedb-overview.json` (4 rows, 12 panels) | ✅ Implemented | +| Distributed tracing | OpenTelemetry | Planned (Phase 8B) | +| Alerting | WAL lag, errors | Planned (Phase 9E) | + +**Application Metrics:** + +| Metric | Type | Description | +|--------|------|-------------| +| `stemedb_assertions_total` | Gauge | Total assertions in database (updated on health check) | +| `stemedb_assertions_ingested_total` | Counter | Assertions ingested via API | +| `stemedb_queries_total` | Counter | Queries by endpoint (query, skeptic, layered, constraints) | +| `stemedb_query_latency_seconds` | Histogram | Query latency by endpoint | +| `stemedb_quarantine_pending` | Gauge | Pending quarantine events | +| `stemedb_circuit_breakers_open` | Gauge | Open circuit breakers | ## Running Full Verification