circle-ir-ai 2.82.1 → 2.84.0

package/CHANGELOG.md

@@ -5,6 +5,65 @@ All notable changes to this project will be documented in this file.
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
+## [2.84.0] - 2026-08-03
+
+### Added — negative caching for empty LLM verdicts (#180)
+
+The discovery / verify / language-discoverer caches now persist *empty*
+verdicts, not just positive ones. An empty result (no vuln / no sources / no
+sinks / no kept pairs) is a valid, stable answer; re-firing the prompt every
+scan re-paid the token cost. Empty entries carry a `negative` bit and expire
+under a shorter TTL (`LLM_NEGATIVE_CACHE_TTL_MS`, default 24h) since an engine /
+rule update is likelier to change a previously-empty answer than to move a
+positive finding. `stats()` splits `positiveHits` / `negativeHits`. Call sites:
+`ax-client` (sources/sinks lang), `discovery` (`!vulnerabilityFound`),
+`verification` (`pairs.length === 0`). 4 tests.
+
+### Added — cache-event telemetry (#182, OQ8 + OQ9 from #158)
+
+When `LLM_CACHE_LOG_PATH` is set, `ClassificationCache.get/set` emit one
+`cacheEvent` JSONL row per op (namespace, backend, action, hit `ageMs`,
+coordinate, `coordinateFallthrough`, `digestPrefix`, `negative`). New
+`cache-event-logger.ts` (self-contained `fs.appendFileSync`, zero overhead when
+unset) + `coordinateFallthrough()` in `coordinate.ts`. Aggregator lands in
+`cognium-ai/scripts/analyze-cache-log.ts` (per-namespace hit rate, p50/p95 hit
+age, OQ9 fallthrough rate, projected $-saved). 3 tests.
+
+### Changed — bump circle-ir 3.200.0 → 3.203.0
+
+Single copy verified; full suite 1674 pass, build clean.
+
+## [2.83.0] - 2026-08-03
+
+### Added — skills-registry code-threat detectors + instruction-safety in the CLI path (cognium-ai#259)
+
+Six skill-bundle malware screens the skillsregistry sprint requires, all on the
+in-boundary circle-ir-ai skills layer:
+
+- **`detectCodeThreatPatterns`** (new `skills/code-threat-patterns.ts`) — five
+  deterministic (no-LLM) content passes over a bundle's code files, each keyed
+  on a *combination* of signals so the corpus `safe-…` twins stay clean:
+  - `codebase_exfiltration` (CWE-200, SR#12) — archive-of-workspace → network egress
+  - `ip_literal_exfiltration` (CWE-200, SR#13) — egress to a raw IPv4 / DWORD-encoded host
+  - `resource_abuse` (CWE-400, SR#29) — stratum pool / miner binary / fork bomb
+  - `ransomware` (CWE-506, SR#33) — bulk encryption + ransom/BTC signal
+  - `privilege_escalation` (CWE-250, SR#34) — setuid / chmod 4755 / NOPASSWD sudoers
+- **Instruction-safety in `analyzeSkillBundle`** (SR#2) — the CLI/engine path now
+  runs `classifyInstructionSafety` on SKILL.md, Phase-2 parity with circle-pack's
+  skill-runner. Gated by the new `enableInstructionSafety` option (default on),
+  returns zero findings when no LLM is configured.
+- New `SkillAnalysisOptions.enableCodeThreatPatterns` / `enableInstructionSafety`;
+  new `SkillFindingType` members for the five threats; recommendations wired.
+
+### Fixed — bundle-loader dropped shell scripts
+
+`loadCodeFiles` / `CODE_EXTENSIONS` only recognised `.ts/.js/.py/.java/.rs/.go`, so
+`.sh`/`.bash` files — the exact shape most of the above threats take — never
+reached any detector. Shell scripts are now loaded (`language: 'bash'`).
+
+16 unit tests (TP fires + `safe-…` twin stays clean per detector, plus a loader
+regression lock). Full suite 1667 pass.
+
 ## [2.82.1] - 2026-08-02
 
 ### Fixed — parse-isolation worker failed to launch from source outside the package dir (#252 follow-up)

package/dist/cache/cache-event-logger.d.ts

@@ -0,0 +1,48 @@
+/**
+ * Cache-event JSONL logger (cognium-ai#182, OQ8 + OQ9 from #158).
+ *
+ * When `LLM_CACHE_LOG_PATH` is set, `ClassificationCache.get/set` emit one
+ * `cacheEvent` row per operation so a sweep can answer:
+ *   - OQ8 — hit/miss rate per namespace × backend, hit-age distribution,
+ *     projected $-saved (miss token cost × hit count).
+ *   - OQ9 — how often coordinate detection falls through to `_unowned`/`_local`.
+ *
+ * Deliberately self-contained (no LLM import beyond types already in cache/):
+ * a plain `fs.appendFileSync` gated on the env var, mirroring
+ * `src/llm/call-logger.ts`. Disabled — zero overhead — when the env is unset.
+ */
+export type CacheEventAction = 'hit' | 'miss' | 'set' | 'delete';
+export interface CacheEvent {
+    kind: 'cacheEvent';
+    ts: string;
+    namespace: string;
+    backend: string;
+    action: CacheEventAction;
+    /** For hits: how old the served entry was, in ms. Null otherwise. */
+    ageMs: number | null;
+    /** Tree-namespace package coordinate, when present. */
+    coordinate: {
+        ecosystem: string;
+        name?: string;
+        version?: string;
+    } | null;
+    /** Coordinate-detection fallthrough (OQ9): `_unowned` / `_local` / null. */
+    coordinateFallthrough: '_unowned' | '_local' | null;
+    /** First 8 hex chars of the content digest, for correlation. */
+    digestPrefix: string;
+    /** #180 cross-ref — whether this entry is a negative (empty) verdict. */
+    negative?: boolean;
+}
+declare class CacheEventLogger {
+    private path;
+    private inited;
+    /** Test-only: clear cached state so init() re-reads the env var. */
+    resetForTesting(): void;
+    private init;
+    /** True when logging is active (env set + file writable). */
+    enabled(): boolean;
+    log(event: Omit<CacheEvent, 'kind' | 'ts'>): void;
+}
+export declare const cacheEventLogger: CacheEventLogger;
+export {};
+//# sourceMappingURL=cache-event-logger.d.ts.map

package/dist/cache/cache-event-logger.d.ts.map

@@ -0,0 +1 @@
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package/dist/cache/cache-event-logger.js

@@ -0,0 +1,52 @@
+/**
+ * Cache-event JSONL logger (cognium-ai#182, OQ8 + OQ9 from #158).
+ *
+ * When `LLM_CACHE_LOG_PATH` is set, `ClassificationCache.get/set` emit one
+ * `cacheEvent` row per operation so a sweep can answer:
+ *   - OQ8 — hit/miss rate per namespace × backend, hit-age distribution,
+ *     projected $-saved (miss token cost × hit count).
+ *   - OQ9 — how often coordinate detection falls through to `_unowned`/`_local`.
+ *
+ * Deliberately self-contained (no LLM import beyond types already in cache/):
+ * a plain `fs.appendFileSync` gated on the env var, mirroring
+ * `src/llm/call-logger.ts`. Disabled — zero overhead — when the env is unset.
+ */
+import * as fs from 'fs';
+const ENV_VAR = 'LLM_CACHE_LOG_PATH';
+class CacheEventLogger {
+    path = null;
+    inited = false;
+    /** Test-only: clear cached state so init() re-reads the env var. */
+    resetForTesting() {
+        this.path = null;
+        this.inited = false;
+    }
+    init() {
+        if (this.inited)
+            return;
+        this.inited = true;
+        const p = process.env[ENV_VAR];
+        if (!p)
+            return;
+        this.path = p;
+    }
+    /** True when logging is active (env set + file writable). */
+    enabled() {
+        this.init();
+        return this.path !== null;
+    }
+    log(event) {
+        this.init();
+        if (!this.path)
+            return;
+        const line = JSON.stringify({ kind: 'cacheEvent', ts: new Date().toISOString(), ...event }) + '\n';
+        try {
+            fs.appendFileSync(this.path, line);
+        }
+        catch {
+            // best-effort; never let telemetry fail a scan
+        }
+    }
+}
+export const cacheEventLogger = new CacheEventLogger();
+//# sourceMappingURL=cache-event-logger.js.map

package/dist/cache/cache-event-logger.js.map

@@ -0,0 +1 @@
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package/dist/cache/classification-cache.d.ts

@@ -84,6 +84,15 @@ export interface ClassificationCacheOptions {
     cacheDir?: string;
     /** Maximum age of entries in ms (default: 24h) */
     maxAge?: number;
+    /**
+     * Maximum age of *negative* (empty-verdict) entries in ms
+     * (cognium-ai#180). Negative entries expire faster than positive ones
+     * because a newer engine / updated CWE rules can change what the LLM
+     * sees as a source/sink even for a previously-empty prompt, whereas a
+     * positive finding's location does not move. Default 24h, overridable
+     * via `LLM_NEGATIVE_CACHE_TTL_MS`.
+     */
+    negativeMaxAge?: number;
     /** Enable/disable cache (default: true) */
     enabled?: boolean;
     /**
@@ -106,17 +115,26 @@ export interface ClassificationCacheOptions {
  */
 export interface CacheCallOptions {
     coordinate?: PackageCoordinate;
+    /**
+     * cognium-ai#180 — mark this `set()` as a negative (empty-verdict) entry.
+     * Callers pass `true` when persisting an empty LLM result so a repeat
+     * scan reads the cached empty answer instead of re-prompting.
+     */
+    negative?: boolean;
 }
 export declare class ClassificationCache<T = unknown> {
     private namespace;
     private cacheDir;
     private maxAge;
+    private negativeMaxAge;
     private enabled;
     private modelFingerprint;
     private backend;
     private memoryCache;
     private hits;
     private misses;
+    private positiveHits;
+    private negativeHits;
     constructor(options?: ClassificationCacheOptions);
     /** Per-phase model identity used in cache key (cognium-ai#151). */
     getModelFingerprint(): string;
@@ -127,6 +145,13 @@ export declare class ClassificationCache<T = unknown> {
     private computeDigest;
     private toCacheKey;
     private isValid;
+    /** Count a hit, split positive vs negative for #180 telemetry. */
+    private recordHit;
+    /**
+     * Emit a `cacheEvent` row (#182) when `LLM_CACHE_LOG_PATH` is set. Guarded
+     * on `enabled()` so the default path allocates nothing.
+     */
+    private emitEvent;
     get(content: string, classifier: string, opts?: CacheCallOptions): Promise<T | null>;
     set(content: string, classifier: string, result: T, opts?: CacheCallOptions): Promise<void>;
     has(content: string, classifier: string, opts?: CacheCallOptions): Promise<boolean>;
@@ -137,6 +162,9 @@ export declare class ClassificationCache<T = unknown> {
         diskEntries: number;
         hitRate: number;
         backend: string;
+        /** #180 — hit split so the negative-cache saving is visible. */
+        positiveHits: number;
+        negativeHits: number;
     }>;
 }
 export declare function getClassificationCache<T = unknown>(options?: ClassificationCacheOptions): ClassificationCache<T>;

package/dist/cache/classification-cache.d.ts.map

@@ -1 +1 @@
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package/dist/cache/classification-cache.js

@@ -50,7 +50,8 @@
 import * as path from 'path';
 import * as crypto from 'crypto';
 import { makeBackend } from './backends/index.js';
-import { coordinateSegments } from './coordinate.js';
+import { coordinateSegments, coordinateFallthrough } from './coordinate.js';
+import { cacheEventLogger } from './cache-event-logger.js';
 /**
  * Wire-format version. Bump on every breaking change to the key composition
  * OR the on-disk envelope shape. Operators rolling back to an older
@@ -73,20 +74,40 @@ export function sanitizeModelSlug(modelFingerprint) {
     return modelFingerprint.replace(/=/g, '-');
 }
 const DEFAULT_MAX_AGE = 24 * 60 * 60 * 1000; // 24 hours
+const DEFAULT_NEGATIVE_MAX_AGE = 24 * 60 * 60 * 1000; // 24 hours (#180)
+/**
+ * Non-negative integer from env, or undefined when unset/invalid. `0` is
+ * accepted for the negative TTL — it means "expire immediately" (a kill-switch
+ * for negative caching).
+ */
+function envNonNegativeInt(name) {
+    const raw = process.env[name];
+    if (raw === undefined || raw === '')
+        return undefined;
+    const n = Number.parseInt(raw, 10);
+    return Number.isFinite(n) && n >= 0 ? n : undefined;
+}
 export class ClassificationCache {
     namespace;
     cacheDir;
     maxAge;
+    negativeMaxAge;
     enabled;
     modelFingerprint;
     backend;
     memoryCache = new Map();
     hits = 0;
     misses = 0;
+    positiveHits = 0;
+    negativeHits = 0;
     constructor(options = {}) {
         this.namespace = options.namespace ?? 'classifier';
         this.cacheDir = options.cacheDir || path.join(process.cwd(), '.cognium', 'cache');
         this.maxAge = options.maxAge ?? DEFAULT_MAX_AGE;
+        this.negativeMaxAge =
+            options.negativeMaxAge ??
+                envNonNegativeInt('LLM_NEGATIVE_CACHE_TTL_MS') ??
+                DEFAULT_NEGATIVE_MAX_AGE;
         this.enabled = options.enabled ?? true;
         this.modelFingerprint = options.modelFingerprint ?? '';
         this.backend = options.backend ?? makeBackend(this.cacheDir, this.namespace);
@@ -136,7 +157,37 @@ export class ClassificationCache {
     isValid(entry) {
         if (entry.schemaVer !== SCHEMA_VER)
             return false;
-        return (Date.now() - entry.timestamp) <= this.maxAge;
+        // #180 — negative entries expire under the shorter negative TTL.
+        const ttl = entry.negative ? this.negativeMaxAge : this.maxAge;
+        return (Date.now() - entry.timestamp) <= ttl;
+    }
+    /** Count a hit, split positive vs negative for #180 telemetry. */
+    recordHit(entry) {
+        this.hits++;
+        if (entry.negative)
+            this.negativeHits++;
+        else
+            this.positiveHits++;
+    }
+    /**
+     * Emit a `cacheEvent` row (#182) when `LLM_CACHE_LOG_PATH` is set. Guarded
+     * on `enabled()` so the default path allocates nothing.
+     */
+    emitEvent(action, digest, ageMs, coordinate, negative) {
+        if (!cacheEventLogger.enabled())
+            return;
+        cacheEventLogger.log({
+            namespace: this.namespace,
+            backend: this.backend.kind,
+            action,
+            ageMs,
+            coordinate: coordinate
+                ? { ecosystem: coordinate.ecosystem, name: coordinate.name, version: coordinate.version }
+                : null,
+            coordinateFallthrough: coordinateFallthrough(coordinate),
+            digestPrefix: digest.slice(0, 8),
+            ...(negative ? { negative: true } : {}),
+        });
     }
     async get(content, classifier, opts) {
         if (!this.enabled)
@@ -146,7 +197,8 @@ export class ClassificationCache {
         // Memory cache (process-local hot path)
         const memEntry = this.memoryCache.get(digest);
         if (memEntry && this.isValid(memEntry)) {
-            this.hits++;
+            this.recordHit(memEntry);
+            this.emitEvent('hit', digest, Date.now() - memEntry.timestamp, opts?.coordinate, memEntry.negative);
             return memEntry.result;
         }
         // Backend (disk / R2 / etc.)
@@ -156,7 +208,8 @@ export class ClassificationCache {
                 const entry = JSON.parse(raw);
                 if (this.isValid(entry)) {
                     this.memoryCache.set(digest, entry);
-                    this.hits++;
+                    this.recordHit(entry);
+                    this.emitEvent('hit', digest, Date.now() - entry.timestamp, opts?.coordinate, entry.negative);
                     return entry.result;
                 }
                 // Stale OR schemaVer-mismatch — drop. We don't await the deletion
@@ -170,6 +223,7 @@ export class ClassificationCache {
             // Decode / I/O error: treat as miss.
         }
         this.misses++;
+        this.emitEvent('miss', digest, null, opts?.coordinate, undefined);
         return null;
     }
     async set(content, classifier, result, opts) {
@@ -183,7 +237,13 @@ export class ClassificationCache {
             timestamp: Date.now(),
             result,
         };
+        // #180 — record empty-verdict entries so the shorter negative TTL applies
+        // and stats() can attribute the saving. Only tag when explicitly negative
+        // (undefined stays off the wire for positive entries).
+        if (opts?.negative)
+            entry.negative = true;
         this.memoryCache.set(digest, entry);
+        this.emitEvent('set', digest, null, opts?.coordinate, entry.negative);
         try {
             await this.backend.set(cacheKey, JSON.stringify(entry));
         }
@@ -198,6 +258,8 @@ export class ClassificationCache {
         this.memoryCache.clear();
         this.hits = 0;
         this.misses = 0;
+        this.positiveHits = 0;
+        this.negativeHits = 0;
         if (this.backend.clear) {
             try {
                 await this.backend.clear();
@@ -220,6 +282,8 @@ export class ClassificationCache {
             diskEntries,
             hitRate: total > 0 ? this.hits / total : 0,
             backend: this.backend.kind,
+            positiveHits: this.positiveHits,
+            negativeHits: this.negativeHits,
         };
     }
 }

package/dist/cache/classification-cache.js.map

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package/dist/cache/coordinate.d.ts

@@ -49,6 +49,14 @@ export declare function coordinateSegments(c: PackageCoordinate): {
     pathSegment: string;
     hashPrefix: string;
 };
+/**
+ * Coordinate-detection fallthrough signal (cognium-ai#182 / OQ9). Returns the
+ * "no real coordinate" bucket a coordinate landed in — `_unowned` (no manifest
+ * matched) or `_local` (repo-root/private manifest) — or `null` when a real
+ * ecosystem coordinate resolved. Used to measure how often `detectCoordinate`
+ * fails to attribute a package.
+ */
+export declare function coordinateFallthrough(c: PackageCoordinate | undefined): '_unowned' | '_local' | null;
 /**
  * Detect a package coordinate from the repo root manifest files.
  *

package/dist/cache/coordinate.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"coordinate.d.ts","sourceRoot":"","sources":["../../src/cache/coordinate.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;;;;;;;GAuBG;AAKH,MAAM,MAAM,SAAS,GAAG,KAAK,GAAG,OAAO,GAAG,MAAM,GAAG,OAAO,GAAG,IAAI,GAAG,QAAQ,GAAG,UAAU,CAAC;AAE1F,MAAM,WAAW,iBAAiB;IAChC,SAAS,EAAE,SAAS,CAAC;IACrB,+EAA+E;IAC/E,IAAI,EAAE,MAAM,CAAC;IACb,yDAAyD;IACzD,OAAO,EAAE,MAAM,CAAC;CACjB;AAED;;;;;;GAMG;AACH,eAAO,MAAM,OAAO,EAAE,iBAIpB,CAAC;AAEH;;;;;;GAMG;AACH,wBAAgB,kBAAkB,CAAC,CAAC,EAAE,iBAAiB,GAAG;IAAE,WAAW,EAAE,MAAM,CAAC;IAAC,UAAU,EAAE,MAAM,CAAA;CAAE,CASpG;AAED;;;;;GAKG;AACH,wBAAgB,gBAAgB,CAAC,QAAQ,EAAE,MAAM,GAAG,iBAAiB,CAwFpE"}
+{"version":3,"file":"coordinate.d.ts","sourceRoot":"","sources":["../../src/cache/coordinate.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;;;;;;;GAuBG;AAKH,MAAM,MAAM,SAAS,GAAG,KAAK,GAAG,OAAO,GAAG,MAAM,GAAG,OAAO,GAAG,IAAI,GAAG,QAAQ,GAAG,UAAU,CAAC;AAE1F,MAAM,WAAW,iBAAiB;IAChC,SAAS,EAAE,SAAS,CAAC;IACrB,+EAA+E;IAC/E,IAAI,EAAE,MAAM,CAAC;IACb,yDAAyD;IACzD,OAAO,EAAE,MAAM,CAAC;CACjB;AAED;;;;;;GAMG;AACH,eAAO,MAAM,OAAO,EAAE,iBAIpB,CAAC;AAEH;;;;;;GAMG;AACH,wBAAgB,kBAAkB,CAAC,CAAC,EAAE,iBAAiB,GAAG;IAAE,WAAW,EAAE,MAAM,CAAC;IAAC,UAAU,EAAE,MAAM,CAAA;CAAE,CASpG;AAED;;;;;;GAMG;AACH,wBAAgB,qBAAqB,CACnC,CAAC,EAAE,iBAAiB,GAAG,SAAS,GAC/B,UAAU,GAAG,QAAQ,GAAG,IAAI,CAK9B;AAED;;;;;GAKG;AACH,wBAAgB,gBAAgB,CAAC,QAAQ,EAAE,MAAM,GAAG,iBAAiB,CAwFpE"}

package/dist/cache/coordinate.js

@@ -53,6 +53,22 @@ export function coordinateSegments(c) {
         hashPrefix: `${c.ecosystem}\0${slug}`,
     };
 }
+/**
+ * Coordinate-detection fallthrough signal (cognium-ai#182 / OQ9). Returns the
+ * "no real coordinate" bucket a coordinate landed in — `_unowned` (no manifest
+ * matched) or `_local` (repo-root/private manifest) — or `null` when a real
+ * ecosystem coordinate resolved. Used to measure how often `detectCoordinate`
+ * fails to attribute a package.
+ */
+export function coordinateFallthrough(c) {
+    if (!c)
+        return null;
+    if (c.ecosystem === '_unowned')
+        return '_unowned';
+    if (c.ecosystem === '_local')
+        return '_local';
+    return null;
+}
 /**
  * Detect a package coordinate from the repo root manifest files.
  *

package/dist/cache/coordinate.js.map

@@ -1 +1 @@
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package/dist/index.d.ts

@@ -37,6 +37,7 @@ export { loadSkillBundle, validateSkillBundle, createSkillBundleFromFiles } from
 export { analyzeSkillBundle } from './skills/skill-analyzer.js';
 export { detectCapabilityMismatches } from './skills/capability-mismatch.js';
 export { classifyInstructionSafety } from './skills/instruction-safety.js';
+export { detectCodeThreatPatterns } from './skills/code-threat-patterns.js';
 export { analyzeMCPPermissions, parseMCPConfig } from './skills/mcp-permissions.js';
 export { analyzeProject, analyzeProjectTwoPhase, buildTypeHierarchy, buildCrossFileCalls, findTaintPaths, type ProjectOptions, type FileInput, type TwoPhaseOptions, type ProjectAnalysis, type EnrichedFileAnalysis, type ProjectContext, type CrossFileTaintFlow, type TwoPhaseProjectAnalysis, } from './project/index.js';
 export { NaturalLanguageExtractor } from './extractors/natural-language.js';

package/dist/index.d.ts.map

@@ -1 +1 @@
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package/dist/index.js

@@ -64,6 +64,7 @@ export { loadSkillBundle, validateSkillBundle, createSkillBundleFromFiles } from
 export { analyzeSkillBundle } from './skills/skill-analyzer.js';
 export { detectCapabilityMismatches } from './skills/capability-mismatch.js';
 export { classifyInstructionSafety } from './skills/instruction-safety.js';
+export { detectCodeThreatPatterns } from './skills/code-threat-patterns.js';
 export { analyzeMCPPermissions, parseMCPConfig } from './skills/mcp-permissions.js';
 // Project-level analysis
 export { analyzeProject, analyzeProjectTwoPhase, buildTypeHierarchy, buildCrossFileCalls, findTaintPaths, } from './project/index.js';

package/dist/index.js.map

@@ -1 +1 @@
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