chiasmus 0.1.9 → 0.1.11

package/README.md

@@ -11,6 +11,7 @@ MCP server that gives LLMs access to formal verification via Z3 (SMT solver) and
 - **"Does our workflow have dead-end or unreachable states?"** → Prolog checks reachability from the initial state, identifies orphaned and terminal nodes
 - **"What's the dead code in this module?"** → tree-sitter parses source files, Prolog finds functions unreachable from any entry point
 - **"What breaks if I change this function?"** → call graph impact analysis shows all transitive callers
+- **"Do a full code review of these files"** → `chiasmus_review` returns a phased recipe of graph analyses + verification templates, and you execute it step-by-step
 
 ## Setup
 
@@ -142,6 +143,29 @@ chiasmus_craft name="api-rate-limit" domain="configuration" solver="z3"
 
 After creation, the template appears in `chiasmus_skills` searches and `chiasmus_formalize`.
 
+**`chiasmus_review`** — Returns a phased code-review recipe: which chiasmus tools and templates to run, in what order, and what to look for. No side effects — pure scaffolding. Execute phases sequentially using the named tools, then produce a final report per the `reporting` section.
+
+```
+chiasmus_review files=["src/handler.ts", "src/db.ts"] focus="all"
+→ {
+    phases: [
+      { phase: "1. Structural overview", actions: [{tool: "chiasmus_graph", args: {analysis: "summary"}, interpret: "..."}] },
+      { phase: "2. Architecture health", actions: [dead-code, cycles, layer-violation] },
+      { phase: "3. Security — data flow and taint", actions: [facts + chiasmus_formalize taint-propagation] },
+      { phase: "4. Resource safety", actions: [association-rule-check] },
+      { phase: "5. Authorization", actions: [policy-contradiction] },
+      { phase: "6. Correctness — invariants, boundaries, state machines", actions: [...] },
+      { phase: "7. Impact analysis on flagged functions", actions: [chiasmus_graph impact] },
+    ],
+    suggestedTemplates: [...],
+    reporting: { format: "Numbered issue list with severity", severityLevels: ["CRITICAL","HIGH","MEDIUM","LOW","INFO"] }
+  }
+```
+
+Focus modes subset the phases: `all` (default, 7 phases), `quick` (overview + architecture), `architecture` (structural defects + impact), `security` (taint + resource pairing + auth), `correctness` (invariants + boundaries + state machines).
+
+Each action carries an `interpret` field describing how to score the result. After all phases, emit a numbered issue list with severity labels and file:line references.
+
 **`chiasmus_learn`** — Extract a reusable template from a verified solution. Candidates get promoted after 3+ successful reuses.
 
 **`chiasmus_lint`** — Fast structural validation of specs without running the solver.
@@ -214,7 +238,7 @@ Add tree-sitter support for any language by publishing an npm package named `chi
 
 ```ts
 // chiasmus-adapter-rust/index.ts
-import type { LanguageAdapter } from "chiasmus/adapter";
+import type { LanguageAdapter } from "chiasmus/graph";
 
 const adapter: LanguageAdapter = {
   language: "rust",
@@ -272,6 +296,97 @@ export default {
 
 Built-in languages always take precedence over adapters with the same extensions.
 
+## Library Usage
+
+Chiasmus can be used as a library in any Node.js project:
+
+```bash
+npm install chiasmus
+```
+
+### Quick Start
+
+```ts
+import { SolverSession, lintSpec, SkillLibrary, FormalizationEngine } from "chiasmus";
+```
+
+Or import from specific subpaths:
+
+```ts
+import { createZ3Solver, createPrologSolver } from "chiasmus/solvers";
+import { extractGraph, runAnalysis } from "chiasmus/graph";
+import { lintSpec, FormalizationEngine } from "chiasmus/formalize";
+import { SkillLibrary, SkillLearner } from "chiasmus/skills";
+import { createLLMFromEnv } from "chiasmus/llm";
+```
+
+### Solvers
+
+```ts
+import { SolverSession } from "chiasmus/solvers";
+
+const session = await SolverSession.create("z3");
+try {
+  const result = await session.solve({
+    type: "z3",
+    smtlib: `(declare-const x Int) (assert (> x 5))`,
+  });
+  if (result.status === "sat") {
+    console.log("Satisfiable:", result.model);
+  }
+} finally {
+  session.dispose();
+}
+```
+
+### Graph Analysis
+
+```ts
+import { extractGraph, runAnalysis } from "chiasmus/graph";
+
+const result = await runAnalysis(
+  ["src/server.ts", "src/db.ts"],
+  { analysis: "dead-code" }
+);
+console.log(result.result);
+```
+
+### Lint & Validation
+
+```ts
+import { lintSpec } from "chiasmus/formalize";
+
+const { spec, fixes, errors } = lintSpec(rawSpec, "z3");
+if (errors.length > 0) {
+  console.error("Lint errors:", errors);
+}
+```
+
+### Skill Library
+
+```ts
+import { SkillLibrary } from "chiasmus/skills";
+import { join } from "node:path";
+import { homedir } from "node:os";
+
+const library = await SkillLibrary.create(join(homedir(), ".chiasmus"));
+const results = library.search("access control policy conflict");
+console.log(results);
+library.close();
+```
+
+### Exports
+
+| Subpath | Exports |
+|---------|---------|
+| `chiasmus` | All public APIs (barrel export) |
+| `chiasmus/solvers` | `SolverSession`, `createZ3Solver`, `createPrologSolver`, `correctionLoop`, solver types |
+| `chiasmus/graph` | `extractGraph`, `runAnalysis`, `runAnalysisFromGraph`, `parseMermaid`, `graphToProlog`, adapter registry, graph types |
+| `chiasmus/formalize` | `lintSpec`, `classifyFeedback`, `extractPrologQuery`, `FormalizationEngine`, result types |
+| `chiasmus/skills` | `SkillLibrary`, `SkillLearner`, `craftTemplate`, `validateTemplate`, skill types |
+| `chiasmus/llm` | `createLLMFromEnv`, `AnthropicAdapter`, `OpenAICompatibleAdapter`, LLM types |
+| `chiasmus/mcp` | `createChiasmusServer`, `getChiasmusHome` |
+
 ## Configuration
 
 | Variable | Default | Purpose |

package/dist/formalize/index.d.ts

@@ -0,0 +1,7 @@
+export { lintSpec } from "./validate.js";
+export type { LintResult } from "./validate.js";
+export { classifyFeedback } from "./feedback.js";
+export { extractPrologQuery } from "./prolog-input.js";
+export { FormalizationEngine } from "./engine.js";
+export type { FormalizeResult, SolveResult } from "./engine.js";
+//# sourceMappingURL=index.d.ts.map

package/dist/formalize/index.d.ts.map

@@ -0,0 +1 @@
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package/dist/formalize/index.js

@@ -0,0 +1,5 @@
+export { lintSpec } from "./validate.js";
+export { classifyFeedback } from "./feedback.js";
+export { extractPrologQuery } from "./prolog-input.js";
+export { FormalizationEngine } from "./engine.js";
+//# sourceMappingURL=index.js.map

package/dist/formalize/index.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/formalize/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAC;AAEzC,OAAO,EAAE,gBAAgB,EAAE,MAAM,eAAe,CAAC;AACjD,OAAO,EAAE,kBAAkB,EAAE,MAAM,mBAAmB,CAAC;AACvD,OAAO,EAAE,mBAAmB,EAAE,MAAM,aAAa,CAAC"}

package/dist/graph/analyses.d.ts

@@ -1,5 +1,5 @@
 import type { CodeGraph } from "./types.js";
-export type AnalysisType = "summary" | "callers" | "callees" | "reachability" | "dead-code" | "cycles" | "path" | "impact" | "facts";
+export type AnalysisType = "summary" | "callers" | "callees" | "reachability" | "dead-code" | "cycles" | "path" | "impact" | "facts" | "layer-violation";
 export interface AnalysisRequest {
     analysis: AnalysisType;
     target?: string;

package/dist/graph/analyses.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"analyses.d.ts","sourceRoot":"","sources":["../../src/graph/analyses.ts"],"names":[],"mappings":"AAKA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,YAAY,CAAC;AAI5C,MAAM,MAAM,YAAY,GACpB,SAAS,GAAG,SAAS,GAAG,SAAS,GAAG,cAAc,GAClD,WAAW,GAAG,QAAQ,GAAG,MAAM,GAAG,QAAQ,GAAG,OAAO,GACpD,iBAAiB,CAAC;AAEtB,MAAM,WAAW,eAAe;IAC9B,QAAQ,EAAE,YAAY,CAAC;IACvB,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,EAAE,CAAC,EAAE,MAAM,CAAC;IACZ,WAAW,CAAC,EAAE,MAAM,EAAE,CAAC;CACxB;AAED,MAAM,WAAW,cAAc;IAC7B,QAAQ,EAAE,YAAY,CAAC;IACvB,MAAM,EAAE,OAAO,CAAC;CACjB;AAED,qDAAqD;AACrD,wBAAsB,WAAW,CAC/B,SAAS,EAAE,MAAM,EAAE,EACnB,OAAO,EAAE,eAAe,GACvB,OAAO,CAAC,cAAc,CAAC,CAgDzB;AAED,yEAAyE;AACzE,wBAAsB,oBAAoB,CACxC,KAAK,EAAE,SAAS,EAChB,OAAO,EAAE,eAAe,GACvB,OAAO,CAAC,cAAc,CAAC,CA2BzB"}

package/dist/graph/analyses.js

@@ -1,14 +1,24 @@
-import { readFileSync } from "node:fs";
+import { readFileSync, statSync } from "node:fs";
 import { extractGraph } from "./extractor.js";
 import { graphToProlog, escapeAtom } from "./facts.js";
 import { createPrologSolver } from "../solvers/prolog-solver.js";
+const MAX_FILE_SIZE = 10 * 1024 * 1024; // 10MB
 /** Run a graph analysis on the given source files */
 export async function runAnalysis(filePaths, request) {
-    // Read files from disk
-    const files = filePaths.map((p) => ({
-        path: p,
-        content: readFileSync(p, "utf-8"),
-    }));
+    // Read files from disk with size check
+    const files = [];
+    for (const p of filePaths) {
+        try {
+            const stat = statSync(p);
+            if (stat.size > MAX_FILE_SIZE) {
+                continue; // skip oversized files
+            }
+            files.push({ path: p, content: readFileSync(p, "utf-8") });
+        }
+        catch {
+            continue; // skip unreadable files
+        }
+    }
     const graph = await extractGraph(files);
     const program = graphToProlog(graph, request.entryPoints);
     if (request.analysis === "facts") {
@@ -20,6 +30,12 @@ export async function runAnalysis(filePaths, request) {
             result: buildSummary(graph),
         };
     }
+    if (request.analysis === "layer-violation") {
+        return {
+            analysis: "layer-violation",
+            result: findLayerViolations(graph),
+        };
+    }
     const query = buildQuery(request);
     if (!query) {
         return { analysis: request.analysis, result: { error: "Missing required parameters" } };
@@ -42,6 +58,9 @@ export async function runAnalysisFromGraph(graph, request) {
     if (request.analysis === "summary") {
         return { analysis: "summary", result: buildSummary(graph) };
     }
+    if (request.analysis === "layer-violation") {
+        return { analysis: "layer-violation", result: findLayerViolations(graph) };
+    }
     const query = buildQuery(request);
     if (!query) {
         return { analysis: request.analysis, result: { error: "Missing required parameters" } };
@@ -55,6 +74,52 @@ export async function runAnalysisFromGraph(graph, request) {
         solver.dispose();
     }
 }
+const LAYER_ORDER = {
+    handlers: 0,
+    routes: 0,
+    controllers: 0,
+    services: 1,
+    repositories: 2,
+    db: 3,
+    models: 3,
+};
+function extractLayer(filePath) {
+    const normalized = filePath.replace(/\\/g, "/");
+    const segments = normalized.split("/");
+    for (const seg of segments) {
+        if (seg in LAYER_ORDER)
+            return seg;
+    }
+    return null;
+}
+function findLayerViolations(graph) {
+    const funcLayers = new Map();
+    for (const d of graph.defines) {
+        const layer = extractLayer(d.file);
+        if (layer)
+            funcLayers.set(d.name, layer);
+    }
+    const violations = [];
+    for (const c of graph.calls) {
+        const callerLayer = funcLayers.get(c.caller);
+        const calleeLayer = funcLayers.get(c.callee);
+        if (!callerLayer || !calleeLayer)
+            continue;
+        if (callerLayer === calleeLayer)
+            continue;
+        const callerOrder = LAYER_ORDER[callerLayer] ?? 0;
+        const calleeOrder = LAYER_ORDER[calleeLayer] ?? 0;
+        if (calleeOrder - callerOrder > 1) {
+            violations.push({
+                caller: c.caller,
+                callee: c.callee,
+                callerLayer,
+                calleeLayer,
+            });
+        }
+    }
+    return violations;
+}
 function buildSummary(graph) {
     const files = new Set(graph.defines.map((d) => d.file));
     const functions = graph.defines.filter((d) => d.kind === "function" || d.kind === "method").length;

package/dist/graph/analyses.js.map

@@ -1 +1 @@
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package/dist/graph/extractor.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"extractor.d.ts","sourceRoot":"","sources":["../../src/graph/extractor.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,SAAS,EAAkE,MAAM,YAAY,CAAC;AAE5G,8DAA8D;AAC9D,wBAAsB,YAAY,CAAC,KAAK,EAAE,KAAK,CAAC;IAAE,IAAI,EAAE,MAAM,CAAC;IAAC,OAAO,EAAE,MAAM,CAAA;CAAE,CAAC,GAAG,OAAO,CAAC,SAAS,CAAC,CA2CtG"}
+{"version":3,"file":"extractor.d.ts","sourceRoot":"","sources":["../../src/graph/extractor.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,SAAS,EAAkE,MAAM,YAAY,CAAC;AAE5G,8DAA8D;AAC9D,wBAAsB,YAAY,CAAC,KAAK,EAAE,KAAK,CAAC;IAAE,IAAI,EAAE,MAAM,CAAC;IAAC,OAAO,EAAE,MAAM,CAAA;CAAE,CAAC,GAAG,OAAO,CAAC,SAAS,CAAC,CAkBtG"}

package/dist/graph/extractor.js

@@ -2,57 +2,72 @@ import { parseSource, parseSourceAsync, getLanguageForFile } from "./parser.js";
 import { getAdapter } from "./adapter-registry.js";
 /** Extract a unified call graph from multiple source files */
 export async function extractGraph(files) {
+    const partials = await Promise.all(files.map((file) => extractFileGraph(file)));
     const defines = [];
     const calls = [];
     const imports = [];
     const exports = [];
     const contains = [];
-    for (const file of files) {
-        const callSet = new Set(); // deduplicate caller→callee per file
-        const lang = getLanguageForFile(file.path);
-        if (!lang)
-            continue;
-        // Try sync first (CJS grammars), fall back to async (ESM grammars)
-        const tree = parseSource(file.content, file.path)
-            ?? await parseSourceAsync(file.content, file.path);
-        if (!tree)
-            continue;
-        // Check for a registered adapter first
-        const adapter = getAdapter(lang);
-        if (adapter) {
-            const partial = adapter.extract(tree.rootNode, file.path);
-            for (const d of partial.defines)
-                defines.push(d);
-            for (const c of partial.calls) {
-                const key = `${c.caller}->${c.callee}`;
-                if (!callSet.has(key)) {
-                    callSet.add(key);
-                    calls.push(c);
-                }
+    for (const p of partials) {
+        defines.push(...p.defines);
+        calls.push(...p.calls);
+        imports.push(...p.imports);
+        exports.push(...p.exports);
+        contains.push(...p.contains);
+    }
+    return { defines, calls, imports, exports, contains };
+}
+async function extractFileGraph(file) {
+    const defines = [];
+    const calls = [];
+    const imports = [];
+    const exports = [];
+    const contains = [];
+    const callSet = new Set();
+    const lang = getLanguageForFile(file.path);
+    if (!lang)
+        return { defines, calls, imports, exports, contains };
+    const tree = parseSource(file.content, file.path)
+        ?? await parseSourceAsync(file.content, file.path);
+    if (!tree)
+        return { defines, calls, imports, exports, contains };
+    extractFromTree(tree, file.path, lang, defines, calls, imports, exports, contains, callSet);
+    return { defines, calls, imports, exports, contains };
+}
+function extractFromTree(tree, filePath, lang, defines, calls, imports, exports, contains, callSet) {
+    const adapter = getAdapter(lang);
+    if (adapter) {
+        const partial = adapter.extract(tree.rootNode, filePath);
+        for (const d of partial.defines)
+            defines.push(d);
+        for (const c of partial.calls) {
+            const key = `${c.caller}->${c.callee}`;
+            if (!callSet.has(key)) {
+                callSet.add(key);
+                calls.push(c);
             }
-            for (const i of partial.imports)
-                imports.push(i);
-            for (const e of partial.exports)
-                exports.push(e);
-            for (const c of partial.contains ?? [])
-                contains.push(c);
-        }
-        else if (lang === "clojure") {
-            walkClojure(tree.rootNode, file.path, defines, calls, imports, exports, callSet);
-        }
-        else if (lang === "python") {
-            const scopeStack = [];
-            walkPython(tree.rootNode, file.path, scopeStack, defines, calls, imports, exports, contains, callSet);
-        }
-        else if (lang === "go") {
-            walkGo(tree.rootNode, file.path, defines, calls, imports, exports, contains, callSet);
-        }
-        else {
-            const scopeStack = [];
-            walkNode(tree.rootNode, file.path, lang, scopeStack, defines, calls, imports, exports, contains, callSet);
         }
+        for (const i of partial.imports)
+            imports.push(i);
+        for (const e of partial.exports)
+            exports.push(e);
+        for (const c of partial.contains ?? [])
+            contains.push(c);
+    }
+    else if (lang === "clojure") {
+        walkClojure(tree.rootNode, filePath, defines, calls, imports, exports, callSet);
+    }
+    else if (lang === "python") {
+        const scopeStack = [];
+        walkPython(tree.rootNode, filePath, scopeStack, defines, calls, imports, exports, contains, callSet);
+    }
+    else if (lang === "go") {
+        walkGo(tree.rootNode, filePath, defines, calls, imports, exports, contains, callSet);
+    }
+    else {
+        const scopeStack = [];
+        walkNode(tree.rootNode, filePath, lang, scopeStack, defines, calls, imports, exports, contains, callSet);
     }
-    return { defines, calls, imports, exports, contains };
 }
 function walkNode(node, filePath, language, scopeStack, defines, calls, imports, exports, contains, callSet) {
     const type = node.type;

package/dist/graph/extractor.js.map

@@ -1 +1 @@
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package/dist/graph/facts.d.ts

@@ -1,6 +1,8 @@
 import type { CodeGraph } from "./types.js";
 /** Escape a string for use as a Prolog atom (single-quoted if needed) */
 export declare function escapeAtom(s: string): string;
+/** Shared list membership predicate (used by multiple rule sets) */
+export declare const MEMBER_RULES: string;
 /** Built-in Prolog rules for graph analysis (cycle-safe) */
 export declare const BUILTIN_RULES: string;
 /** Convert a CodeGraph to a Prolog program string */

package/dist/graph/facts.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"facts.d.ts","sourceRoot":"","sources":["../../src/graph/facts.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,YAAY,CAAC;AAE5C,yEAAyE;AACzE,wBAAgB,UAAU,CAAC,CAAC,EAAE,MAAM,GAAG,MAAM,CAO5C;AAED,4DAA4D;AAC5D,eAAO,MAAM,aAAa,QAqBlB,CAAC;AAET,qDAAqD;AACrD,wBAAgB,aAAa,CAAC,KAAK,EAAE,SAAS,EAAE,WAAW,CAAC,EAAE,MAAM,EAAE,GAAG,MAAM,CA4D9E"}
+{"version":3,"file":"facts.d.ts","sourceRoot":"","sources":["../../src/graph/facts.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,YAAY,CAAC;AAE5C,yEAAyE;AACzE,wBAAgB,UAAU,CAAC,CAAC,EAAE,MAAM,GAAG,MAAM,CAO5C;AAED,oEAAoE;AACpE,eAAO,MAAM,YAAY,QAEgB,CAAC;AAE1C,4DAA4D;AAC5D,eAAO,MAAM,aAAa,QAmBlB,CAAC;AAET,qDAAqD;AACrD,wBAAgB,aAAa,CAAC,KAAK,EAAE,SAAS,EAAE,WAAW,CAAC,EAAE,MAAM,EAAE,GAAG,MAAM,CA4D9E"}

package/dist/graph/facts.js

@@ -7,11 +7,13 @@ export function escapeAtom(s) {
     // Quote and escape internal single quotes
     return `'${s.replace(/'/g, "''")}'`;
 }
+/** Shared list membership predicate (used by multiple rule sets) */
+export const MEMBER_RULES = `
+member(X, [X|_]).
+member(X, [_|T]) :- member(X, T).`.trim();
 /** Built-in Prolog rules for graph analysis (cycle-safe) */
 export const BUILTIN_RULES = `
-% List membership (not built-in in Tau Prolog without lists module)
-member(X, [X|_]).
-member(X, [_|T]) :- member(X, T).
+${MEMBER_RULES}
 
 % Cycle-safe reachability via visited list
 reaches(A, B) :- reaches(A, B, [A]).

package/dist/graph/facts.js.map

@@ -1 +1 @@
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