codesift-mcp 0.5.8 → 0.5.10

package/README.md

@@ -105,6 +105,9 @@ codesift retrieve local/my-project \
 | **PreToolUse hooks** | Redirect large-file Read to CodeSift outline/search | Prevents 5K+ token file dumps |
 | **PostToolUse hooks** | Auto-reindex after Edit/Write | Always-fresh index |
 | **Sequential hints** | Prepended hints (H1-H9) suggest batching after 3+ consecutive calls | Guides agents toward efficient usage |
+| **Wiki generation** | `generate_wiki` produces markdown wiki from code topology | Architecture docs from Louvain communities + hubs + surprises |
+| **Lens HTML** | Self-contained HTML dashboard with D3 chord diagram | Visual architecture overview in one file |
+| **Wiki hook inject** | PreToolUse injects community context on file Read | Agent gets architectural context automatically |
 
 ## CLI commands
 
@@ -163,6 +166,17 @@ codesift retrieve local/my-project \
 | `codesift hotspots <repo>` | Git churn x complexity = risk-ranked file list |
 | `codesift patterns <repo> <pattern>` | Structural anti-pattern search (33 built-in + custom regex) |
 
+### Wiki & Lens
+
+| Command | Description |
+|---------|-------------|
+| `codesift wiki-generate` | Generate wiki pages + Lens HTML from code topology (communities, hubs, surprises, hotspots) |
+| `codesift wiki-generate --focus src/tools` | Scope wiki to a specific directory |
+| `codesift wiki-generate --no-lens` | Skip Lens HTML generation |
+| `codesift wiki-lint <wiki-dir>` | Check wiki for broken links, orphan pages, stale content |
+
+Output goes to `.codesift/wiki/` in the repo root. Includes markdown pages with `[[wikilinks]]`, backlinks, community summaries, and a self-contained `codesift-lens.html` with D3 chord diagram and force-directed graph.
+
 ### Cross-repo
 
 | Command | Description |
@@ -208,7 +222,7 @@ When running as an MCP server, CodeSift exposes 51 core tools directly. The rema
 | **Analysis** | `find_dead_code` (framework-aware incl. React/Next.js route entry points), `analyze_complexity` (React: hook_count, state_count, effect_count, jsx_depth), `find_clones`, `analyze_hotspots`, `search_patterns` (33 built-in: JS/TS ×9, React ×20, Kotlin ×6, PHP ×4), `list_patterns`, `frequency_analysis` (AST subtree clustering), `find_perf_hotspots` (6 perf anti-patterns: unbounded queries, sync I/O, N+1 loops, unbounded parallel, missing pagination, expensive recompute), `explain_query` (Prisma→SQL with EXPLAIN ANALYZE), `audit_scan` (5-gate composite: dead code + clones + patterns + complexity + hotspots) |
 | **Architecture** | `classify_roles` (symbol role classification via call graph), `check_boundaries` (architecture boundary enforcement), `ast_query` (structural grep via tree-sitter), `fan_in_fan_out` (import graph coupling: most-imported, most-dependent, hub files, coupling score 0-100), `co_change_analysis` (temporal coupling from git history: Jaccard similarity, cluster detection), `architecture_summary` (one-call composite: stack + communities + coupling + circular deps + LOC + entry points, Mermaid output) |
 | **Cross-repo** | `cross_repo_search`, `cross_repo_refs` |
-| **Report** | `generate_report` (standalone HTML with complexity, dead code, hotspots, communities) |
+| **Report** | `generate_report` (standalone HTML with complexity, dead code, hotspots, communities), `generate_wiki` (markdown wiki pages + Lens HTML from code topology — communities, hubs, surprises, hotspots, framework pages) |
 | **Tool discovery** | `discover_tools` (keyword search across hidden tools), `describe_tools` (full schema on demand, optional `reveal`) |
 | **Discovery** | `plan_turn(query=...)` — route natural-language task description to best-fit tools, symbols, and files; returns ranked recommendations with confidence scores, reveal_required hints, and gap analysis |
 | **Meta** | `index_status` (check if repo is indexed: file/symbol counts, language breakdown, text_stub languages), `analyze_project` (stack + conventions detection), `get_extractor_versions` (parser language support) |
@@ -273,6 +287,47 @@ scan_secrets(repo="local/my-project", file_pattern="src/config/**")
 - Severity mapping: cloud keys (AWS, GCP) = critical, API keys (OpenAI, GitHub) = high
 - Inline warnings in `index_file` responses when secrets detected
 
+### Wiki & Lens — auto-generated architecture documentation
+
+Generate browsable wiki pages and an interactive HTML dashboard from your codebase's topology — zero manual writing.
+
+```bash
+# Generate wiki for current repo
+codesift wiki-generate
+
+# Scope to a directory
+codesift wiki-generate --focus src/tools
+
+# Check wiki integrity
+codesift wiki-lint .codesift/wiki
+```
+
+**What it generates (in `.codesift/wiki/`):**
+- **Community pages** — one per Louvain community (module), with members, cohesion score, cross-boundary edges
+- **Hubs page** — top symbols by fan-in (load-bearing code)
+- **Surprises page** — unexpected cross-community connections (structural + temporal coupling)
+- **Hotspots page** — files ranked by git churn × complexity
+- **Framework pages** — conditional pages for Next.js routes, Hono middleware, Astro islands (when detected)
+- **Index page** — links to all pages with `[[wikilinks]]` and auto-generated backlinks
+- **Summaries** — compact `*.summary.md` files (~400 tokens) for AI agent context injection
+
+**Lens HTML dashboard** (`codesift-lens.html`):
+- Self-contained single HTML file — open in any browser, no server needed
+- D3 chord diagram showing cross-community connections
+- D3 force-directed graph with community nodes
+- 5 tabs: Overview, Communities, Hubs, Surprises, Wiki browser
+- Dark/light theme, responsive
+
+**AI agent integration:**
+- Hook inject via `handlePrecheckRead` — when an agent reads a file, it automatically receives the file's community wiki summary as context
+- Configurable token budget (2000 chars default)
+- Staleness detection — warns when wiki is outdated vs current index
+
+**MCP tool:**
+```bash
+generate_wiki(repo, focus?, output_dir?, include_lens?)
+```
+
 ### PHP / Yii2 support
 
 Full PHP code intelligence with first-on-market Yii2 framework awareness. No other general-purpose MCP tool provides static Yii2 intelligence.
@@ -343,6 +398,8 @@ Deep Next.js static analysis — 3 core tools covering routing, rendering, secur
 | Ranked text search | `search_text(ranked=true)` | Classifies hits by function, saves follow-up get_symbol calls |
 | Find hidden tools | `discover_tools` + `describe_tools` | 95 tools hidden by default — search by keyword, get full schema |
 | Route task → tools | `plan_turn(query="...")` | Natural-language router: ranked tool/symbol/file recommendations with auto-reveal |
+| Architecture wiki | `codesift wiki-generate` | Auto-generated markdown wiki from Louvain communities, hubs, surprises |
+| Visual architecture | Open `codesift-lens.html` | D3 chord diagram + force graph in one self-contained HTML file |
 | Find ALL occurrences | `grep -rn` | Exhaustive, no top_k cap |
 | Count matches | `grep -c` | Simple exact count |
 

package/dist/cli/commands.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"commands.d.ts","sourceRoot":"","sources":["../../src/cli/commands.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,EAAE,KAAK,EAAE,MAAM,WAAW,CAAC;AAIvC,MAAM,MAAM,cAAc,GAAG,CAAC,IAAI,EAAE,MAAM,EAAE,EAAE,KAAK,EAAE,KAAK,KAAK,OAAO,CAAC,IAAI,CAAC,CAAC;AAse7E,eAAO,MAAM,WAAW,EAAE,MAAM,CAAC,MAAM,EAAE,cAAc,CA+DtD,CAAC"}

package/dist/cli/commands.js

@@ -444,6 +444,14 @@ export const COMMAND_MAP = {
         const { handlePrecheckBash } = await import("./hooks.js");
         await handlePrecheckBash();
     },
+    "precheck-glob": async () => {
+        const { handlePrecheckGlob } = await import("./hooks.js");
+        await handlePrecheckGlob();
+    },
+    "precheck-grep": async () => {
+        const { handlePrecheckGrep } = await import("./hooks.js");
+        await handlePrecheckGrep();
+    },
     "postindex-file": async () => {
         const { handlePostindexFile } = await import("./hooks.js");
         await handlePostindexFile();

package/dist/cli/commands.js.map

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package/dist/cli/help.d.ts

@@ -1,3 +1,3 @@
-export declare const MAIN_HELP = "codesift \u2014 CLI for CodeSift code intelligence\n\nUsage: codesift <command> [options]\n\nCommands:\n  index <path>                    Index a local folder\n  index-repo <url>                Clone and index a remote git repository\n  repos                           List all indexed repositories\n  invalidate <repo>               Clear index cache for a repository\n  index-conversations [path]      Index Claude Code conversations for the current project\n\n  search <repo> <query>           Full-text search across all files\n  symbols <repo> <query>          Search symbols by name/signature\n  tree <repo>                     Get file tree with symbol counts\n  outline <repo> <file>           Get symbol outline of a single file\n  repo-outline <repo>             High-level repository outline\n\n  symbol <repo> <id>              Get a single symbol by ID\n  symbols-batch <repo> <ids...>   Get multiple symbols by ID\n\n  find <repo> <query>             Find symbol and show source\n  refs <repo> <name>              Find all references to a symbol\n  trace <repo> <name>             Trace call chain (callers/callees)\n\n  impact <repo> --since <ref>     Analyze blast radius of git changes\n  context <repo> <query>          Assemble relevant code context\n  knowledge-map <repo>            Module dependency map\n\n  diff <repo> --since <ref>       Structural diff outline between git refs\n  changed <repo> --since <ref>    List changed symbols between git refs\n\n  retrieve <repo> --queries <json>  Batch multiple queries in one call\n  stats                           Show usage statistics\n  generate-claude-md <repo>       Generate CLAUDE.md project summary\n\n  complexity <repo>               Analyze cyclomatic complexity of functions\n  dead-code <repo>                Find potentially dead (unreferenced) exports\n  hotspots <repo>                 Analyze git churn hotspots\n  communities <repo>              Detect code clusters via community detection\n  patterns <repo> --pattern <name>  Search for structural code patterns\n  find-clones <repo>              Find copy-paste code clones\n\n  setup <platform>                Configure codesift-mcp in an AI coding tool\n                                  Platforms: codex, claude, cursor, gemini, all\n  precheck-read                   PreToolUse hook: deny large file reads (hook handler)\n  precheck-bash                   PreToolUse hook: redirect find/grep to CodeSift (hook handler)\n  postindex-file                  PostToolUse hook: re-index edited files (hook handler)\n\nFlags:\n  --help            Show help for a command\n  --version         Show version\n  --compact         Compact JSON output (no indentation)\n  --json            Full JSON output (for refs, trace commands)\n  --include-source  Include source code in output (trace, impact)\n\nExamples:\n  codesift setup codex                          Set up MCP in OpenAI Codex\n  codesift setup claude                         Set up MCP in Claude Code\n  codesift setup gemini                         Set up MCP in Gemini CLI\n  codesift setup all                            Set up MCP in all platforms\n  codesift index /path/to/project\n  codesift repos\n  codesift search local/my-project \"createUser\"\n  codesift symbols local/my-project \"handleRequest\" --kind function\n  codesift tree local/my-project --path src/lib --depth 2\n  codesift trace local/my-project \"createRisk\" --direction callers --depth 2\n";
+export declare const MAIN_HELP = "codesift \u2014 CLI for CodeSift code intelligence\n\nUsage: codesift <command> [options]\n\nCommands:\n  index <path>                    Index a local folder\n  index-repo <url>                Clone and index a remote git repository\n  repos                           List all indexed repositories\n  invalidate <repo>               Clear index cache for a repository\n  index-conversations [path]      Index Claude Code conversations for the current project\n\n  search <repo> <query>           Full-text search across all files\n  symbols <repo> <query>          Search symbols by name/signature\n  tree <repo>                     Get file tree with symbol counts\n  outline <repo> <file>           Get symbol outline of a single file\n  repo-outline <repo>             High-level repository outline\n\n  symbol <repo> <id>              Get a single symbol by ID\n  symbols-batch <repo> <ids...>   Get multiple symbols by ID\n\n  find <repo> <query>             Find symbol and show source\n  refs <repo> <name>              Find all references to a symbol\n  trace <repo> <name>             Trace call chain (callers/callees)\n\n  impact <repo> --since <ref>     Analyze blast radius of git changes\n  context <repo> <query>          Assemble relevant code context\n  knowledge-map <repo>            Module dependency map\n\n  diff <repo> --since <ref>       Structural diff outline between git refs\n  changed <repo> --since <ref>    List changed symbols between git refs\n\n  retrieve <repo> --queries <json>  Batch multiple queries in one call\n  stats                           Show usage statistics\n  generate-claude-md <repo>       Generate CLAUDE.md project summary\n\n  complexity <repo>               Analyze cyclomatic complexity of functions\n  dead-code <repo>                Find potentially dead (unreferenced) exports\n  hotspots <repo>                 Analyze git churn hotspots\n  communities <repo>              Detect code clusters via community detection\n  patterns <repo> --pattern <name>  Search for structural code patterns\n  find-clones <repo>              Find copy-paste code clones\n\n  setup <platform>                Configure codesift-mcp in an AI coding tool\n                                  Platforms: codex, claude, cursor, gemini, all\n  precheck-read                   PreToolUse hook: deny large file reads (hook handler)\n  precheck-bash                   PreToolUse hook: redirect find/grep to CodeSift (hook handler)\n  precheck-glob                   PreToolUse hook: redirect Glob to CodeSift (hook handler)\n  precheck-grep                   PreToolUse hook: redirect Grep to CodeSift (hook handler)\n  postindex-file                  PostToolUse hook: re-index edited files (hook handler)\n\nFlags:\n  --help            Show help for a command\n  --version         Show version\n  --compact         Compact JSON output (no indentation)\n  --json            Full JSON output (for refs, trace commands)\n  --include-source  Include source code in output (trace, impact)\n\nExamples:\n  codesift setup codex                          Set up MCP in OpenAI Codex\n  codesift setup claude                         Set up MCP in Claude Code\n  codesift setup gemini                         Set up MCP in Gemini CLI\n  codesift setup all                            Set up MCP in all platforms\n  codesift index /path/to/project\n  codesift repos\n  codesift search local/my-project \"createUser\"\n  codesift symbols local/my-project \"handleRequest\" --kind function\n  codesift tree local/my-project --path src/lib --depth 2\n  codesift trace local/my-project \"createRisk\" --direction callers --depth 2\n";
 export declare const COMMAND_HELP: Record<string, string>;
 //# sourceMappingURL=help.d.ts.map

package/dist/cli/help.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"help.d.ts","sourceRoot":"","sources":["../../src/cli/help.ts"],"names":[],"mappings":"AAIA,eAAO,MAAM,SAAS,ukHAoErB,CAAC;AAEF,eAAO,MAAM,YAAY,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAwZ/C,CAAC"}

package/dist/cli/help.js

@@ -47,6 +47,8 @@ Commands:
                                   Platforms: codex, claude, cursor, gemini, all
   precheck-read                   PreToolUse hook: deny large file reads (hook handler)
   precheck-bash                   PreToolUse hook: redirect find/grep to CodeSift (hook handler)
+  precheck-glob                   PreToolUse hook: redirect Glob to CodeSift (hook handler)
+  precheck-grep                   PreToolUse hook: redirect Grep to CodeSift (hook handler)
   postindex-file                  PostToolUse hook: re-index edited files (hook handler)
 
 Flags:

package/dist/cli/help.js.map

@@ -1 +1 @@
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+{"version":3,"file":"help.js","sourceRoot":"","sources":["../../src/cli/help.ts"],"names":[],"mappings":"AAAA,8EAA8E;AAC9E,gBAAgB;AAChB,8EAA8E;AAE9E,MAAM,CAAC,MAAM,SAAS,GAAG;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAoExB,CAAC;AAEF,MAAM,CAAC,MAAM,YAAY,GAA2B;IAClD,KAAK,EAAE;;;;;;;;;;iEAUwD;IAE/D,YAAY,EAAE;;;;;;;;;6DAS6C;IAE3D,qBAAqB,EAAE;;;;;;;;;wEAS+C;IAEtE,KAAK,EAAE;;6CAEoC;IAE3C,UAAU,EAAE;;;;;0DAK4C;IAExD,MAAM,EAAE;;;;;;;;;;;;qEAY2D;IAEnE,OAAO,EAAE;;;;;;;;;;;;;mEAawD;IAEjE,IAAI,EAAE;;;;;;;;;;;;+DAYuD;IAE7D,OAAO,EAAE;;;;;;qDAM0C;IAEnD,cAAc,EAAE;;;;;kCAKgB;IAEhC,MAAM,EAAE;;;;;;qCAM2B;IAEnC,eAAe,EAAE;;;;;;iDAM8B;IAE/C,IAAI,EAAE;;;;;;;;;iEASyD;IAE/D,IAAI,EAAE;;;;;;;;;;8DAUsD;IAE5D,KAAK,EAAE;;;;;;;;;;;;;6DAaoD;IAE3D,MAAM,EAAE;;;;;;;;;;mDAUyC;IAEjD,OAAO,EAAE;;;;;;;;;6DASkD;IAE3D,eAAe,EAAE;;;;;;;;;mDASgC;IAEjD,IAAI,EAAE;;;;;;;;;mDAS2C;IAEjD,OAAO,EAAE;;;;;;;;;mDASwC;IAEjD,QAAQ,EAAE;;;;;;;;;;;;;;;;;;;;+GAoBmG;IAE7G,KAAK,EAAE;;mDAE0C;IAEjD,oBAAoB,EAAE;;;;;;;;sCAQc;IAEpC,UAAU,EAAE;;;;;;;;;;;0DAW4C;IAExD,WAAW,EAAE;;;;;;;;;iEASkD;IAE/D,QAAQ,EAAE;;;;;;;;;;kEAUsD;IAEhE,WAAW,EAAE;;;;;;;;;;kEAUmD;IAEhE,QAAQ,EAAE;;;;;;;;;;;;;;2DAc+C;IAEzD,aAAa,EAAE;;;;;;;;;;;yDAWwC;IAEvD,eAAe,EAAE;;;;;;;;;;;yEAWsD;IAEvE,eAAe,EAAE;;;;;;;;;;;;uEAYoD;IAErE,gBAAgB,EAAE;;;;;;;;;;yEAUqD;IAEvE,eAAe,EAAE,6HAA6H;IAE9I,WAAW,EAAE,iHAAiH;IAE9H,KAAK,EAAE;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;qBAqCY;CACpB,CAAC"}

package/dist/cli/hooks.d.ts

@@ -1,5 +1,7 @@
 export declare function handlePrecheckRead(): Promise<void>;
 export declare function handlePrecheckBash(): Promise<void>;
+export declare function handlePrecheckGlob(): Promise<void>;
+export declare function handlePrecheckGrep(): Promise<void>;
 export declare function handlePostindexFile(): Promise<void>;
 export declare function handlePrecompactSnapshot(): Promise<void>;
 //# sourceMappingURL=hooks.d.ts.map

package/dist/cli/hooks.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"hooks.d.ts","sourceRoot":"","sources":["../../src/cli/hooks.ts"],"names":[],"mappings":"AAuOA,wBAAsB,kBAAkB,IAAI,OAAO,CAAC,IAAI,CAAC,CAwDxD;AAkCD,wBAAsB,kBAAkB,IAAI,OAAO,CAAC,IAAI,CAAC,CAyCxD;AAYD,wBAAsB,kBAAkB,IAAI,OAAO,CAAC,IAAI,CAAC,CAgBxD;AAYD,wBAAsB,kBAAkB,IAAI,OAAO,CAAC,IAAI,CAAC,CAgBxD;AAcD,wBAAsB,mBAAmB,IAAI,OAAO,CAAC,IAAI,CAAC,CA+BzD;AAeD,wBAAsB,wBAAwB,IAAI,OAAO,CAAC,IAAI,CAAC,CA4C9D"}

package/dist/cli/hooks.js

@@ -10,7 +10,7 @@
 // Exit codes: 0 = allow, 2 = deny (with redirect message on stdout)
 // ---------------------------------------------------------------------------
 import { readFileSync } from "node:fs";
-import { dirname, extname, join, relative } from "node:path";
+import { dirname, extname, join, relative, posix as pathPosix } from "node:path";
 import { homedir } from "node:os";
 // ---------------------------------------------------------------------------
 // Cross-platform input parsing
@@ -179,9 +179,10 @@ function tryLoadWikiSummary(filePath) {
         if (!fileToComm || typeof fileToComm !== "object")
             return null;
         const map = fileToComm;
-        // Resolve the file path relative to the repo root for lookup
-        // Normalize to forward slashes for cross-platform compatibility (manifest uses POSIX paths)
-        const relPath = relative(repoRoot, filePath).split("\\").join("/");
+        // Resolve the file path relative to the repo root for lookup.
+        // Manifest keys are POSIX-style; normalize separators and collapse `./`, `//`
+        // so that Windows backslashes and mixed slashes resolve to a single canonical key.
+        const relPath = pathPosix.normalize(relative(repoRoot, filePath).split("\\").join("/"));
         const communitySlug = map[relPath];
         if (typeof communitySlug !== "string")
             return null;
@@ -330,6 +331,60 @@ export async function handlePrecheckBash() {
     }
 }
 // ---------------------------------------------------------------------------
+// handlePrecheckGlob
+//
+// PreToolUse hook for the Glob tool. Redirects file-finding operations to
+// CodeSift's get_file_tree which uses the pre-built index.
+//
+// Env vars:
+//   HOOK_TOOL_INPUT  — JSON string with tool_input.pattern
+// ---------------------------------------------------------------------------
+export async function handlePrecheckGlob() {
+    try {
+        const raw = readRawInput();
+        if (!raw) {
+            process.exit(0);
+            return;
+        }
+        // Glob is always a file-finding operation — redirect to CodeSift
+        process.stdout.write(`CodeSift is available and repos are pre-indexed. Use CodeSift MCP tools instead of Glob:\n` +
+            `  get_file_tree(compact=true, name_pattern="*.ts") — find files by pattern\n` +
+            `  search_symbols(query="name", kind="function") — find symbols by name\n` +
+            `Repo auto-resolves from CWD — no need to call list_repos first.\n`);
+        process.exit(2);
+    }
+    catch {
+        process.exit(0);
+    }
+}
+// ---------------------------------------------------------------------------
+// handlePrecheckGrep
+//
+// PreToolUse hook for the Grep tool. Redirects content-searching operations
+// to CodeSift's search_text which uses the pre-built BM25 index.
+//
+// Env vars:
+//   HOOK_TOOL_INPUT  — JSON string with tool_input.pattern
+// ---------------------------------------------------------------------------
+export async function handlePrecheckGrep() {
+    try {
+        const raw = readRawInput();
+        if (!raw) {
+            process.exit(0);
+            return;
+        }
+        // Grep is always a content-search operation — redirect to CodeSift
+        process.stdout.write(`CodeSift is available and repos are pre-indexed. Use CodeSift MCP tools instead of Grep:\n` +
+            `  search_text(query="pattern", file_pattern="*.ts") — full-text search with BM25 ranking\n` +
+            `  search_symbols(query="name", include_source=true) — find functions/classes by name\n` +
+            `Repo auto-resolves from CWD — no need to call list_repos first.\n`);
+        process.exit(2);
+    }
+    catch {
+        process.exit(0);
+    }
+}
+// ---------------------------------------------------------------------------
 // handlePostindexFile
 //
 // PostToolUse hook for Write/Edit tools. When the agent writes or edits a

package/dist/cli/hooks.js.map

@@ -1 +1 @@
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package/dist/cli/setup.d.ts.map

@@ -1 +1 @@
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package/dist/cli/setup.js

@@ -299,6 +299,8 @@ const CLAUDE_HOOKS = {
     PreToolUse: [
         { matcher: "Read", hooks: [{ type: "command", command: "codesift precheck-read" }] },
         { matcher: "Bash", hooks: [{ type: "command", command: "codesift precheck-bash" }] },
+        { matcher: "Glob", hooks: [{ type: "command", command: "codesift precheck-glob" }] },
+        { matcher: "Grep", hooks: [{ type: "command", command: "codesift precheck-grep" }] },
     ],
     PostToolUse: [
         { matcher: "Write|Edit", hooks: [{ type: "command", command: "codesift postindex-file" }] },

package/dist/cli/setup.js.map

@@ -1 +1 @@
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package/dist/tools/lens-template.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"lens-template.d.ts","sourceRoot":"","sources":["../../src/tools/lens-template.ts"],"names":[],"mappings":"AAMA,MAAM,WAAW,QAAQ;IACvB,IAAI,EAAE,MAAM,CAAC;IACb,WAAW,EAAE,KAAK,CAAC;QACjB,IAAI,EAAE,MAAM,CAAC;QACb,KAAK,EAAE,MAAM,EAAE,CAAC;QAChB,QAAQ,EAAE,MAAM,CAAC;QACjB,YAAY,EAAE,MAAM,CAAC;KACtB,CAAC,CAAC;IACH,IAAI,EAAE,KAAK,CAAC;QACV,IAAI,EAAE,MAAM,CAAC;QACb,IAAI,EAAE,MAAM,CAAC;QACb,IAAI,EAAE,MAAM,CAAC;QACb,OAAO,EAAE,MAAM,CAAC;QAChB,OAAO,EAAE,MAAM,CAAC;KACjB,CAAC,CAAC;IACH,SAAS,EAAE,KAAK,CAAC;QACf,WAAW,EAAE,MAAM,CAAC;QACpB,WAAW,EAAE,MAAM,CAAC;QACpB,cAAc,EAAE,MAAM,CAAC;QACvB,UAAU,EAAE,MAAM,CAAC;QACnB,aAAa,EAAE,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;KACjC,CAAC,CAAC;IACH,QAAQ,EAAE,KAAK,CAAC;QACd,IAAI,EAAE,MAAM,CAAC;QACb,aAAa,EAAE,MAAM,CAAC;QACtB,OAAO,EAAE,MAAM,CAAC;KACjB,CAAC,CAAC;IACH,UAAU,EAAE,KAAK,CAAC;QAChB,IAAI,EAAE,MAAM,CAAC;QACb,KAAK,EAAE,MAAM,CAAC;QACd,OAAO,EAAE,MAAM,CAAC;KACjB,CAAC,CAAC;IACH,YAAY,EAAE,MAAM,CAAC;IACrB,QAAQ,EAAE,OAAO,CAAC;CACnB;AAiUD,wBAAgB,aAAa,CAAC,IAAI,EAAE,QAAQ,GAAG,MAAM,CAqDpD"}

package/dist/tools/lens-template.js

@@ -151,13 +151,28 @@ function buildWikiScript() {
     function showPage(slug) {
       var page = DATA.wiki_pages.find(function(p) { return p.slug === slug; });
       if (!page || !rendered) return;
-      var html = (typeof marked !== 'undefined') ? marked.parse(page.content) : page.content;
-      rendered.textContent = '';
-      if (typeof marked !== 'undefined') {
-        var tmp = document.createElement('div'); tmp.innerHTML = html;
-        tmp.querySelectorAll('script,iframe,object,embed,form').forEach(function(el) { el.remove(); });
-        rendered.innerHTML = tmp.innerHTML;
-      } else { rendered.textContent = page.content; }
+      if (typeof marked === 'undefined') {
+        rendered.textContent = page.content;
+        return;
+      }
+      var tmp = document.createElement('div');
+      tmp.innerHTML = marked.parse(page.content);
+      var BAD_TAGS = /^(script|iframe|object|embed|form|svg|math|link|meta|base|style)$/;
+      // Walk every descendant: drop dangerous tags, strip event handlers and javascript:-URLs.
+      // querySelectorAll('*') is live-snapshot; safe to mutate during iteration.
+      Array.prototype.slice.call(tmp.querySelectorAll('*')).forEach(function(el) {
+        if (BAD_TAGS.test(el.tagName.toLowerCase())) { el.remove(); return; }
+        Array.prototype.slice.call(el.attributes).forEach(function(attr) {
+          var an = attr.name.toLowerCase();
+          var av = String(attr.value).trim().toLowerCase();
+          if (an.indexOf('on') === 0) { el.removeAttribute(attr.name); return; }
+          if ((an === 'href' || an === 'src' || an === 'xlink:href' || an === 'formaction' || an === 'action') &&
+              (av.indexOf('javascript:') === 0 || av.indexOf('data:text/html') === 0 || av.indexOf('vbscript:') === 0)) {
+            el.removeAttribute(attr.name);
+          }
+        });
+      });
+      rendered.innerHTML = tmp.innerHTML;
     }
     links.forEach(function(link) {
       link.addEventListener('click', function(e) {
@@ -306,8 +321,8 @@ export function buildLensHtml(data) {
 <meta charset="utf-8">
 <meta name="viewport" content="width=device-width, initial-scale=1">
 <title>CodeSift Lens &mdash; ${safeRepo}</title>
-<script src="https://cdn.jsdelivr.net/npm/d3@7.9.0/dist/d3.min.js" crossorigin="anonymous"></script>
-<script src="https://cdn.jsdelivr.net/npm/marked@9.1.6/marked.min.js" crossorigin="anonymous"></script>
+<script src="https://cdn.jsdelivr.net/npm/d3@7.9.0/dist/d3.min.js" integrity="sha384-CjloA8y00+1SDAUkjs099PVfnY2KmDC2BZnws9kh8D/lX1s46w6EPhpXdqMfjK6i" crossorigin="anonymous"></script>
+<script src="https://cdn.jsdelivr.net/npm/marked@9.1.6/marked.min.js" integrity="sha384-odPBjvtXVM/5hOYIr3A1dB+flh0c3wAT3bSesIOqEGmyUA4JoKf/YTWy0XKOYAY7" crossorigin="anonymous"></script>
 <style>${buildCss()}</style>
 </head>
 <body>

package/dist/tools/lens-template.js.map

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package/dist/tools/wiki-manifest.d.ts

@@ -26,9 +26,18 @@ export interface PageInfo {
 /** Converts a community name to a URL-safe kebab-case slug. */
 export declare function toSlug(name: string): string;
 /**
- * Maps every file from every community to the community's kebab-case slug.
+ * Builds a collision-free `name -> slug` map. Duplicates are disambiguated with
+ * a numeric suffix (`-2`, `-3`, …) in iteration order. Empty-slug names fall
+ * back to the literal `community` base.
  */
-export declare function buildFileToCommunityMap(communities: CommunityInfo[]): Record<string, string>;
+export declare function buildUniqueSlugs(communities: readonly {
+    name: string;
+}[]): Map<string, string>;
+/**
+ * Maps every file from every community to the community's kebab-case slug
+ * using a collision-free slug map.
+ */
+export declare function buildFileToCommunityMap(communities: CommunityInfo[], slugMap?: Map<string, string>): Record<string, string>;
 /**
  * Builds the wiki manifest — a single JSON artifact that describes every
  * generated wiki page and its metadata.

package/dist/tools/wiki-manifest.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"wiki-manifest.d.ts","sourceRoot":"","sources":["../../src/tools/wiki-manifest.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,oBAAoB,CAAC;AAExD,MAAM,WAAW,YAAY;IAC3B,YAAY,EAAE,MAAM,CAAC;IACrB,UAAU,EAAE,MAAM,CAAC;IACnB,UAAU,EAAE,MAAM,CAAC;IACnB,KAAK,EAAE,KAAK,CAAC;QACX,IAAI,EAAE,MAAM,CAAC;QACb,KAAK,EAAE,MAAM,CAAC;QACd,IAAI,EAAE,OAAO,GAAG,WAAW,GAAG,MAAM,GAAG,WAAW,GAAG,UAAU,GAAG,WAAW,CAAC;QAC9E,IAAI,EAAE,MAAM,CAAC;QACb,cAAc,EAAE,MAAM,EAAE,CAAC;KAC1B,CAAC,CAAC;IACH,cAAc,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IACvC,eAAe,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IACxC,iBAAiB,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IAC1C,QAAQ,EAAE,OAAO,CAAC;IAClB,gBAAgB,CAAC,EAAE,MAAM,EAAE,CAAC;CAC7B;AAED,MAAM,WAAW,QAAQ;IACvB,IAAI,EAAE,MAAM,CAAC;IACb,KAAK,EAAE,MAAM,CAAC;IACd,IAAI,EAAE,YAAY,CAAC,OAAO,CAAC,CAAC,MAAM,CAAC,CAAC,MAAM,CAAC,CAAC;IAC5C,IAAI,EAAE,MAAM,CAAC;IACb,OAAO,EAAE,MAAM,CAAC;CACjB;AAID,+DAA+D;AAC/D,wBAAgB,MAAM,CAAC,IAAI,EAAE,MAAM,GAAG,MAAM,CAK3C;AAED;;;;GAIG;AACH,wBAAgB,gBAAgB,CAC9B,WAAW,EAAE,SAAS;IAAE,IAAI,EAAE,MAAM,CAAA;CAAE,EAAE,GACvC,GAAG,CAAC,MAAM,EAAE,MAAM,CAAC,CAWrB;AAED;;;GAGG;AACH,wBAAgB,uBAAuB,CACrC,WAAW,EAAE,aAAa,EAAE,EAC5B,OAAO,GAAE,GAAG,CAAC,MAAM,EAAE,MAAM,CAAiC,GAC3D,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CASxB;AAED;;;GAGG;AACH,wBAAgB,iBAAiB,CAAC,OAAO,EAAE;IACzC,UAAU,EAAE,MAAM,CAAC;IACnB,UAAU,EAAE,MAAM,CAAC;IACnB,KAAK,EAAE,QAAQ,EAAE,CAAC;IAClB,WAAW,EAAE,aAAa,EAAE,CAAC;IAC7B,WAAW,CAAC,EAAE,YAAY,CAAC;IAC3B,eAAe,CAAC,EAAE,MAAM,EAAE,CAAC;CAC5B,GAAG,YAAY,CAqDf"}

package/dist/tools/wiki-manifest.js

@@ -7,12 +7,30 @@ export function toSlug(name) {
         .replace(/^-|-$/g, "");
 }
 /**
- * Maps every file from every community to the community's kebab-case slug.
+ * Builds a collision-free `name -> slug` map. Duplicates are disambiguated with
+ * a numeric suffix (`-2`, `-3`, …) in iteration order. Empty-slug names fall
+ * back to the literal `community` base.
  */
-export function buildFileToCommunityMap(communities) {
+export function buildUniqueSlugs(communities) {
+    const nameToSlug = new Map();
+    const seen = new Map();
+    for (const c of communities) {
+        const base = toSlug(c.name) || "community";
+        const count = seen.get(base) ?? 0;
+        const slug = count === 0 ? base : `${base}-${count + 1}`;
+        seen.set(base, count + 1);
+        nameToSlug.set(c.name, slug);
+    }
+    return nameToSlug;
+}
+/**
+ * Maps every file from every community to the community's kebab-case slug
+ * using a collision-free slug map.
+ */
+export function buildFileToCommunityMap(communities, slugMap = buildUniqueSlugs(communities)) {
     const map = {};
     for (const c of communities) {
-        const slug = toSlug(c.name);
+        const slug = slugMap.get(c.name) ?? toSlug(c.name);
         for (const f of c.files) {
             map[f] = slug;
         }

package/dist/tools/wiki-manifest.js.map

@@ -1 +1 @@
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+{"version":3,"file":"wiki-manifest.js","sourceRoot":"","sources":["../../src/tools/wiki-manifest.ts"],"names":[],"mappings":"AA4BA,MAAM,eAAe,GAAG,CAAC,CAAC;AAE1B,+DAA+D;AAC/D,MAAM,UAAU,MAAM,CAAC,IAAY;IACjC,OAAO,IAAI;SACR,WAAW,EAAE;SACb,OAAO,CAAC,aAAa,EAAE,GAAG,CAAC;SAC3B,OAAO,CAAC,QAAQ,EAAE,EAAE,CAAC,CAAC;AAC3B,CAAC;AAED;;;;GAIG;AACH,MAAM,UAAU,gBAAgB,CAC9B,WAAwC;IAExC,MAAM,UAAU,GAAG,IAAI,GAAG,EAAkB,CAAC;IAC7C,MAAM,IAAI,GAAG,IAAI,GAAG,EAAkB,CAAC;IACvC,KAAK,MAAM,CAAC,IAAI,WAAW,EAAE,CAAC;QAC5B,MAAM,IAAI,GAAG,MAAM,CAAC,CAAC,CAAC,IAAI,CAAC,IAAI,WAAW,CAAC;QAC3C,MAAM,KAAK,GAAG,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;QAClC,MAAM,IAAI,GAAG,KAAK,KAAK,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,GAAG,IAAI,IAAI,KAAK,GAAG,CAAC,EAAE,CAAC;QACzD,IAAI,CAAC,GAAG,CAAC,IAAI,EAAE,KAAK,GAAG,CAAC,CAAC,CAAC;QAC1B,UAAU,CAAC,GAAG,CAAC,CAAC,CAAC,IAAI,EAAE,IAAI,CAAC,CAAC;IAC/B,CAAC;IACD,OAAO,UAAU,CAAC;AACpB,CAAC;AAED;;;GAGG;AACH,MAAM,UAAU,uBAAuB,CACrC,WAA4B,EAC5B,UAA+B,gBAAgB,CAAC,WAAW,CAAC;IAE5D,MAAM,GAAG,GAA2B,EAAE,CAAC;IACvC,KAAK,MAAM,CAAC,IAAI,WAAW,EAAE,CAAC;QAC5B,MAAM,IAAI,GAAG,OAAO,CAAC,GAAG,CAAC,CAAC,CAAC,IAAI,CAAC,IAAI,MAAM,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC;QACnD,KAAK,MAAM,CAAC,IAAI,CAAC,CAAC,KAAK,EAAE,CAAC;YACxB,GAAG,CAAC,CAAC,CAAC,GAAG,IAAI,CAAC;QAChB,CAAC;IACH,CAAC;IACD,OAAO,GAAG,CAAC;AACb,CAAC;AAED;;;GAGG;AACH,MAAM,UAAU,iBAAiB,CAAC,OAOjC;IACC,MAAM,EAAE,UAAU,EAAE,UAAU,EAAE,KAAK,EAAE,WAAW,EAAE,WAAW,EAAE,eAAe,EAAE,GAChF,OAAO,CAAC;IAEV,uBAAuB;IACvB,MAAM,iBAAiB,GAAG,uBAAuB,CAAC,WAAW,CAAC,CAAC;IAE/D,8CAA8C;IAC9C,MAAM,eAAe,GAA2B,EAAE,CAAC;IACnD,KAAK,MAAM,CAAC,IAAI,KAAK,EAAE,CAAC;QACtB,eAAe,CAAC,CAAC,CAAC,IAAI,CAAC,GAAG,IAAI,CAAC,IAAI,CAAC,CAAC,CAAC,OAAO,CAAC,MAAM,GAAG,eAAe,CAAC,CAAC;IAC1E,CAAC;IAED,4DAA4D;IAC5D,MAAM,cAAc,GAA2B;QAC7C,GAAG,CAAC,WAAW,EAAE,cAAc,IAAI,EAAE,CAAC;KACvC,CAAC;IAEF,2DAA2D;IAC3D,MAAM,SAAS,GAAG,mBAAmB,CAAC;IAEtC,MAAM,UAAU,GAAG,KAAK,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE;QACjC,MAAM,cAAc,GAAa,EAAE,CAAC;QACpC,SAAS,CAAC,SAAS,GAAG,CAAC,CAAC;QACxB,IAAI,KAA6B,CAAC;QAClC,OAAO,CAAC,KAAK,GAAG,SAAS,CAAC,IAAI,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,KAAK,IAAI,EAAE,CAAC;YACpD,MAAM,MAAM,GAAG,KAAK,CAAC,CAAC,CAAC,CAAC;YACxB,IAAI,MAAM,KAAK,SAAS,EAAE,CAAC;gBACzB,cAAc,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC;YAC9B,CAAC;QACH,CAAC;QACD,OAAO;YACL,IAAI,EAAE,CAAC,CAAC,IAAI;YACZ,KAAK,EAAE,CAAC,CAAC,KAAK;YACd,IAAI,EAAE,CAAC,CAAC,IAAI;YACZ,IAAI,EAAE,CAAC,CAAC,IAAI;YACZ,cAAc;SACf,CAAC;IACJ,CAAC,CAAC,CAAC;IAEH,MAAM,QAAQ,GAAG,CAAC,eAAe,EAAE,MAAM,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC;IAEpD,OAAO;QACL,YAAY,EAAE,IAAI,IAAI,EAAE,CAAC,WAAW,EAAE;QACtC,UAAU;QACV,UAAU;QACV,KAAK,EAAE,UAAU;QACjB,cAAc;QACd,eAAe;QACf,iBAAiB;QACjB,QAAQ;QACR,GAAG,CAAC,QAAQ,CAAC,CAAC,CAAC,EAAE,gBAAgB,EAAE,eAAe,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;KAC3D,CAAC;AACJ,CAAC"}

package/dist/tools/wiki-tools.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"wiki-tools.d.ts","sourceRoot":"","sources":["../../src/tools/wiki-tools.ts"],"names":[],"mappings":"AA2DA,MAAM,WAAW,UAAU;IACzB,QAAQ,EAAE,MAAM,CAAC;IACjB,KAAK,EAAE,MAAM,CAAC;IACd,WAAW,EAAE,MAAM,CAAC;IACpB,IAAI,EAAE,MAAM,CAAC;IACb,SAAS,EAAE,MAAM,CAAC;IAClB,QAAQ,EAAE,OAAO,CAAC;IAClB,gBAAgB,CAAC,EAAE,MAAM,EAAE,CAAC;CAC7B;AA4CD,wBAAsB,YAAY,CAChC,IAAI,EAAE,MAAM,EACZ,OAAO,CAAC,EAAE;IAAE,KAAK,CAAC,EAAE,MAAM,CAAC;IAAC,UAAU,CAAC,EAAE,MAAM,CAAA;CAAE,GAChD,OAAO,CAAC,UAAU,CAAC,CAmOrB"}
+{"version":3,"file":"wiki-tools.d.ts","sourceRoot":"","sources":["../../src/tools/wiki-tools.ts"],"names":[],"mappings":"AA2DA,MAAM,WAAW,UAAU;IACzB,QAAQ,EAAE,MAAM,CAAC;IACjB,KAAK,EAAE,MAAM,CAAC;IACd,WAAW,EAAE,MAAM,CAAC;IACpB,IAAI,EAAE,MAAM,CAAC;IACb,SAAS,EAAE,MAAM,CAAC;IAClB,QAAQ,EAAE,OAAO,CAAC;IAClB,gBAAgB,CAAC,EAAE,MAAM,EAAE,CAAC;CAC7B;AAkDD,wBAAsB,YAAY,CAChC,IAAI,EAAE,MAAM,EACZ,OAAO,CAAC,EAAE;IAAE,KAAK,CAAC,EAAE,MAAM,CAAC;IAAC,UAAU,CAAC,EAAE,MAAM,CAAA;CAAE,GAChD,OAAO,CAAC,UAAU,CAAC,CA4OrB"}

package/dist/tools/wiki-tools.js

@@ -10,7 +10,7 @@ import { computeIndexHash } from "../storage/graph-store.js";
 import { computeSurpriseScores, } from "./wiki-surprise.js";
 import { generateCommunityPage, generateCommunitySummary, generateHubsPage, generateSurprisePage, generateHotspotsPage, generateFrameworkPage, generateIndexPage, } from "./wiki-page-generators.js";
 import { resolveWikiLinks } from "./wiki-links.js";
-import { buildWikiManifest, toSlug } from "./wiki-manifest.js";
+import { buildWikiManifest, buildUniqueSlugs } from "./wiki-manifest.js";
 const TIMEOUT_SENTINEL = { status: "timeout" };
 function withTimeout(promise, ms) {
     return Promise.race([
@@ -33,7 +33,14 @@ function formatDegradedReason(label, result) {
 }
 function unwrapSettled(result, label, extractor, fallback, degradedReasons) {
     if (result.status === "fulfilled" && !isTimeout(result.value)) {
-        return extractor(result.value);
+        try {
+            return extractor(result.value);
+        }
+        catch (e) {
+            const msg = e instanceof Error ? `${e.name}: ${e.message}` : String(e);
+            degradedReasons.push(`${label}_parse_error: ${msg}`);
+            return fallback;
+        }
     }
     degradedReasons.push(formatDegradedReason(label, result));
     return fallback;
@@ -111,9 +118,12 @@ export async function generateWiki(repo, options) {
         // Compute surprise scores
         const globalDensity = index.files.length > 0 ? crossEdges.length / (index.files.length * index.files.length) : 0;
         const surprises = computeSurpriseScores(communities, crossEdges, coChangePairs, globalDensity);
+        // Build unique slugs (collision-safe) before page generation.
+        // Shared with buildWikiManifest below to keep manifest + summary file slugs aligned.
+        const slugMap = buildUniqueSlugs(communities);
         // Build community page data
         const communityPages = communities.map((comm) => {
-            const slug = toSlug(comm.name);
+            const slug = slugMap.get(comm.name) ?? comm.name;
             const commHotspots = fileHotspots.filter((h) => comm.files.includes(h.file));
             const commHubs = hubSymbols.filter((h) => comm.files.includes(h.file));
             const rawComm = commResult.status === "fulfilled" && !isTimeout(commResult.value) && "communities" in commResult.value
@@ -131,8 +141,14 @@ export async function generateWiki(repo, options) {
             return { slug, title: comm.name, type: "community", file: `${slug}.md`, content };
         });
         // Write community summary files for hook injection
+        const slugToCommunity = new Map();
+        for (const comm of communities) {
+            const slug = slugMap.get(comm.name);
+            if (slug)
+                slugToCommunity.set(slug, comm);
+        }
         for (const comm of communityPages) {
-            const data = communities.find((c) => toSlug(c.name) === comm.slug);
+            const data = slugToCommunity.get(comm.slug);
             if (!data)
                 continue;
             const commHotspots = fileHotspots.filter((h) => data.files.includes(h.file));

package/dist/tools/wiki-tools.js.map

@@ -1 +1 @@
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package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "codesift-mcp",
-  "version": "0.5.8",
+  "version": "0.5.10",
   "description": "MCP server for code intelligence — 146 tools for symbol search, call graph, semantic search, route tracing, community detection, LSP bridge, secret detection, conversation search, and Hono framework intelligence",
   "license": "BSL-1.1",
   "author": "Greg Laskowski",