spec-gen-cli 1.2.6 → 1.2.8

package/README.md

@@ -18,10 +18,11 @@ npm install -g spec-gen-cli
 cd /path/to/your-project
 
 # Run the pipeline
-spec-gen init       # Detect project type, create config
-spec-gen analyze    # Static analysis (no API key needed)
-spec-gen generate   # Generate specs (requires API key)
-spec-gen drift      # Check for spec drift
+spec-gen init                  # Detect project type, create config
+spec-gen analyze --ai-configs  # Static analysis + generate context files (CLAUDE.md, .cursorrules…)
+spec-gen setup                 # Install workflow skills (Vibe, Cline, GSD, BMAD)
+spec-gen generate              # Generate specs (requires API key)
+spec-gen drift                 # Check for spec drift
 
 # Troubleshoot setup issues
 spec-gen doctor     # Check environment and configuration
@@ -94,6 +95,8 @@ Scans your codebase using pure static analysis:
 - Resolves Python absolute imports (`from services.retriever import X`) to local files
 - Synthesizes cross-file dependency edges from call-graph data for languages without file-level imports (Swift, C++), so the dependency graph and viewer are meaningful even in single-module projects
 - Clusters related files into structural business domains automatically
+- Extracts DB schema tables (Prisma, TypeORM, Drizzle, SQLAlchemy), HTTP routes (Express, NestJS, Next.js, FastAPI, Flask), UI components (React, Vue, Svelte, Angular), middleware chains, and environment variables — saved as structured JSON artifacts in `.spec-gen/analysis/`
+- Generates AI tool config files (`CLAUDE.md`, `.cursorrules`, `.clinerules/`, `.vibe/skills/`, etc.) with `--ai-configs`
 - Produces structured context that makes LLM generation more accurate
 
 **2. Generate** (API key required)
@@ -309,7 +312,7 @@ spec-gen drift --no-color                # Plain output for CI logs
 
 ## LLM Providers
 
-spec-gen supports eight providers. The default is Anthropic Claude.
+spec-gen supports nine providers. The default is Anthropic Claude.
 
 | Provider | `provider` value | API key env var | Default model |
 |----------|-----------------|-----------------|---------------|
@@ -321,6 +324,7 @@ spec-gen supports eight providers. The default is Anthropic Claude.
 | Gemini CLI | `gemini-cli` | *(none)* | *(CLI default)* |
 | Claude Code | `claude-code` | *(none)* | *(CLI default)* |
 | Mistral Vibe | `mistral-vibe` | *(none)* | *(CLI default)* |
+| Cursor Agent CLI | `cursor-agent` | *(none)* | *(CLI default)* |
 
 ### Selecting a provider
 
@@ -417,13 +421,14 @@ No API key is required — the copilot-api proxy handles authentication via your
 
 ### CLI-based providers (no API key)
 
-Three providers route LLM calls through local CLI tools instead of HTTP APIs. No API key or configuration is needed — just have the CLI installed and on your PATH.
+Four providers route LLM calls through local CLI tools instead of HTTP APIs. No API key or configuration is needed — just have the CLI installed and on your PATH.
 
 | Provider | CLI binary | Install |
-|----------|-----------|---------|
+|----------|-----------|----------------|
 | `claude-code` | `claude` | [Claude Code](https://docs.anthropic.com/en/docs/claude-code) (requires Claude Max/Pro subscription) |
 | `gemini-cli` | `gemini` | [Gemini CLI](https://github.com/google-gemini/gemini-cli) (free tier with Google account) |
 | `mistral-vibe` | `vibe` | [Mistral Vibe](https://github.com/mistralai/mistral-vibe) (standalone binary) |
+| `cursor-agent` | `cursor-agent` | [Cursor CLI](https://cursor.com/docs/cli/overview) (Cursor subscription / CLI auth) |
 
 ```json
 {
@@ -472,11 +477,13 @@ Priority: CLI flags > environment variables > config file > provider defaults.
 | `spec-gen verify` | Verify spec accuracy | Yes |
 | `spec-gen drift` | Detect spec drift (static) | No |
 | `spec-gen drift --use-llm` | Detect spec drift (LLM-enhanced) | Yes |
+| `spec-gen audit` | Report spec coverage gaps: uncovered functions, hub gaps, stale domains | No |
 | `spec-gen run` | Full pipeline: init, analyze, generate | Yes |
 | `spec-gen view` | Launch interactive graph & spec viewer in the browser | No |
+| `spec-gen setup` | Install workflow skills into the project (Vibe, Cline, GSD, BMAD) | No |
 | `spec-gen mcp` | Start MCP server (stdio, for Cline / Claude Code) | No |
 | `spec-gen doctor` | Check environment and configuration for common issues | No |
-| `spec-gen refresh-stories` | Re-annotate story files with stale risk context | No |
+| `spec-gen refresh-stories` | Refresh story files with latest structural context after each commit | No |
 
 ### Global Options
 
@@ -549,10 +556,39 @@ spec-gen analyze [options]
   --include <glob>       # Additional include patterns
   --exclude <glob>       # Additional exclude patterns
   --force                # Force re-analysis (bypass 1-hour cache)
+  --ai-configs           # Generate AI tool config files (CLAUDE.md, .cursorrules, .clinerules/spec-gen.md,
+                         #   .github/copilot-instructions.md, .windsurf/rules.md, .vibe/skills/spec-gen.md)
+                         #   Safe to re-run — skips files that already exist, marks pre-existing ones.
   --no-embed             # Skip building the semantic vector index (index is built by default when embedding is configured)
   --reindex-specs        # Re-index OpenSpec specs into the vector index without re-running full analysis
 ```
 
+### Setup Options
+
+```bash
+spec-gen setup [options]
+  --tools <list>   Comma-separated tools to install: vibe, cline, gsd, bmad (default: interactive prompt)
+  --dir <path>     Project root directory (default: current directory)
+```
+
+Installs workflow skills from the spec-gen package into the project. Skills are static assets — identical across projects — so this command only needs to be run once at project onboarding and again after upgrading spec-gen.
+
+Files installed:
+
+| Tool | Destination | Skills |
+|------|-------------|--------|
+| `vibe` | `.vibe/skills/spec-gen-{name}/SKILL.md` | analyze-codebase, brainstorm, debug, execute-refactor, generate, implement-story, plan-refactor |
+| `cline` | `.clinerules/workflows/spec-gen-{name}.md` | analyze-codebase, check-spec-drift, execute-refactor, implement-feature, plan-refactor, refactor-codebase |
+| `gsd` | `.claude/commands/gsd/spec-gen-{name}.md` | orient, drift |
+| `bmad` | `_bmad/spec-gen/{agents,tasks}/` | agents: architect, dev-brownfield — tasks: implement-story, onboarding, refactor, sprint-planning |
+
+Never overwrites existing files. Combine with `analyze --ai-configs` for a complete agent setup:
+
+```bash
+spec-gen analyze --ai-configs   # project-specific context files
+spec-gen setup                   # workflow skills
+```
+
 ### Verify Options
 
 ```bash
@@ -614,7 +650,27 @@ This is structural signal, not prose. It complements `openspec/specs/overview/sp
 
 ### Setup
 
-After running `spec-gen analyze`, wire the generated digest into your agent's context:
+Two commands, run once per project:
+
+```bash
+spec-gen analyze --ai-configs   # generate project-specific context files
+spec-gen setup                   # install workflow skills
+```
+
+**`analyze --ai-configs`** generates files that are specific to this project — they reference `.spec-gen/analysis/CODEBASE.md` and embed the project name. Safe to re-run (skips existing files).
+
+**`spec-gen setup`** copies static workflow assets from the spec-gen package that are identical across all projects. Run once at onboarding; re-run after upgrading spec-gen to get new or updated skills.
+
+```
+spec-gen setup [--tools vibe,cline,gsd,bmad]
+
+Mistral Vibe  ->  .vibe/skills/spec-gen-{name}/SKILL.md      (7 skills)
+Cline / Roo   ->  .clinerules/workflows/spec-gen-{name}.md   (6 workflows)
+GSD           ->  .claude/commands/gsd/spec-gen-{name}.md    (2 commands)
+BMAD          ->  _bmad/spec-gen/{agents,tasks}/              (2 agents, 4 tasks)
+```
+
+Wire the generated digest into your agent's context:
 
 **Claude Code** — add to `CLAUDE.md`:
 
@@ -622,7 +678,7 @@ After running `spec-gen analyze`, wire the generated digest into your agent's co
 @.spec-gen/analysis/CODEBASE.md
 @openspec/specs/overview/spec.md
 
-## spec-gen MCP tools — when to use them
+## spec-gen MCP workflow
 
 | Situation | Tool |
 |-----------|------|
@@ -633,8 +689,19 @@ After running `spec-gen analyze`, wire the generated digest into your agent's co
 | Reading a spec before writing code | `get_spec` |
 | Checking if code still matches spec | `check_spec_drift` |
 | Finding spec requirements by meaning | `search_specs` |
+| Checking spec coverage before starting a feature | `audit_spec_coverage` |
+
+**Follow this sequence for every task:**
+
+1. **`orient "<task description>"`** — always start here. Returns relevant functions, files, spec domains, call paths, and insertion points in one call.
+2. **If the task involves data models, APIs, or config** — call the relevant inventory tool:
+   `get_schema_inventory` · `get_route_inventory` · `get_env_vars` · `get_ui_components` · `get_middleware_inventory`
+3. **If debugging a call flow** ("how does X reach Y?") — `trace_execution_path`
+4. **Before modifying a function** — `get_subgraph` to understand blast radius
+5. **Before opening a PR** — `check_spec_drift`
 
-For all other cases (reading a file, grepping, listing files) use native tools directly.
+**On-demand** (when orient's results aren't enough):
+`search_code` · `suggest_insertion_points` · `get_spec <domain>` · `search_specs` · `analyze_impact` · `get_function_body` · `get_function_skeleton`
 ```
 
 **Cline / Roo Code / Kilocode** — create `.clinerules/spec-gen.md`:
@@ -652,29 +719,46 @@ Always use these before writing or modifying code.
 - Read `openspec/specs/overview/spec.md` — functional domain map: what the system does,
   which domains exist, data-flow requirements.
 
-## MCP tools — use these instead of grep/read when exploring
+## spec-gen MCP workflow
 
-- **Orient first**: call `orient` at the start of every task — it returns relevant functions,
-  files, specs, call paths, and insertion points in one shot.
-- **Finding code**: use `search_code` when you don't know which file or function handles a concept.
-- **Call topology**: use `get_subgraph` or `analyze_impact` when you need to understand
-  how calls flow across multiple files (not just a single file).
-- **Adding a feature**: call `suggest_insertion_points` before deciding where to add code —
-  it accounts for the dependency graph, not just filenames.
-- **Reading specs**: call `get_spec <domain>` before writing code in that domain;
-  use `search_specs` to find requirements by meaning when you don't know the domain name.
-- **Checking drift**: call `check_spec_drift` after modifying a file to verify it still
-  matches its spec — do not skip this step before opening a PR.
+**Follow this sequence for every task:**
 
-Use native tools (Read, Grep, Glob) only for cases not covered above.
+1. **`orient "<task description>"`** — always start here. Returns relevant functions, files, spec domains, call paths, and insertion points in one call.
+2. **If the task involves data models, APIs, or config** — call the relevant inventory tool:
+   `get_schema_inventory` · `get_route_inventory` · `get_env_vars` · `get_ui_components` · `get_middleware_inventory`
+3. **If debugging a call flow** ("how does X reach Y?") — `trace_execution_path`
+4. **Before modifying a function** — `get_subgraph` to understand blast radius
+5. **Before opening a PR** — `check_spec_drift`
+
+**On-demand** (when orient's results aren't enough):
+`search_code` · `suggest_insertion_points` · `get_spec <domain>` · `search_specs` · `analyze_impact` · `get_function_body` · `get_function_skeleton`
 ```
 
-`CODEBASE.md` gives the agent passive architectural context. `overview/spec.md` gives the functional domain map. The table tells it when the passive context isn't enough and an active MCP tool call is warranted.
+`CODEBASE.md` gives the agent passive architectural context. `overview/spec.md` gives the functional domain map. The workflow tells it exactly what to call and when, without requiring the agent to choose from a menu.
 
 > **Tip:** `spec-gen analyze` prints these snippets after every run as a reminder.
 
 > **Note:** `.spec-gen/analysis/` is git-ignored — each developer generates it locally. Re-run `spec-gen analyze` after significant structural changes to keep the digest current.
 
+**Mistral Vibe (Devstral)** — inject CODEBASE.md into Vibe's global context:
+
+> **Vibe shows "0 skills" after setup?** Check `~/.vibe/config.toml` — if `enabled_skills` is set to a pattern like `["SKILL-*"]` (the old naming format), it won't match the new `spec-gen-*` names. Change it to `["spec-gen-*"]` or `["*"]` to load all skills.
+
+1. Run `spec-gen analyze` to generate `.spec-gen/analysis/CODEBASE.md`
+2. Append it to `~/.vibe/prompts/spec-gen.md` so Devstral absorbs it at every session start:
+
+```bash
+cat .spec-gen/analysis/CODEBASE.md >> ~/.vibe/prompts/spec-gen.md
+```
+
+Or install the Vibe skill (creates a `/spec-gen` slash command in `.vibe/skills/spec-gen.md`):
+
+```bash
+spec-gen analyze --ai-configs   # creates .vibe/skills/spec-gen.md
+```
+
+Then invoke `/spec-gen` inside Vibe to get architecture context on demand.
+
 ---
 
 ## MCP Server
@@ -787,7 +871,7 @@ curl -sL https://raw.githubusercontent.com/clay-good/spec-gen/main/skills/opensp
 
 All tools run on **pure static analysis** -- no LLM quota consumed.
 
-**Analysis**
+**Run analysis**
 
 | Tool | Description | Requires prior analysis |
 |------|-------------|:---:|
@@ -796,30 +880,43 @@ All tools run on **pure static analysis** -- no LLM quota consumed.
 | `get_signatures` | Compact function/class signatures per file. Filter by path substring with `filePattern`. Useful for understanding a module's public API without reading full source. | Yes |
 | `get_duplicate_report` | Detect duplicate code: Type 1 (exact clones), Type 2 (structural -- renamed variables), Type 3 (near-clones with Jaccard similarity >= 0.7). Groups sorted by impact. | Yes |
 
-**Refactoring**
-
-| Tool | Description | Requires prior analysis |
-|------|-------------|:---:|
-| `get_refactor_report` | Prioritized list of functions with structural issues: unreachable code, hub overload (high fan-in), god functions (high fan-out), SRP violations, cyclic dependencies. | Yes |
-| `analyze_impact` | Deep impact analysis for a specific function: fan-in/fan-out, upstream call chain, downstream critical path, risk score (0-100), blast radius, and recommended strategy. | Yes |
-| `get_low_risk_refactor_candidates` | Safest functions to refactor first: low fan-in, low fan-out, not a hub, no cyclic involvement. Best starting point for incremental, low-risk sessions. | Yes |
-| `get_leaf_functions` | Functions that make no internal calls (leaves of the call graph). Zero downstream blast radius. Sorted by fan-in by default -- most-called leaves have the best unit-test ROI. | Yes |
-| `get_critical_hubs` | Highest-impact hub functions ranked by criticality. Each hub gets a stability score (0-100) and a recommended approach: extract, split, facade, or delegate. | Yes |
-| `get_god_functions` | Detect god functions (high fan-out, likely orchestrators) in the project or in a specific file, and return their call-graph neighborhood. Use this to identify which functions need to be refactored and understand what logical blocks to extract. | Yes |
-
-**Navigation**
+**Explore & Navigate**
 
 | Tool | Description | Requires prior analysis |
 |------|-------------|:---:|
 | `orient` | **Single entry point for any new task.** Given a natural-language task description, returns in one call: relevant functions, source files, spec domains, call neighbourhoods, insertion-point candidates, and matching spec sections. Start here. | Yes (+ embedding) |
+| `search_code` | Natural-language semantic search over indexed functions. Returns the closest matches by meaning with similarity score, call-graph neighbourhood enrichment, and spec-linked peer functions. Falls back to BM25 keyword search when no embedding server is configured. | Yes (+ embedding) |
+| `suggest_insertion_points` | Semantic search over the vector index to find the best existing functions to extend or hook into when implementing a new feature. Returns ranked candidates with role and strategy. Falls back to BM25 keyword search when no embedding server is configured. | Yes (+ embedding) |
 | `get_subgraph` | Depth-limited subgraph centred on a function. Direction: `downstream` (what it calls), `upstream` (who calls it), or `both`. Output as JSON or Mermaid diagram. | Yes |
-| `get_architecture_overview` | High-level cluster map: roles (entry layer, orchestrator, core utilities, API layer, internal), inter-cluster dependencies, global entry points, and critical hubs. No LLM required. | Yes |
-| `get_function_skeleton` | Noise-stripped view of a source file: logs, inline comments, and non-JSDoc block comments removed. Signatures, control flow, return/throw, and call expressions preserved. Returns reduction %. | No |
+| `trace_execution_path` | Find all call-graph paths between two functions (DFS, configurable depth/max-paths). Use this when debugging: "how does request X reach function Y?" Returns shortest path, all paths sorted by hops, and a step-by-step chain per path. | Yes |
 | `get_function_body` | Return the exact source code of a named function in a file. | No |
+| `get_function_skeleton` | Noise-stripped view of a source file: logs, inline comments, and non-JSDoc block comments removed. Signatures, control flow, return/throw, and call expressions preserved. Returns reduction %. | No |
 | `get_file_dependencies` | Return the file-level import dependencies for a given source file (imports, imported-by, or both). | Yes |
-| `trace_execution_path` | Find all call-graph paths between two functions (DFS, configurable depth/max-paths). Use this when debugging: "how does request X reach function Y?" Returns shortest path, all paths sorted by hops, and a step-by-step chain per path. | Yes |
-| `suggest_insertion_points` | Semantic search over the vector index to find the best existing functions to extend or hook into when implementing a new feature. Returns ranked candidates with role and strategy. Falls back to BM25 keyword search when no embedding server is configured. | Yes (+ embedding) |
-| `search_code` | Natural-language semantic search over indexed functions. Returns the closest matches by meaning with similarity score, call-graph neighbourhood enrichment, and spec-linked peer functions. Falls back to BM25 keyword search when no embedding server is configured. | Yes (+ embedding) |
+| `get_architecture_overview` | High-level cluster map: roles (entry layer, orchestrator, core utilities, API layer, internal), inter-cluster dependencies, global entry points, and critical hubs. No LLM required. | Yes |
+| `get_signatures` | Compact function/class signatures per file. Filter by path substring with `filePattern`. Useful for understanding a module's public API without reading full source. | Yes |
+
+**Stack inventory**
+
+| Tool | Description | Requires prior analysis |
+|------|-------------|:---:|
+| `get_route_inventory` | All detected HTTP routes with method, path, handler, and framework. Supports Express, NestJS, Next.js, FastAPI, Flask, and more. | Yes |
+| `get_schema_inventory` | ORM schema tables with field names and types. Supports Prisma, TypeORM, Drizzle, and SQLAlchemy. | Yes |
+| `get_ui_components` | Detected UI components with framework, props, and source file. Supports React, Vue, Svelte, and Angular. | Yes |
+| `get_env_vars` | Env vars referenced in source code with `required` (no fallback) and `hasDefault` flags. Supports JS/TS, Python, Go, and Ruby. | Yes |
+| `get_middleware_inventory` | Detected middleware with type (auth/cors/rate-limit/validation/logging/error-handler) and framework. | Yes |
+
+**Code quality**
+
+| Tool | Description | Requires prior analysis |
+|------|-------------|:---:|
+| `get_call_graph` | Hub functions (high fan-in), entry points (no internal callers), and architectural layer violations. Supports TypeScript, JavaScript, Python, Go, Rust, Ruby, Java, C++. | Yes |
+| `get_refactor_report` | Prioritized list of functions with structural issues: unreachable code, hub overload (high fan-in), god functions (high fan-out), SRP violations, cyclic dependencies. | Yes |
+| `get_critical_hubs` | Highest-impact hub functions ranked by criticality. Each hub gets a stability score (0-100) and a recommended approach: extract, split, facade, or delegate. | Yes |
+| `get_god_functions` | Detect god functions (high fan-out, likely orchestrators) in the project or in a specific file, and return their call-graph neighborhood. Use this to identify which functions need to be refactored and understand what logical blocks to extract. | Yes |
+| `analyze_impact` | Deep impact analysis for a specific function: fan-in/fan-out, upstream call chain, downstream critical path, risk score (0-100), blast radius, and recommended strategy. | Yes |
+| `get_low_risk_refactor_candidates` | Safest functions to refactor first: low fan-in, low fan-out, not a hub, no cyclic involvement. Best starting point for incremental, low-risk sessions. | Yes |
+| `get_leaf_functions` | Functions that make no internal calls (leaves of the call graph). Zero downstream blast radius. Sorted by fan-in by default -- most-called leaves have the best unit-test ROI. | Yes |
+| `get_duplicate_report` | Detect duplicate code: Type 1 (exact clones), Type 2 (structural -- renamed variables), Type 3 (near-clones with Jaccard similarity >= 0.7). Groups sorted by impact. | Yes |
 
 **Specs**
 
@@ -831,8 +928,14 @@ All tools run on **pure static analysis** -- no LLM quota consumed.
 | `check_spec_drift` | Detect code changes not reflected in OpenSpec specs. Compares git-changed files against spec coverage maps. Issues: gap / stale / uncovered / orphaned-spec / adr-gap. | Yes (generate) |
 | `search_specs` | Semantic search over OpenSpec specifications to find requirements, design notes, and architecture decisions by meaning. Returns linked source files for graph highlighting. Use this when asked "which spec covers X?" or "where should we implement Z?". Requires a spec index built with `spec-gen analyze` or `--reindex-specs`. | Yes (generate) |
 | `list_spec_domains` | List all OpenSpec domains available in this project. Use this to discover what domains exist before doing a targeted `search_specs` call. | Yes (generate) |
-| `generate_change_proposal` | Given a story/task description, chains `orient` + `search_specs` + `analyze_impact` to produce a structured change proposal at `openspec/changes/{slug}/proposal.md` with affected domains, risk scores, and insertion points. | Yes |
-| `annotate_story` | Reads a story/task markdown file, runs structural analysis, and patches a `## Risk Context` section in-place with domains, risk scores, blocking refactors, and insertion points. | Yes |
+| `audit_spec_coverage` | Parity audit: uncovered functions (in call graph, no spec), hub gaps (high fan-in + no spec), orphan requirements (spec with no implementation found), and stale domains (source changed after spec). Run before starting a feature to understand coverage health. No LLM required. | Yes (analyze) |
+
+**Story Management**
+
+| Tool | Description | Requires prior analysis |
+|------|-------------|:---:|
+| `generate_change_proposal` | Generate a structured change proposal for a feature: affected functions, risk score, insertion points, spec impact, and a ready-to-use story file. Use during sprint planning or before implementing a non-trivial change. | Yes |
+| `annotate_story` | Annotate an existing story file with structural context: risk score, affected functions, recommended insertion point, and spec domain links. Prepares a story for the dev agent so it can skip the orientation step. | Yes |
 
 ### Parameters
 
@@ -1063,16 +1166,30 @@ description    string   Natural-language summary of the story for structural ana
 3. check_spec_drift({ directory })                    # verify after implementation
 ```
 
-**Scenario E -- Agentic workflow (risk-gated implementation)**
+**Scenario E -- Coverage audit before implementing**
 ```
-1. generate_change_proposal({ directory, description, slug })  # proposal.md with risk + domains
-2. annotate_story({ directory, storyFilePath, description })   # patch story with risk_context
-3. orient({ directory, task: "..." })                          # scope functions + insertion points
-4. analyze_impact({ directory, symbol: "topFunction" })        # confirm risk before coding
-5. check_spec_drift({ directory })                             # verify after implementation
+1. audit_spec_coverage({ directory })
+   # Before writing code: surfaces stale domains, uncovered hub functions,
+   # orphan requirements. 0 LLM calls, ~200ms.
+2. If staleDomains includes your target: spec-gen generate --domains $DOMAIN
+3. If hubGaps includes a function you'll touch: flag it in your risk check
 ```
 
-See [docs/agentic-workflows/](docs/agentic-workflows/) for full integration patterns with BMAD, Mistral Vibe, spec-kit, and Claude Code.
+---
+
+## Agentic Workflows
+
+spec-gen integrates with structured agentic workflows so AI agents follow a consistent process: orient → risk check → spec check → implement → drift verify.
+
+| Integration | Description | Location |
+|-------------|-------------|----------|
+| **BMAD** | Brownfield agent workflow with architect + dev agents. Architect annotates stories with risk context at planning time; dev agent uses it to skip orientation on low-risk stories. | `examples/bmad/` |
+| **Mistral Vibe** | Skills for Mistral-powered agents (brainstorm, implement story, debug, plan/execute refactor). Includes small-model constraints (≤50-line edits). | `examples/mistral-vibe/` |
+| **GSD** | Minimal slash commands for `spec-gen orient` and `spec-gen drift` — drop into any agent that supports custom commands. | `examples/gsd/` |
+| **spec-kit** | Extension layer adding structural risk analysis to any existing agent setup. | `examples/spec-kit/` |
+| **Cline** | Workflow markdown files for Cline / Roo Code / Kilocode. Copy to `.clinerules/workflows/`. | `examples/cline-workflows/` |
+
+Each integration ships with a README explaining setup and the step-by-step workflow.
 
 ## Interactive Graph Viewer
 
@@ -1195,6 +1312,8 @@ Static analysis output is stored in `.spec-gen/analysis/`:
 | `call-graph.json` | Function-level call graph (8 languages: TS/JS, Python, Go, Rust, Ruby, Java, C++, Swift) |
 | `refactor-priorities.json` | Refactoring issues by file and function |
 | `mapping.json` | Requirement->function mapping (produced by `generate`) |
+| `spec-snapshot.json` | Compact coverage summary: git state, per-domain coverage %, uncovered hub functions (auto-updated after `analyze` and `generate`) |
+| `audit-report.json` | Latest parity audit report (produced by `spec-gen audit`) |
 | `vector-index/` | LanceDB semantic index (produced by `--embed`) |
 
 `spec-gen analyze` also writes **`ARCHITECTURE.md`** to your project root -- a Markdown overview of module clusters, entry points, and critical hubs, refreshed on every run.
@@ -1292,7 +1411,7 @@ The index is stored in `.spec-gen/analysis/vector-index/` and is automatically u
   export OPENAI_COMPAT_API_KEY=ollama       # OpenAI-compatible local server
   export GEMINI_API_KEY=...                 # Google Gemini
   ```
-  Or use a CLI-based provider (`claude-code`, `gemini-cli`, `mistral-vibe`) which requires no API key — just the CLI tool on your PATH.
+  Or use a CLI-based provider (`claude-code`, `gemini-cli`, `mistral-vibe`, `cursor-agent`) which requires no API key — just the CLI tool on your PATH.
 - `analyze`, `drift`, and `init` require no API key
 
 ## Supported Languages
@@ -1369,6 +1488,7 @@ console.log(`Analyzed ${analysis.repoMap.summary.analyzedFiles} files`);
 | `specGenVerify(options?)` | Verify spec accuracy | Yes |
 | `specGenDrift(options?)` | Detect spec-to-code drift | No* |
 | `specGenRun(options?)` | Full pipeline: init + analyze + generate | Yes |
+| `specGenAudit(options?)` | Parity audit: uncovered functions, hub gaps, orphan requirements, stale domains | No |
 | `specGenGetSpecRequirements(options?)` | Read requirement blocks from generated specs | No |
 
 \* `specGenDrift` requires an API key only when `llmEnhanced: true`.
@@ -1425,11 +1545,11 @@ for (const [key, req] of Object.entries(requirements)) {
 npm install          # Install dependencies
 npm run dev          # Development mode (watch)
 npm run build        # Build
-npm run test:run     # Run tests (2200+ unit tests)
+npm run test:run     # Run tests (2300+ unit tests)
 npm run typecheck    # Type check
 ```
 
-2200+ unit tests covering static analysis, call graph (including Swift), refactor analysis, spec mapping, drift detection, LLM enhancement, ADR generation, MCP handlers, change proposals, cross-file edge synthesis, and the full CLI.
+2300+ unit tests covering static analysis, call graph (including Swift), refactor analysis, spec mapping, drift detection, LLM enhancement, ADR generation, MCP handlers, change proposals, cross-file edge synthesis, and the full CLI.
 
 ## Links
 

package/dist/api/analyze.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"analyze.d.ts","sourceRoot":"","sources":["../../src/api/analyze.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAaH,OAAO,KAAK,EAAE,iBAAiB,EAAE,aAAa,EAAoB,MAAM,YAAY,CAAC;AAiCrF;;;;;;;GAOG;AACH,wBAAsB,cAAc,CAAC,OAAO,GAAE,iBAAsB,GAAG,OAAO,CAAC,aAAa,CAAC,CA4H5F"}
+{"version":3,"file":"analyze.d.ts","sourceRoot":"","sources":["../../src/api/analyze.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAaH,OAAO,KAAK,EAAE,iBAAiB,EAAE,aAAa,EAAoB,MAAM,YAAY,CAAC;AAkCrF;;;;;;;GAOG;AACH,wBAAsB,cAAc,CAAC,OAAO,GAAE,iBAAsB,GAAG,OAAO,CAAC,aAAa,CAAC,CAiI5F"}

package/dist/api/analyze.js

@@ -6,12 +6,13 @@
  */
 import { join } from 'node:path';
 import { readFile, stat, mkdir, writeFile } from 'node:fs/promises';
-import { ANALYSIS_STALE_THRESHOLD_MS, DEFAULT_MAX_FILES, SPEC_GEN_ANALYSIS_REL_PATH, ARTIFACT_REPO_STRUCTURE, ARTIFACT_DEPENDENCY_GRAPH, ARTIFACT_LLM_CONTEXT } from '../constants.js';
+import { ANALYSIS_STALE_THRESHOLD_MS, DEFAULT_MAX_FILES, SPEC_GEN_ANALYSIS_REL_PATH, ARTIFACT_REPO_STRUCTURE, ARTIFACT_DEPENDENCY_GRAPH, ARTIFACT_LLM_CONTEXT, OPENSPEC_DIR } from '../constants.js';
 import { fileExists, readJsonFile } from '../utils/command-helpers.js';
 import { readSpecGenConfig } from '../core/services/config-manager.js';
 import { RepositoryMapper } from '../core/analyzer/repository-mapper.js';
 import { DependencyGraphBuilder, } from '../core/analyzer/dependency-graph.js';
 import { AnalysisArtifactGenerator, repoStructureToRepoMap } from '../core/analyzer/artifact-generator.js';
+import { SpecSnapshotGenerator } from '../core/analyzer/spec-snapshot-generator.js';
 function progress(onProgress, step, status, detail) {
     onProgress?.({ phase: 'analyze', step, status, detail });
 }
@@ -132,6 +133,10 @@ export async function specGenAnalyze(options = {}) {
     // Save dependency graph
     await writeFile(join(outputPath, ARTIFACT_DEPENDENCY_GRAPH), JSON.stringify(depGraph, null, 2));
     progress(onProgress, 'Generating analysis artifacts', 'complete');
+    // Generate spec snapshot (non-fatal — snapshot is a derived artifact)
+    const openspecRelPath = specGenConfig.openspecPath ?? OPENSPEC_DIR;
+    const snapshotGenerator = new SpecSnapshotGenerator(rootPath, openspecRelPath);
+    await snapshotGenerator.generate().catch(() => { });
     const duration = Date.now() - startTime;
     return { repoMap, depGraph, artifacts, duration };
 }

package/dist/api/analyze.js.map

@@ -1 +1 @@
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package/dist/api/audit.d.ts

@@ -0,0 +1,10 @@
+/**
+ * spec-gen audit — programmatic API
+ *
+ * Compares current codebase state to the spec snapshot to report coverage gaps.
+ * No LLM required.
+ */
+import type { AuditReport } from '../types/index.js';
+import type { AuditApiOptions } from './types.js';
+export declare function specGenAudit(options?: AuditApiOptions): Promise<AuditReport>;
+//# sourceMappingURL=audit.d.ts.map

package/dist/api/audit.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"audit.d.ts","sourceRoot":"","sources":["../../src/api/audit.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAcH,OAAO,KAAK,EACV,WAAW,EAIZ,MAAM,mBAAmB,CAAC;AAC3B,OAAO,KAAK,EAAE,eAAe,EAAE,MAAM,YAAY,CAAC;AA4ClD,wBAAsB,YAAY,CAAC,OAAO,GAAE,eAAoB,GAAG,OAAO,CAAC,WAAW,CAAC,CAmFtF"}

package/dist/api/audit.js

@@ -0,0 +1,117 @@
+/**
+ * spec-gen audit — programmatic API
+ *
+ * Compares current codebase state to the spec snapshot to report coverage gaps.
+ * No LLM required.
+ */
+import { join } from 'node:path';
+import { readFile, writeFile } from 'node:fs/promises';
+import { readSpecGenConfig } from '../core/services/config-manager.js';
+import { SpecSnapshotGenerator } from '../core/analyzer/spec-snapshot-generator.js';
+import { SPEC_GEN_DIR, SPEC_GEN_ANALYSIS_SUBDIR, ARTIFACT_LLM_CONTEXT, ARTIFACT_MAPPING, ARTIFACT_AUDIT_REPORT, OPENSPEC_DIR, } from '../constants.js';
+const DEFAULT_MAX_UNCOVERED = 50;
+const DEFAULT_HUB_THRESHOLD = 5;
+// ============================================================================
+// HELPERS
+// ============================================================================
+function buildCoveredSet(mapping) {
+    const covered = new Set();
+    for (const m of mapping.mappings) {
+        for (const fn of m.functions) {
+            if (fn.name && fn.name !== '*') {
+                covered.add(`${fn.file}::${fn.name}`);
+                covered.add(fn.name);
+            }
+        }
+    }
+    return covered;
+}
+function isNodeCovered(node, covered) {
+    return covered.has(`${node.filePath}::${node.name}`) || covered.has(node.name);
+}
+function toAuditFunction(node, isHub) {
+    return {
+        name: node.name,
+        file: node.filePath,
+        kind: node.className ? 'method' : 'function',
+        fanIn: node.fanIn,
+        fanOut: node.fanOut,
+        isHub,
+    };
+}
+// ============================================================================
+// PUBLIC API
+// ============================================================================
+export async function specGenAudit(options = {}) {
+    const rootPath = options.rootPath ?? process.cwd();
+    const maxUncovered = options.maxUncovered ?? DEFAULT_MAX_UNCOVERED;
+    const hubThreshold = options.hubThreshold ?? DEFAULT_HUB_THRESHOLD;
+    const shouldSave = options.save ?? true;
+    const analysisDir = join(rootPath, SPEC_GEN_DIR, SPEC_GEN_ANALYSIS_SUBDIR);
+    // Load (or refresh) snapshot
+    const specGenConfig = await readSpecGenConfig(rootPath);
+    const openspecRelPath = specGenConfig?.openspecPath ?? OPENSPEC_DIR;
+    const snapshotGen = new SpecSnapshotGenerator(rootPath, openspecRelPath);
+    const snapshot = await snapshotGen.generate().catch(() => null);
+    // Load raw artifacts for deep analysis
+    const [llmContextRaw, mappingRaw] = await Promise.all([
+        readFile(join(analysisDir, ARTIFACT_LLM_CONTEXT), 'utf-8').catch(() => null),
+        readFile(join(analysisDir, ARTIFACT_MAPPING), 'utf-8').catch(() => null),
+    ]);
+    const llmContext = llmContextRaw ? JSON.parse(llmContextRaw) : null;
+    const mapping = mappingRaw ? JSON.parse(mappingRaw) : null;
+    const callGraph = llmContext?.callGraph;
+    const allNodes = callGraph?.nodes ?? [];
+    const hubNodes = new Set((callGraph?.hubFunctions ?? []).map(n => n.id));
+    // Build coverage set
+    const covered = mapping ? buildCoveredSet(mapping) : new Set();
+    // 1. Uncovered functions
+    const uncoveredNodes = allNodes.filter(n => !isNodeCovered(n, covered));
+    const uncoveredFunctions = uncoveredNodes
+        .slice(0, maxUncovered)
+        .map(n => toAuditFunction(n, hubNodes.has(n.id) || n.fanIn >= hubThreshold));
+    // 2. Hub gaps (hubs with no spec coverage)
+    const hubGaps = allNodes
+        .filter(n => (hubNodes.has(n.id) || n.fanIn >= hubThreshold) && !isNodeCovered(n, covered))
+        .map(n => toAuditFunction(n, true));
+    // 3. Orphan requirements (requirements in mapping with no matched function)
+    const orphanRequirements = mapping
+        ? mapping.mappings
+            .filter(m => m.functions.length === 0 || m.functions.every(f => f.name === '*'))
+            .map(m => ({ requirement: m.requirement, domain: m.domain, specFile: m.specFile }))
+        : [];
+    // 4. Stale domains (source files modified after spec)
+    const staleDomains = snapshot
+        ? snapshot.domains
+            .filter(d => d.sourcesModifiedAt > d.specModifiedAt)
+            .map(d => ({
+            name: d.name,
+            specFile: d.specFile,
+            specModifiedAt: d.specModifiedAt,
+            sourcesModifiedAt: d.sourcesModifiedAt,
+            staleSince: d.sourcesModifiedAt,
+        }))
+        : [];
+    const coveredCount = allNodes.length - uncoveredNodes.length;
+    const report = {
+        generatedAt: new Date().toISOString(),
+        summary: {
+            totalFunctions: allNodes.length,
+            coveredFunctions: coveredCount,
+            coveragePct: allNodes.length > 0 ? Math.round((coveredCount / allNodes.length) * 100) : 0,
+            uncoveredCount: uncoveredNodes.length,
+            hubGapCount: hubGaps.length,
+            orphanRequirementCount: orphanRequirements.length,
+            staleDomainCount: staleDomains.length,
+        },
+        uncoveredFunctions,
+        hubGaps,
+        orphanRequirements,
+        staleDomains,
+    };
+    if (shouldSave) {
+        await writeFile(join(analysisDir, ARTIFACT_AUDIT_REPORT), JSON.stringify(report, null, 2));
+    }
+    return report;
+}
+//# sourceMappingURL=audit.js.map

package/dist/api/audit.js.map

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package/dist/api/generate.d.ts.map

@@ -1 +1 @@
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