@lbruton/specflow 3.2.1 → 3.4.0

package/README.md

@@ -117,20 +117,109 @@ Code Context is a [hardened fork](https://github.com/lbruton/claude-context) of
 | Self-hosted | Files | Files | Files | Files | Files | Node.js | **Milvus, Neo4j + cloud optional** |
 | Best for | Quick adoption | Enterprise teams | Solo context eng. | PRD pipelines | Per-repo memory | Structured workflow | **Multi-project governance** |
 
+## Multi-Agent Support
+
+SpecFlow works as an MCP server, which means any agent that speaks the MCP protocol can use it. Verified with all three major coding agents:
+
+| Agent | MCP Loading | Spec Lifecycle | Skills |
+|-------|------------|----------------|--------|
+| **Claude Code** | MCP via npm, plugin via git clone | Full | 60+ skills via SKILL.md |
+| **Gemini CLI** | Manual MCP config | Full | Via GEMINI.md instructions |
+| **Codex CLI** | Manual MCP config | Full | Via CODEX.md instructions |
+
+All three agents share the same MCP tools, DocVault knowledge base, and spec workflow. Agent-specific instruction files (CLAUDE.md, GEMINI.md, CODEX.md) tailor behavior to each agent's capabilities.
+
+### Cross-Agent Spec Handoff
+
+Spec state lives on disk in `.spec-workflow/specs/` — not in any agent's memory. This means you can start a spec in one agent and continue in another:
+
+```
+Claude Code                    Codex CLI                      Gemini CLI
+────────────                   ─────────                      ──────────
+/issue create                  @spec resume                   @spec resume
+  → creates SWF-65               → reads spec from disk         → reads spec from disk
+/discover SWF-65                 → runs Phase 3 (Tasks)          → runs Phase 4 (Implement)
+  → discovery brief               → generates task list            → implements tasks
+/spec SWF-65                     → writes tasks.md                → commits code
+  → Phase 1 (Requirements)      → awaits approval                → logs implementation
+  → Phase 2 (Design)
+  → awaits approval
+```
+
+Each agent reads the current spec state, advances the workflow, and writes the result back to disk. The dashboard shows progress regardless of which agent is driving. Use whichever agent is best suited for each phase — Claude for discovery and design, Codex for implementation, Gemini for review.
+
 ## Quick Start
 
-### As a Claude Code Plugin (recommended)
+### Claude Code
+
+**Step 1 — Install the MCP server** (provides tools and prompts):
+
+Add to your user-level settings (`~/.claude/settings.json`):
+
+```json
+{
+  "mcpServers": {
+    "specflow": {
+      "command": "npx",
+      "args": ["-y", "@lbruton/specflow@latest", "."]
+    }
+  }
+}
+```
+
+**Step 2 — Install the plugin** (optional — provides skills and slash commands):
+
+```bash
+git clone https://github.com/lbruton/specflow.git
+cp -r specflow/plugin/ ~/.claude/plugins/marketplaces/specflow-marketplace/
+```
+
+Skills like `/prime`, `/wrap`, `/spec` are available immediately after restarting Claude Code.
+
+> **Note:** The plugin provides skills and commands only — it does not start the MCP server. The MCP server must be installed separately via Step 1.
+
+### Gemini CLI — Manual Install
 
 ```bash
 git clone https://github.com/lbruton/specflow.git
 cd specflow
 npm install && npm run build
+```
+
+Add to your Gemini MCP config (`~/.gemini/settings.json` or project-level):
 
-# Symlink into Claude Code plugins
-ln -s "$(pwd)" ~/.claude/plugins/marketplaces/specflow-marketplace
+```json
+{
+  "mcpServers": {
+    "spec-workflow": {
+      "command": "node",
+      "args": ["/path/to/specflow/dist/index.js", "/path/to/your/project"]
+    }
+  }
+}
 ```
 
-### As an MCP Server
+Copy `GEMINI.md` from the specflow repo root into your project root for agent-specific instructions.
+
+### Codex CLI — Manual Install
+
+```bash
+git clone https://github.com/lbruton/specflow.git
+cd specflow
+npm install && npm run build
+```
+
+Add to your Codex MCP config (`.codex/config.toml` or user-level):
+
+```toml
+[mcp.spec-workflow]
+command = "node"
+args = ["/path/to/specflow/dist/index.js", "/path/to/your/project"]
+```
+
+Copy `CODEX.md` from the specflow repo root into your project root for agent-specific instructions.
+
+### Any MCP-Compatible Agent — Via npx
 
 ```json
 {

package/dist/core/__tests__/project-registry.test.js

@@ -1,6 +1,6 @@
 import { describe, it, expect, beforeEach, afterEach } from 'vitest';
 import { promises as fs } from 'fs';
-import { join } from 'path';
+import { join, resolve } from 'path';
 import { tmpdir } from 'os';
 import { ProjectRegistry, generateProjectId } from '../project-registry.js';
 import { SPEC_WORKFLOW_HOME_ENV } from '../global-dir.js';
@@ -28,16 +28,16 @@ describe('ProjectRegistry worktree identity', () => {
         const projectId = await registry.registerProject(workspacePath, process.pid, { workflowRootPath });
         const entry = await registry.getProjectById(projectId);
         expect(entry).not.toBeNull();
-        expect(entry?.projectPath).toBe(workspacePath);
-        expect(entry?.workflowRootPath).toBe(workflowRootPath);
-        expect(entry?.projectName).toBe('my-repo · feature-auth');
+        expect(entry?.projectPath).toBe(resolve(workflowRootPath));
+        expect(entry?.workflowRootPath).toBe(resolve(workflowRootPath));
+        expect(entry?.projectName).toBe('my-repo');
     });
-    it('generates different project IDs for different worktrees of same repo', async () => {
+    it('generates same project ID for different worktrees of same repo', async () => {
         const registry = new ProjectRegistry();
         const workflowRootPath = '/tmp/my-repo';
         const projectIdA = await registry.registerProject('/tmp/worktrees/feature-a', process.pid, { workflowRootPath });
-        const projectIdB = await registry.registerProject('/tmp/worktrees/feature-b', process.pid, { workflowRootPath });
-        expect(projectIdA).not.toBe(projectIdB);
+        const projectIdB = await registry.registerProject('/tmp/worktrees/feature-b', process.pid + 1, { workflowRootPath });
+        expect(projectIdA).toBe(projectIdB);
     });
     it('normalizes legacy entries without workflowRootPath', async () => {
         const workspacePath = '/tmp/my-repo';
@@ -55,8 +55,139 @@ describe('ProjectRegistry worktree identity', () => {
         const registry = new ProjectRegistry();
         const projects = await registry.getAllProjects();
         expect(projects).toHaveLength(1);
-        expect(projects[0].workflowRootPath).toBe(workspacePath);
-        expect(projects[0].projectPath).toBe(workspacePath);
+        expect(projects[0].workflowRootPath).toBe(resolve(workspacePath));
+        expect(projects[0].projectPath).toBe(resolve(workspacePath));
+    });
+    it('worktree registration merges into parent entry', async () => {
+        const registry = new ProjectRegistry();
+        const workflowRootPath = '/tmp/my-repo';
+        const worktreePath = '/tmp/worktrees/feature-x';
+        // Register main repo first
+        const mainId = await registry.registerProject(workflowRootPath, process.pid, { workflowRootPath });
+        // Register a worktree with the same workflowRootPath
+        const wtId = await registry.registerProject(worktreePath, process.pid + 1, { workflowRootPath });
+        expect(mainId).toBe(wtId);
+        const projects = await registry.getAllProjects();
+        expect(projects).toHaveLength(1);
+        const entry = await registry.getProjectById(mainId);
+        expect(entry).not.toBeNull();
+        expect(entry.worktrees).toContain(resolve(worktreePath));
+    });
+    it('multiple worktrees share one entry', async () => {
+        const registry = new ProjectRegistry();
+        const workflowRootPath = '/tmp/my-repo';
+        const wt1 = '/tmp/worktrees/feat-a';
+        const wt2 = '/tmp/worktrees/feat-b';
+        const wt3 = '/tmp/worktrees/feat-c';
+        const id1 = await registry.registerProject(wt1, process.pid, { workflowRootPath });
+        const id2 = await registry.registerProject(wt2, process.pid + 1, { workflowRootPath });
+        const id3 = await registry.registerProject(wt3, process.pid + 2, { workflowRootPath });
+        expect(id1).toBe(id2);
+        expect(id2).toBe(id3);
+        const projects = await registry.getAllProjects();
+        expect(projects).toHaveLength(1);
+        const entry = projects[0];
+        expect(entry.worktrees).toContain(resolve(wt1));
+        expect(entry.worktrees).toContain(resolve(wt2));
+        expect(entry.worktrees).toContain(resolve(wt3));
+    });
+    it('migration deduplicates existing registry entries', async () => {
+        const registryPath = join(tempDir, 'activeProjects.json');
+        const workflowRootPath = '/tmp/my-repo';
+        const resolvedRoot = resolve(workflowRootPath);
+        // Two entries with DIFFERENT projectIds but the SAME workflowRootPath
+        // Simulates legacy registry where worktrees were keyed by their own path
+        const legacyId1 = generateProjectId('/tmp/worktrees/feat-a');
+        const legacyId2 = generateProjectId('/tmp/worktrees/feat-b');
+        const legacyData = {
+            [legacyId1]: {
+                projectId: legacyId1,
+                projectPath: '/tmp/worktrees/feat-a',
+                workflowRootPath,
+                projectName: 'my-repo · feat-a',
+                instances: [{ pid: 99990, registeredAt: new Date().toISOString() }],
+                worktrees: ['/tmp/worktrees/feat-a']
+            },
+            [legacyId2]: {
+                projectId: legacyId2,
+                projectPath: '/tmp/worktrees/feat-b',
+                workflowRootPath,
+                projectName: 'my-repo · feat-b',
+                instances: [{ pid: 99991, registeredAt: new Date().toISOString() }],
+                worktrees: ['/tmp/worktrees/feat-b']
+            }
+        };
+        await fs.writeFile(registryPath, JSON.stringify(legacyData, null, 2), 'utf-8');
+        const registry = new ProjectRegistry();
+        // cleanupStaleProjects triggers migrateDeduplicateEntries internally
+        await registry.cleanupStaleProjects();
+        const projects = await registry.getAllProjects();
+        expect(projects).toHaveLength(1);
+        const entry = projects[0];
+        expect(entry.projectId).toBe(generateProjectId(resolvedRoot));
+        expect(entry.workflowRootPath).toBe(resolvedRoot);
+        expect(entry.projectName).toBe('my-repo');
+    });
+    it('legacy entries without worktrees field default to empty array', async () => {
+        const registryPath = join(tempDir, 'activeProjects.json');
+        const workspacePath = '/tmp/my-repo';
+        const projectId = generateProjectId(workspacePath);
+        const legacyData = {
+            [projectId]: {
+                projectId,
+                projectPath: workspacePath,
+                workflowRootPath: workspacePath,
+                projectName: 'my-repo',
+                instances: [{ pid: process.pid, registeredAt: new Date().toISOString() }]
+                // No worktrees field
+            }
+        };
+        await fs.writeFile(registryPath, JSON.stringify(legacyData, null, 2), 'utf-8');
+        const registry = new ProjectRegistry();
+        const entry = await registry.getProjectById(projectId);
+        expect(entry).not.toBeNull();
+        expect(entry.worktrees).toEqual([]);
+    });
+    it('unregistering a worktree removes it from worktrees array', async () => {
+        const registry = new ProjectRegistry();
+        const workflowRootPath = '/tmp/my-repo';
+        const worktreePath = '/tmp/worktrees/feat-x';
+        const mainPid = process.pid;
+        const wtPid = process.pid + 1;
+        // Register main + worktree
+        await registry.registerProject(workflowRootPath, mainPid, { workflowRootPath });
+        await registry.registerProject(worktreePath, wtPid, { workflowRootPath });
+        // Verify worktree is tracked
+        let entry = await registry.getProject(workflowRootPath);
+        expect(entry.worktrees).toContain(resolve(worktreePath));
+        // Unregister the worktree by its path and PID
+        await registry.unregisterProject(worktreePath, wtPid);
+        // Project should still exist (main PID alive) but worktree path removed
+        entry = await registry.getProject(workflowRootPath);
+        expect(entry).not.toBeNull();
+        expect(entry.worktrees).not.toContain(resolve(worktreePath));
+    });
+    it('getProject finds project via worktree path', async () => {
+        const registry = new ProjectRegistry();
+        const workflowRootPath = '/tmp/my-repo';
+        const worktreePath = '/tmp/worktrees/feat-y';
+        await registry.registerProject(worktreePath, process.pid, { workflowRootPath });
+        // Look up by worktree path — should return the parent project
+        const entry = await registry.getProject(worktreePath);
+        expect(entry).not.toBeNull();
+        expect(entry.workflowRootPath).toBe(resolve(workflowRootPath));
+        expect(entry.worktrees).toContain(resolve(worktreePath));
+    });
+    it('isProjectRegistered returns true for worktree path', async () => {
+        const registry = new ProjectRegistry();
+        const workflowRootPath = '/tmp/my-repo';
+        const worktreePath = '/tmp/worktrees/feat-z';
+        await registry.registerProject(worktreePath, process.pid, { workflowRootPath });
+        // Both the root and the worktree path should be recognized
+        expect(await registry.isProjectRegistered(workflowRootPath)).toBe(true);
+        expect(await registry.isProjectRegistered(worktreePath)).toBe(true);
+        // An unrelated path should not
+        expect(await registry.isProjectRegistered('/tmp/other-repo')).toBe(false);
     });
 });
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package/dist/core/project-registry.d.ts

@@ -8,6 +8,7 @@ export interface ProjectRegistryEntry {
     workflowRootPath: string;
     projectName: string;
     instances: ProjectInstance[];
+    worktrees: string[];
 }
 export interface RegisterProjectOptions {
     workflowRootPath?: string;
@@ -82,6 +83,12 @@ export declare class ProjectRegistry {
      * Get a specific project by projectId
      */
     getProjectById(projectId: string): Promise<ProjectRegistryEntry | null>;
+    /**
+     * Migrate legacy registry entries that were created before worktree-aware keying.
+     * Groups entries by workflowRootPath and merges duplicates into a single canonical entry.
+     * Idempotent — returns false if no changes were made.
+     */
+    private migrateDeduplicateEntries;
     /**
      * Clean up stale instances (where the process is no longer running)
      * Projects with no live instances are removed entirely

package/dist/core/project-registry.d.ts.map

@@ -1 +1 @@
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package/dist/core/project-registry.js

@@ -83,7 +83,8 @@ export class ProjectRegistry {
                     projectPath: normalizedProjectPath,
                     workflowRootPath: normalizedWorkflowRootPath,
                     projectName: entry.projectName || generateProjectDisplayName(normalizedProjectPath, normalizedWorkflowRootPath),
-                    instances: Array.isArray(entry.instances) ? entry.instances : []
+                    instances: Array.isArray(entry.instances) ? entry.instances : [],
+                    worktrees: Array.isArray(entry.worktrees) ? entry.worktrees : []
                 });
             }
             return registry;
@@ -166,14 +167,14 @@ export class ProjectRegistry {
      */
     async registerProject(projectPath, pid, options = {}) {
         const workspacePath = resolve(projectPath);
+        const workflowRootPath = resolve(options.workflowRootPath || projectPath);
         // Skip registration for paths outside configured project root(s)
-        if (!this.isUnderProjectRoot(workspacePath)) {
-            return generateProjectId(workspacePath);
+        if (!this.isUnderProjectRoot(workflowRootPath)) {
+            return generateProjectId(workflowRootPath);
         }
         const registry = await this.readRegistry();
-        const workflowRootPath = resolve(options.workflowRootPath || projectPath);
-        const projectId = generateProjectId(workspacePath);
-        const projectName = options.projectName || generateProjectDisplayName(workspacePath, workflowRootPath);
+        const projectId = generateProjectId(workflowRootPath);
+        const projectName = options.projectName || basename(workflowRootPath);
         const existing = registry.get(projectId);
         if (existing) {
             // Self-healing: Filter out dead PIDs
@@ -182,8 +183,12 @@ export class ProjectRegistry {
             if (!liveInstances.some(i => i.pid === pid)) {
                 liveInstances.push({ pid, registeredAt: new Date().toISOString() });
             }
+            // Track worktree paths (deduped)
+            if (workspacePath !== workflowRootPath && !existing.worktrees.includes(workspacePath)) {
+                existing.worktrees.push(workspacePath);
+            }
             // Update with live instances (no limit on number of instances)
-            existing.projectPath = workspacePath;
+            existing.projectPath = workflowRootPath;
             existing.workflowRootPath = workflowRootPath;
             existing.projectName = projectName;
             existing.instances = liveInstances;
@@ -191,11 +196,16 @@ export class ProjectRegistry {
         }
         else {
             // New project
+            const worktrees = [];
+            if (workspacePath !== workflowRootPath) {
+                worktrees.push(workspacePath);
+            }
             const entry = {
                 projectId,
-                projectPath: workspacePath,
+                projectPath: workflowRootPath,
                 workflowRootPath,
                 projectName,
+                worktrees,
                 instances: [{ pid, registeredAt: new Date().toISOString() }]
             };
             registry.set(projectId, entry);
@@ -211,13 +221,26 @@ export class ProjectRegistry {
     async unregisterProject(projectPath, pid) {
         const registry = await this.readRegistry();
         const absolutePath = resolve(projectPath);
-        const projectId = generateProjectId(absolutePath);
-        const entry = registry.get(projectId);
+        // Try direct lookup first (path is the workflowRootPath)
+        let projectId = generateProjectId(absolutePath);
+        let entry = registry.get(projectId);
+        // If not found, the path might be a worktree — scan entries for a worktree match
+        if (!entry) {
+            for (const [id, e] of registry.entries()) {
+                if (e.worktrees.includes(absolutePath)) {
+                    projectId = id;
+                    entry = e;
+                    break;
+                }
+            }
+        }
         if (!entry)
             return;
         if (pid !== undefined) {
             // Remove only this PID's instance
             entry.instances = entry.instances.filter(i => i.pid !== pid);
+            // Also remove the worktree path if present
+            entry.worktrees = entry.worktrees.filter(w => w !== absolutePath);
             if (entry.instances.length === 0) {
                 registry.delete(projectId);
             }
@@ -252,8 +275,18 @@ export class ProjectRegistry {
     async getProject(projectPath) {
         const registry = await this.readRegistry();
         const absolutePath = resolve(projectPath);
+        // Try direct lookup (path is the workflowRootPath)
         const projectId = generateProjectId(absolutePath);
-        return registry.get(projectId) || null;
+        const direct = registry.get(projectId);
+        if (direct)
+            return direct;
+        // Scan for worktree match
+        for (const entry of registry.values()) {
+            if (entry.worktrees.includes(absolutePath)) {
+                return entry;
+            }
+        }
+        return null;
     }
     /**
      * Get a specific project by projectId
@@ -262,6 +295,76 @@ export class ProjectRegistry {
         const registry = await this.readRegistry();
         return registry.get(projectId) || null;
     }
+    /**
+     * Migrate legacy registry entries that were created before worktree-aware keying.
+     * Groups entries by workflowRootPath and merges duplicates into a single canonical entry.
+     * Idempotent — returns false if no changes were made.
+     */
+    async migrateDeduplicateEntries(registry) {
+        // Group entries by workflowRootPath
+        const groups = new Map(); // workflowRootPath -> projectId[]
+        for (const [projectId, entry] of registry.entries()) {
+            const key = entry.workflowRootPath;
+            const existing = groups.get(key);
+            if (existing) {
+                existing.push(projectId);
+            }
+            else {
+                groups.set(key, [projectId]);
+            }
+        }
+        let merged = false;
+        for (const [workflowRootPath, projectIds] of groups.entries()) {
+            if (projectIds.length <= 1)
+                continue;
+            // Find the canonical entry — the one whose projectId matches the workflowRootPath hash
+            const canonicalId = generateProjectId(workflowRootPath);
+            let canonicalEntry = registry.get(canonicalId);
+            if (!canonicalEntry) {
+                // No correctly-keyed entry exists — create one from the first duplicate
+                const firstEntry = registry.get(projectIds[0]);
+                canonicalEntry = {
+                    projectId: canonicalId,
+                    projectPath: workflowRootPath,
+                    workflowRootPath,
+                    projectName: basename(workflowRootPath),
+                    instances: [],
+                    worktrees: []
+                };
+                registry.set(canonicalId, canonicalEntry);
+            }
+            // Merge all duplicate entries into the canonical one
+            const seenPids = new Set(canonicalEntry.instances.map(i => i.pid));
+            const seenWorktrees = new Set(canonicalEntry.worktrees);
+            for (const dupId of projectIds) {
+                if (dupId === canonicalId)
+                    continue;
+                const dupEntry = registry.get(dupId);
+                // Merge instances (dedup by PID)
+                for (const instance of dupEntry.instances) {
+                    if (!seenPids.has(instance.pid)) {
+                        seenPids.add(instance.pid);
+                        canonicalEntry.instances.push(instance);
+                    }
+                }
+                // Merge worktrees (dedup)
+                for (const wt of dupEntry.worktrees) {
+                    if (!seenWorktrees.has(wt)) {
+                        seenWorktrees.add(wt);
+                        canonicalEntry.worktrees.push(wt);
+                    }
+                }
+                // Delete the non-canonical entry
+                registry.delete(dupId);
+            }
+            // Ensure canonical metadata is correct
+            canonicalEntry.projectPath = workflowRootPath;
+            canonicalEntry.projectName = basename(workflowRootPath);
+            console.error(`[ProjectRegistry] Migration: merged ${projectIds.length} entries for ${workflowRootPath}`);
+            merged = true;
+        }
+        return merged;
+    }
     /**
      * Clean up stale instances (where the process is no longer running)
      * Projects with no live instances are removed entirely
@@ -284,6 +387,10 @@ export class ProjectRegistry {
                 registry.set(projectId, entry);
             }
         }
+        // Deduplicate legacy entries that were keyed by worktree path instead of workflowRootPath
+        if (await this.migrateDeduplicateEntries(registry)) {
+            needsWrite = true;
+        }
         if (needsWrite) {
             await this.writeRegistry(registry);
             this.needsInitialization = false; // Reset flag after successful write
@@ -296,8 +403,17 @@ export class ProjectRegistry {
     async isProjectRegistered(projectPath) {
         const registry = await this.readRegistry();
         const absolutePath = resolve(projectPath);
+        // Direct lookup
         const projectId = generateProjectId(absolutePath);
-        return registry.has(projectId);
+        if (registry.has(projectId))
+            return true;
+        // Worktree scan
+        for (const entry of registry.values()) {
+            if (entry.worktrees.includes(absolutePath)) {
+                return true;
+            }
+        }
+        return false;
     }
     /**
      * Get the registry file path for watching

package/dist/core/project-registry.js.map

@@ -1 +1 @@
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package/dist/dashboard/__tests__/multi-server-approvals-content.test.js

@@ -38,7 +38,7 @@ describe('MultiProjectDashboardServer approvals content resolution', () => {
         await fs.mkdir(workspacePath, { recursive: true });
         await fs.mkdir(workflowRootPath, { recursive: true });
         process.env[SPEC_WORKFLOW_HOME_ENV] = join(tempDir, '.global-state');
-        projectId = generateProjectId(workspacePath);
+        projectId = generateProjectId(workflowRootPath);
         realFetch = globalThis.fetch;
         const registry = new ProjectRegistry();
         await registry.registerProject(workspacePath, process.pid, { workflowRootPath });