specweave 0.32.10 → 0.33.2

package/CLAUDE.md

@@ -132,7 +132,36 @@ const config = detectStructureLevel(projectRoot);
 
 **Pre-tool-use hook `features-folder-guard.sh` BLOCKS writes to `_features/` (v0.33.0+).**
 
-### 2e. NEVER Create Duplicate Increment IDs (v0.33.0+)
+### 2e. NEVER Create Files at Increment Root (FOLDER STRUCTURE v0.33.0+)
+
+**Files at increment root MUST be limited to required files!**
+
+```
+❌ FORBIDDEN (Bug pattern from 2025-12-09):
+.specweave/increments/0134-feature/COMPLETION_REPORT.md
+.specweave/increments/0135-feature/COMPLETION_SUMMARY.md
+
+✅ CORRECT - Use reports/ subfolder:
+.specweave/increments/0134-feature/reports/COMPLETION_REPORT.md
+.specweave/increments/0135-feature/reports/COMPLETION_SUMMARY.md
+```
+
+**ONLY ALLOWED at increment root:**
+- `metadata.json`
+- `spec.md`
+- `plan.md`
+- `tasks.md`
+
+**Everything else → subfolders:**
+- `reports/` - completion reports, validation reports, analysis docs
+- `scripts/` - helper scripts, automation
+- `logs/` - execution logs, debug output
+- `backups/` - backup files
+- `docs/` - additional documentation
+
+**Pre-tool-use hook `increment-root-guard.sh` BLOCKS non-standard files at root (v0.33.0+).**
+
+### 2f. NEVER Create Duplicate Increment IDs (v0.33.0+)
 
 **Increment numbers MUST be unique across ALL directories!**
 
@@ -171,6 +200,44 @@ IncrementNumberManager.findDuplicates('0121');
 
 **Pre-tool-use hook `increment-duplicate-guard.sh` BLOCKS duplicate increment creation (v0.33.0+).**
 
+### 2f. Gap-Filling Increment IDs (v0.33.1+)
+
+**Increment IDs now FILL GAPS instead of always using highest + 1!**
+
+```
+OLD BEHAVIOR (v0.33.0 and earlier):
+0128 (exists) → next is 0136 (highest + 1, even if gaps exist)
+
+NEW BEHAVIOR (v0.33.1+):
+0106, 0108, 0128, 0131 (exists) → next is 0107 (fills first gap!)
+```
+
+**Gap-filling algorithm:**
+1. Scans ALL directories (main, _archive, _paused, _abandoned)
+2. Finds first available number starting from 0001
+3. Returns gap number if found, otherwise returns highest + 1
+
+**Examples:**
+```typescript
+// Existing: [0001, 0002, 0004, 0005]
+IncrementNumberManager.getNextIncrementNumber(); // "0003" ← Fills gap!
+
+// Existing: [0001, 0002, 0003, 0004]
+IncrementNumberManager.getNextIncrementNumber(); // "0005" ← Sequential (no gaps)
+
+// Existing: [0050, 0051]
+IncrementNumberManager.getNextIncrementNumber(); // "0001" ← Starts from beginning!
+```
+
+**Benefits:**
+- ✅ No wasted ID space (4-digit limit = max 9999 increments)
+- ✅ Clear sequence without confusing gaps
+- ✅ Total increment count = highest number (no need to scan all)
+
+**Migration:** Automatic, no action required. Next increment fills first gap!
+
+**Details:** See ADR-0142 (`.specweave/docs/internal/architecture/adr/0142-gap-filling-increment-ids.md`)
+
 ### 3. Protected Directories
 
 **NEVER delete**: `.specweave/docs/`, `.specweave/increments/`
@@ -555,6 +622,44 @@ bash plugins/specweave/scripts/cleanup-state.sh
 - Update Claude Code VS Code extension regularly
 - Use terminal mode for long-running sessions
 
+### Zombie Processes (v0.33.0+ AUTO-CLEANUP)
+
+**Status**: ✅ AUTOMATED - No manual intervention needed!
+
+**How it works:**
+- SessionStart hook registers all Claude Code sessions
+- Heartbeat process monitors parent health every 5s
+- Session watchdog cleans up zombies every 60s
+- Automatic cleanup within 60s of session termination
+
+**Session Registry**: `.specweave/state/.session-registry.json`
+
+**Logs**:
+```bash
+# Session tracking logs
+cat .specweave/logs/sessions/session-*.log
+
+# Cleanup logs
+cat .specweave/logs/cleanup.log
+
+# Heartbeat logs
+cat .specweave/logs/heartbeat-*.log
+```
+
+**Manual Cleanup (if needed)**:
+```bash
+# Kill all zombie processes
+node dist/src/cli/cleanup-zombies.js 60
+
+# Or use watchdog
+bash plugins/specweave/scripts/session-watchdog.sh
+```
+
+**Troubleshooting**:
+- If zombies persist >5 minutes: Check `.specweave/state/.session-registry.json`
+- If cleanup fails: Run `bash plugins/specweave/scripts/cleanup-state.sh`
+- For details: See `.specweave/docs/internal/troubleshooting/zombie-processes.md`
+
 ### Crash loop / prompt duplication
 
 **Disable hooks FIRST:**

package/dist/src/cli/add-child-pid.d.ts

@@ -0,0 +1,11 @@
+#!/usr/bin/env node
+/**
+ * Add Child PID CLI
+ *
+ * Adds a child PID to a session
+ *
+ * Usage:
+ *   node dist/src/cli/add-child-pid.js <session-id> <child-pid>
+ */
+export {};
+//# sourceMappingURL=add-child-pid.d.ts.map

package/dist/src/cli/add-child-pid.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"add-child-pid.d.ts","sourceRoot":"","sources":["../../../src/cli/add-child-pid.ts"],"names":[],"mappings":";AACA;;;;;;;GAOG"}

package/dist/src/cli/add-child-pid.js

@@ -0,0 +1,42 @@
+#!/usr/bin/env node
+/**
+ * Add Child PID CLI
+ *
+ * Adds a child PID to a session
+ *
+ * Usage:
+ *   node dist/src/cli/add-child-pid.js <session-id> <child-pid>
+ */
+import { SessionRegistry } from '../utils/session-registry.js';
+import { consoleLogger } from '../utils/logger.js';
+async function main() {
+    const sessionId = process.argv[2];
+    const childPidStr = process.argv[3];
+    if (!sessionId || !childPidStr) {
+        console.error('Usage: node add-child-pid.js <session-id> <child-pid>');
+        process.exit(1);
+    }
+    const childPid = parseInt(childPidStr, 10);
+    if (isNaN(childPid)) {
+        console.error(`Invalid child PID: ${childPidStr}`);
+        process.exit(1);
+    }
+    const registry = new SessionRegistry(process.cwd(), { logger: consoleLogger });
+    try {
+        const success = await registry.addChildProcess(sessionId, childPid);
+        if (success) {
+            console.log(`Child PID ${childPid} added to session ${sessionId}`);
+            process.exit(0);
+        }
+        else {
+            console.error('Failed to add child PID');
+            process.exit(1);
+        }
+    }
+    catch (err) {
+        console.error('Error adding child PID:', err);
+        process.exit(1);
+    }
+}
+main();
+//# sourceMappingURL=add-child-pid.js.map

package/dist/src/cli/add-child-pid.js.map

@@ -0,0 +1 @@
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package/dist/src/cli/add-child-process.d.ts

@@ -0,0 +1,15 @@
+#!/usr/bin/env node
+/**
+ * Add Child Process CLI
+ *
+ * Adds a child process PID to a session's child_pids array
+ *
+ * Usage:
+ *   node dist/src/cli/add-child-process.js <session-id> <child-pid>
+ *
+ * Arguments:
+ *   session-id: Session identifier
+ *   child-pid: Child process ID to add
+ */
+export {};
+//# sourceMappingURL=add-child-process.d.ts.map

package/dist/src/cli/add-child-process.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"add-child-process.d.ts","sourceRoot":"","sources":["../../../src/cli/add-child-process.ts"],"names":[],"mappings":";AACA;;;;;;;;;;;GAWG"}

package/dist/src/cli/add-child-process.js

@@ -0,0 +1,40 @@
+#!/usr/bin/env node
+/**
+ * Add Child Process CLI
+ *
+ * Adds a child process PID to a session's child_pids array
+ *
+ * Usage:
+ *   node dist/src/cli/add-child-process.js <session-id> <child-pid>
+ *
+ * Arguments:
+ *   session-id: Session identifier
+ *   child-pid: Child process ID to add
+ */
+import { SessionRegistry } from '../utils/session-registry.js';
+import { consoleLogger } from '../utils/logger.js';
+async function main() {
+    const sessionId = process.argv[2];
+    const childPidStr = process.argv[3];
+    if (!sessionId || !childPidStr) {
+        console.error('Usage: node add-child-process.js <session-id> <child-pid>');
+        process.exit(1);
+    }
+    const childPid = parseInt(childPidStr, 10);
+    if (isNaN(childPid)) {
+        console.error(`Invalid child PID: ${childPidStr}`);
+        process.exit(1);
+    }
+    const registry = new SessionRegistry(process.cwd(), { logger: consoleLogger });
+    try {
+        await registry.addChildProcess(sessionId, childPid);
+        console.log(`Child process ${childPid} added to session ${sessionId}`);
+        process.exit(0);
+    }
+    catch (err) {
+        console.error('Error adding child process:', err);
+        process.exit(1);
+    }
+}
+main();
+//# sourceMappingURL=add-child-process.js.map

package/dist/src/cli/add-child-process.js.map

@@ -0,0 +1 @@
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package/dist/src/cli/check-watchdog.d.ts

@@ -0,0 +1,15 @@
+#!/usr/bin/env node
+/**
+ * Check Watchdog CLI
+ *
+ * Checks if an active watchdog is running
+ *
+ * Usage:
+ *   node dist/src/cli/check-watchdog.js
+ *
+ * Output:
+ *   - PID of active watchdog (if exists)
+ *   - Empty string (if no active watchdog)
+ */
+export {};
+//# sourceMappingURL=check-watchdog.d.ts.map

package/dist/src/cli/check-watchdog.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"check-watchdog.d.ts","sourceRoot":"","sources":["../../../src/cli/check-watchdog.ts"],"names":[],"mappings":";AACA;;;;;;;;;;;GAWG"}

package/dist/src/cli/check-watchdog.js

@@ -0,0 +1,47 @@
+#!/usr/bin/env node
+/**
+ * Check Watchdog CLI
+ *
+ * Checks if an active watchdog is running
+ *
+ * Usage:
+ *   node dist/src/cli/check-watchdog.js
+ *
+ * Output:
+ *   - PID of active watchdog (if exists)
+ *   - Empty string (if no active watchdog)
+ */
+import { SessionRegistry } from '../utils/session-registry.js';
+import { consoleLogger } from '../utils/logger.js';
+async function main() {
+    const registry = new SessionRegistry(process.cwd(), { logger: consoleLogger });
+    try {
+        const sessions = await registry.getAllSessions();
+        // Find watchdog sessions
+        const watchdogs = sessions.filter((s) => s.type === 'watchdog' && s.status === 'active');
+        if (watchdogs.length === 0) {
+            // No active watchdog
+            process.exit(0);
+        }
+        // Check heartbeat freshness (last 30 seconds)
+        const now = Date.now();
+        const threshold = 30 * 1000; // 30 seconds
+        for (const watchdog of watchdogs) {
+            const lastHeartbeat = new Date(watchdog.last_heartbeat).getTime();
+            const age = now - lastHeartbeat;
+            if (age < threshold) {
+                // Active watchdog found
+                console.log(watchdog.pid);
+                process.exit(0);
+            }
+        }
+        // All watchdogs are stale
+        process.exit(0);
+    }
+    catch (err) {
+        console.error('Error checking watchdog:', err);
+        process.exit(1);
+    }
+}
+main();
+//# sourceMappingURL=check-watchdog.js.map

package/dist/src/cli/check-watchdog.js.map

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package/dist/src/cli/cleanup-zombies.d.ts

@@ -0,0 +1,14 @@
+#!/usr/bin/env node
+/**
+ * Cleanup Zombies CLI
+ *
+ * Detects and cleans up zombie/stale processes
+ *
+ * Usage:
+ *   node dist/src/cli/cleanup-zombies.js [threshold-seconds]
+ *
+ * Arguments:
+ *   threshold-seconds: Heartbeat age threshold (default: 60)
+ */
+export {};
+//# sourceMappingURL=cleanup-zombies.d.ts.map

package/dist/src/cli/cleanup-zombies.d.ts.map

@@ -0,0 +1 @@
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package/dist/src/cli/cleanup-zombies.js

@@ -0,0 +1,268 @@
+#!/usr/bin/env node
+/**
+ * Cleanup Zombies CLI
+ *
+ * Detects and cleans up zombie/stale processes
+ *
+ * Usage:
+ *   node dist/src/cli/cleanup-zombies.js [threshold-seconds]
+ *
+ * Arguments:
+ *   threshold-seconds: Heartbeat age threshold (default: 60)
+ */
+import { SessionRegistry } from '../utils/session-registry.js';
+import { consoleLogger } from '../utils/logger.js';
+import * as childProcess from 'child_process';
+import * as util from 'util';
+import * as fs from 'fs';
+import * as path from 'path';
+const exec = util.promisify(childProcess.exec);
+// Cleanup logging
+function logCleanupAction(level, action, details) {
+    const logDir = path.join(process.cwd(), '.specweave', 'logs');
+    const logFile = path.join(logDir, 'cleanup.log');
+    // Ensure log directory exists
+    if (!fs.existsSync(logDir)) {
+        fs.mkdirSync(logDir, { recursive: true });
+    }
+    const timestamp = new Date().toISOString();
+    const logEntry = `[${timestamp}] [${level}] [${action}] ${details}\n`;
+    try {
+        fs.appendFileSync(logFile, logEntry, 'utf-8');
+    }
+    catch (err) {
+        // If we can't log, just continue
+        console.error('Failed to write cleanup log:', err);
+    }
+}
+async function killProcess(pid, signal = 'SIGTERM') {
+    try {
+        process.kill(pid, signal);
+    }
+    catch (err) {
+        // Process may not exist, ignore
+    }
+}
+async function validatePidIsSpecWeave(pid) {
+    try {
+        const { stdout } = await exec(`ps -p ${pid} -o command= || true`);
+        const command = stdout.trim().toLowerCase();
+        // Valid SpecWeave/Claude processes
+        const validPatterns = [
+            'claude',
+            'specweave',
+            'cat.*eof',
+            'esbuild',
+            'processor.sh',
+            'session-watchdog',
+            'heartbeat.sh',
+            'node.*specweave',
+            'bash.*specweave',
+        ];
+        return validPatterns.some((pattern) => {
+            const regex = new RegExp(pattern, 'i');
+            return regex.test(command);
+        });
+    }
+    catch {
+        // If we can't determine, err on the side of caution
+        return false;
+    }
+}
+async function killZombieProcesses(registry) {
+    let killedCount = 0;
+    let skippedCount = 0;
+    // Pattern 1: Heredoc zombies
+    try {
+        const { stdout } = await exec("pgrep -f 'cat.*EOF' || true");
+        const pids = stdout
+            .trim()
+            .split('\n')
+            .filter((p) => p);
+        for (const pidStr of pids) {
+            const pid = parseInt(pidStr, 10);
+            if (!isNaN(pid)) {
+                await killProcess(pid, 'SIGKILL');
+                const msg = `Killed heredoc zombie: PID ${pid}`;
+                console.log(msg);
+                logCleanupAction('INFO', 'KILL_ZOMBIE', `heredoc cat EOF process - PID ${pid}`);
+                killedCount++;
+            }
+        }
+    }
+    catch (err) {
+        // Ignore errors
+    }
+    // Pattern 2: Stale esbuild services (>1 hour old)
+    try {
+        const { stdout } = await exec("pgrep -f 'esbuild.*--service' || true");
+        const pids = stdout
+            .trim()
+            .split('\n')
+            .filter((p) => p);
+        for (const pidStr of pids) {
+            const pid = parseInt(pidStr, 10);
+            if (!isNaN(pid)) {
+                // Check age using ps
+                try {
+                    const { stdout: psOut } = await exec(`ps -o etime= -p ${pid}`);
+                    const etime = psOut.trim();
+                    // Parse elapsed time (format: [[dd-]hh:]mm:ss)
+                    const parts = etime.split(/[-:]/);
+                    let totalSeconds = 0;
+                    if (parts.length >= 2) {
+                        const seconds = parseInt(parts[parts.length - 1], 10);
+                        const minutes = parseInt(parts[parts.length - 2], 10);
+                        totalSeconds = minutes * 60 + seconds;
+                        if (parts.length >= 3) {
+                            const hours = parseInt(parts[parts.length - 3], 10);
+                            totalSeconds += hours * 3600;
+                        }
+                        if (parts.length >= 4) {
+                            const days = parseInt(parts[parts.length - 4], 10);
+                            totalSeconds += days * 86400;
+                        }
+                    }
+                    // Kill if older than 1 hour
+                    if (totalSeconds > 3600) {
+                        await killProcess(pid, 'SIGKILL');
+                        const ageMinutes = Math.floor(totalSeconds / 60);
+                        console.log(`Killed stale esbuild: PID ${pid} (age: ${ageMinutes}m)`);
+                        logCleanupAction('INFO', 'KILL_ZOMBIE', `stale esbuild service - PID ${pid} - age ${ageMinutes}m`);
+                        killedCount++;
+                    }
+                }
+                catch (err) {
+                    // Ignore errors
+                }
+            }
+        }
+    }
+    catch (err) {
+        // Ignore errors
+    }
+    // Pattern 3: Orphaned processor.sh daemons (not in registry)
+    try {
+        const { stdout } = await exec("pgrep -f 'processor\\.sh.*--daemon' || true");
+        const pids = stdout
+            .trim()
+            .split('\n')
+            .filter((p) => p);
+        for (const pidStr of pids) {
+            const pid = parseInt(pidStr, 10);
+            if (!isNaN(pid)) {
+                // Check if this processor is registered in any session
+                const sessions = await registry.getAllSessions();
+                const isRegistered = sessions.some((s) => s.child_pids?.includes(pid) || s.pid === pid);
+                if (!isRegistered) {
+                    // Orphaned processor daemon - kill it
+                    await killProcess(pid, 'SIGTERM');
+                    await new Promise((resolve) => setTimeout(resolve, 1000));
+                    await killProcess(pid, 'SIGKILL');
+                    console.log(`Killed orphaned processor daemon: PID ${pid}`);
+                    logCleanupAction('INFO', 'KILL_ZOMBIE', `orphaned processor.sh daemon - PID ${pid} - not in registry`);
+                    killedCount++;
+                }
+            }
+        }
+    }
+    catch (err) {
+        // Ignore errors
+    }
+    return { killed: killedCount, skipped: skippedCount };
+}
+async function main() {
+    const thresholdArg = process.argv[2];
+    const threshold = thresholdArg ? parseInt(thresholdArg, 10) : 60;
+    if (isNaN(threshold)) {
+        console.error('Invalid threshold:', thresholdArg);
+        process.exit(1);
+    }
+    const registry = new SessionRegistry(process.cwd(), { logger: consoleLogger });
+    try {
+        // Get stale sessions
+        const staleSessions = await registry.getStaleSessions(threshold);
+        let totalKilled = 0;
+        // Kill stale session processes
+        for (const staleInfo of staleSessions) {
+            const { session, pid_exists } = staleInfo;
+            const staleAge = Math.floor(staleInfo.stale_duration_seconds);
+            console.log(`Found stale session: ${session.session_id} (PID: ${session.pid}, ${staleAge}s old)`);
+            logCleanupAction('INFO', 'DETECT_STALE', `session ${session.session_id} - PID ${session.pid} - age ${staleAge}s`);
+            // PID validation: ensure process is SpecWeave-related
+            if (pid_exists) {
+                const isValid = await validatePidIsSpecWeave(session.pid);
+                if (!isValid) {
+                    console.log(`  ⚠️  Skipping PID ${session.pid} - not a SpecWeave process`);
+                    logCleanupAction('WARN', 'SKIP_PID', `PID ${session.pid} not a SpecWeave process - removed from registry only`);
+                    // Remove from registry but don't kill
+                    await registry.removeSession(session.session_id);
+                    continue;
+                }
+            }
+            // Kill parent process
+            if (pid_exists) {
+                await killProcess(session.pid, 'SIGTERM');
+                // Wait 2 seconds, then SIGKILL if still exists
+                await new Promise((resolve) => setTimeout(resolve, 2000));
+                await killProcess(session.pid, 'SIGKILL');
+                console.log(`  Killed parent PID: ${session.pid}`);
+                logCleanupAction('INFO', 'KILL_PARENT', `session ${session.session_id} - PID ${session.pid} - SIGTERM -> SIGKILL`);
+                totalKilled++;
+            }
+            // Kill child processes
+            if (session.child_pids && session.child_pids.length > 0) {
+                for (const childPid of session.child_pids) {
+                    await killProcess(childPid, 'SIGTERM');
+                    await new Promise((resolve) => setTimeout(resolve, 1000));
+                    await killProcess(childPid, 'SIGKILL');
+                    console.log(`  Killed child PID: ${childPid}`);
+                    logCleanupAction('INFO', 'KILL_CHILD', `session ${session.session_id} - child PID ${childPid}`);
+                    totalKilled++;
+                }
+            }
+            // Remove from registry
+            await registry.removeSession(session.session_id);
+            logCleanupAction('INFO', 'REMOVE_SESSION', `session ${session.session_id} removed from registry`);
+        }
+        // Kill zombie processes by pattern
+        const zombieResults = await killZombieProcesses(registry);
+        totalKilled += zombieResults.killed;
+        if (totalKilled > 0) {
+            console.log(`\nTotal processes cleaned up: ${totalKilled}`);
+            logCleanupAction('INFO', 'SUMMARY', `Total processes cleaned: ${totalKilled}`);
+            // Send notification if >3 processes cleaned
+            if (totalKilled > 3) {
+                const title = '🚨 Zombie Cleanup';
+                const message = `Cleaned up ${totalKilled} zombie processes`;
+                try {
+                    if (process.platform === 'darwin') {
+                        // macOS notification
+                        await exec(`osascript -e 'display notification "${message}" with title "${title}" sound name "Glass"'`);
+                    }
+                    else if (process.platform === 'linux') {
+                        // Linux notification
+                        await exec(`notify-send "${title}" "${message}" --urgency=normal`);
+                    }
+                    else if (process.platform === 'win32') {
+                        // Windows notification (PowerShell)
+                        const psScript = `[Windows.UI.Notifications.ToastNotificationManager, Windows.UI.Notifications, ContentType = WindowsRuntime] > $null; $null`;
+                        await exec(`powershell -Command "${psScript}"`);
+                    }
+                    logCleanupAction('INFO', 'NOTIFICATION', `Sent notification - ${totalKilled} processes cleaned`);
+                }
+                catch (err) {
+                    // Ignore notification errors
+                    logCleanupAction('WARN', 'NOTIFICATION', `Failed to send notification: ${err}`);
+                }
+            }
+        }
+        process.exit(0);
+    }
+    catch (err) {
+        console.error('Error during cleanup:', err);
+        process.exit(1);
+    }
+}
+main();
+//# sourceMappingURL=cleanup-zombies.js.map

package/dist/src/cli/cleanup-zombies.js.map

@@ -0,0 +1 @@
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package/dist/src/cli/find-session-by-pid.d.ts

@@ -0,0 +1,14 @@
+#!/usr/bin/env node
+/**
+ * Find Session By PID CLI
+ *
+ * Finds a session in the registry by its PID
+ *
+ * Usage:
+ *   node dist/src/cli/find-session-by-pid.js <pid>
+ *
+ * Output:
+ *   JSON session info or empty string
+ */
+export {};
+//# sourceMappingURL=find-session-by-pid.d.ts.map

package/dist/src/cli/find-session-by-pid.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"find-session-by-pid.d.ts","sourceRoot":"","sources":["../../../src/cli/find-session-by-pid.ts"],"names":[],"mappings":";AACA;;;;;;;;;;GAUG"}