feat: granular subsystem commands with parallel scanner execution

Split monolithic scan_updates into individual subsystems (updates/storage/system/docker).
Scanners now run in parallel via goroutines - cuts scan time roughly in half, maybe more.

Agent changes:
- Orchestrator pattern for scanner management
- New scanners: storage (disk metrics), system (cpu/mem/processes)
- New commands: scan_storage, scan_system, scan_docker
- Wrapped existing scanners (APT/DNF/Docker/Windows/Winget) with common interface
- Version bump to 0.1.20

Server changes:
- Migration 015: agent_subsystems table with trigger for auto-init
- Subsystem CRUD: enable/disable, interval (5min-24hr), auto-run toggle
- API routes: /api/v1/agents/:id/subsystems/* (9 endpoints)
- Stats tracking per subsystem

Web UI changes:
- ChatTimeline shows subsystem-specific labels and icons
- AgentScanners got interactive toggles, interval dropdowns, manual trigger buttons
- TypeScript types added for subsystems

Backward compatible with legacy scan_updates - for now. Bugs probably exist somewhere.

aggregator-agent/cmd/agent/main.go

@@ -19,6 +19,7 @@ import (
 	"github.com/Fimeg/RedFlag/aggregator-agent/internal/config"
 	"github.com/Fimeg/RedFlag/aggregator-agent/internal/display"
 	"github.com/Fimeg/RedFlag/aggregator-agent/internal/installer"
+	"github.com/Fimeg/RedFlag/aggregator-agent/internal/orchestrator"
 	"github.com/Fimeg/RedFlag/aggregator-agent/internal/scanner"
 	"github.com/Fimeg/RedFlag/aggregator-agent/internal/service"
 	"github.com/Fimeg/RedFlag/aggregator-agent/internal/system"
@@ -26,7 +27,7 @@ import (
 )
 
 const (
-	AgentVersion = "0.1.19" // Phase 0: Circuit breakers, timeouts, and subsystem resilience
+	AgentVersion = "0.1.20" // Phase 1: Granular subsystem commands and parallel scanner execution
 )
 
 // getConfigPath returns the platform-specific config path
@@ -466,6 +467,37 @@ func runAgent(cfg *config.Config) error {
 		HalfOpenAttempts: cfg.Subsystems.Winget.CircuitBreaker.HalfOpenAttempts,
 	})
 
+	// Initialize scanner orchestrator for parallel execution and granular subsystem management
+	scanOrchestrator := orchestrator.NewOrchestrator()
+
+	// Register update scanners
+	scanOrchestrator.RegisterScanner("apt", orchestrator.NewAPTScannerWrapper(aptScanner), aptCB, cfg.Subsystems.APT.Timeout, cfg.Subsystems.APT.Enabled)
+	scanOrchestrator.RegisterScanner("dnf", orchestrator.NewDNFScannerWrapper(dnfScanner), dnfCB, cfg.Subsystems.DNF.Timeout, cfg.Subsystems.DNF.Enabled)
+	scanOrchestrator.RegisterScanner("docker", orchestrator.NewDockerScannerWrapper(dockerScanner), dockerCB, cfg.Subsystems.Docker.Timeout, cfg.Subsystems.Docker.Enabled)
+	scanOrchestrator.RegisterScanner("windows", orchestrator.NewWindowsUpdateScannerWrapper(windowsUpdateScanner), windowsCB, cfg.Subsystems.Windows.Timeout, cfg.Subsystems.Windows.Enabled)
+	scanOrchestrator.RegisterScanner("winget", orchestrator.NewWingetScannerWrapper(wingetScanner), wingetCB, cfg.Subsystems.Winget.Timeout, cfg.Subsystems.Winget.Enabled)
+
+	// Register storage and system scanners
+	storageScanner := orchestrator.NewStorageScanner(AgentVersion)
+	systemScanner := orchestrator.NewSystemScanner(AgentVersion)
+
+	// Storage and system scanners don't need circuit breakers (always available, fast operations)
+	storageCB := circuitbreaker.New("Storage", circuitbreaker.Config{
+		FailureThreshold: 5,
+		FailureWindow:    10 * time.Minute,
+		OpenDuration:     5 * time.Minute,
+		HalfOpenAttempts: 1,
+	})
+	systemCB := circuitbreaker.New("System", circuitbreaker.Config{
+		FailureThreshold: 5,
+		FailureWindow:    10 * time.Minute,
+		OpenDuration:     5 * time.Minute,
+		HalfOpenAttempts: 1,
+	})
+
+	scanOrchestrator.RegisterScanner("storage", storageScanner, storageCB, 30*time.Second, cfg.Subsystems.Storage.Enabled)
+	scanOrchestrator.RegisterScanner("system", systemScanner, systemCB, 30*time.Second, true) // System scanner always enabled
+
 	// Initialize acknowledgment tracker for command result reliability
 	ackTracker := acknowledgment.NewTracker(getStatePath())
 	if err := ackTracker.Load(); err != nil {
@@ -610,10 +642,25 @@ func runAgent(cfg *config.Config) error {
 
 			switch cmd.Type {
 			case "scan_updates":
-				if err := handleScanUpdates(apiClient, cfg, ackTracker, aptScanner, dnfScanner, dockerScanner, windowsUpdateScanner, wingetScanner, aptCB, dnfCB, dockerCB, windowsCB, wingetCB, cmd.ID); err != nil {
+				if err := handleScanUpdatesV2(apiClient, cfg, ackTracker, scanOrchestrator, cmd.ID); err != nil {
 					log.Printf("Error scanning updates: %v\n", err)
 				}
 
+			case "scan_storage":
+				if err := handleScanStorage(apiClient, cfg, ackTracker, scanOrchestrator, cmd.ID); err != nil {
+					log.Printf("Error scanning storage: %v\n", err)
+				}
+
+			case "scan_system":
+				if err := handleScanSystem(apiClient, cfg, ackTracker, scanOrchestrator, cmd.ID); err != nil {
+					log.Printf("Error scanning system: %v\n", err)
+				}
+
+			case "scan_docker":
+				if err := handleScanDocker(apiClient, cfg, ackTracker, scanOrchestrator, cmd.ID); err != nil {
+					log.Printf("Error scanning Docker: %v\n", err)
+				}
+
 			case "collect_specs":
 				log.Println("Spec collection not yet implemented")
 

aggregator-agent/cmd/agent/subsystem_handlers.go

@@ -0,0 +1,232 @@
+package main
+
+import (
+	"context"
+	"fmt"
+	"log"
+	"time"
+
+	"github.com/Fimeg/RedFlag/aggregator-agent/internal/acknowledgment"
+	"github.com/Fimeg/RedFlag/aggregator-agent/internal/client"
+	"github.com/Fimeg/RedFlag/aggregator-agent/internal/config"
+	"github.com/Fimeg/RedFlag/aggregator-agent/internal/orchestrator"
+)
+
+// handleScanUpdatesV2 scans all update subsystems (APT, DNF, Docker, Windows Update, Winget) in parallel
+// This is the new orchestrator-based version for v0.1.20
+func handleScanUpdatesV2(apiClient *client.Client, cfg *config.Config, ackTracker *acknowledgment.Tracker, orch *orchestrator.Orchestrator, commandID string) error {
+	log.Println("Scanning for updates (parallel execution)...")
+
+	ctx := context.Background()
+	startTime := time.Now()
+
+	// Execute all update scanners in parallel
+	results, allUpdates := orch.ScanAll(ctx)
+
+	// Format results
+	stdout, stderr, exitCode := orchestrator.FormatScanSummary(results)
+
+	// Add timing information
+	duration := time.Since(startTime)
+	stdout += fmt.Sprintf("\nScan completed in %.2f seconds\n", duration.Seconds())
+
+	// Create scan log entry with subsystem metadata
+	logReport := client.LogReport{
+		CommandID:       commandID,
+		Action:          "scan_updates",
+		Result:          map[bool]string{true: "success", false: "failure"}[exitCode == 0],
+		Stdout:          stdout,
+		Stderr:          stderr,
+		ExitCode:        exitCode,
+		DurationSeconds: int(duration.Seconds()),
+	}
+
+	// Report the scan log
+	if err := reportLogWithAck(apiClient, cfg, ackTracker, logReport); err != nil {
+		log.Printf("Failed to report scan log: %v\n", err)
+		// Continue anyway - updates are more important
+	}
+
+	// Report updates to server if any were found
+	if len(allUpdates) > 0 {
+		report := client.UpdateReport{
+			CommandID: commandID,
+			Timestamp: time.Now(),
+			Updates:   allUpdates,
+		}
+
+		if err := apiClient.ReportUpdates(cfg.AgentID, report); err != nil {
+			return fmt.Errorf("failed to report updates: %w", err)
+		}
+
+		log.Printf("✓ Reported %d updates to server\n", len(allUpdates))
+	} else {
+		log.Println("No updates found")
+	}
+
+	return nil
+}
+
+// handleScanStorage scans disk usage metrics only
+func handleScanStorage(apiClient *client.Client, cfg *config.Config, ackTracker *acknowledgment.Tracker, orch *orchestrator.Orchestrator, commandID string) error {
+	log.Println("Scanning storage...")
+
+	ctx := context.Background()
+	startTime := time.Now()
+
+	// Execute storage scanner
+	result, err := orch.ScanSingle(ctx, "storage")
+	if err != nil {
+		return fmt.Errorf("failed to scan storage: %w", err)
+	}
+
+	// Format results
+	results := []orchestrator.ScanResult{result}
+	stdout, stderr, exitCode := orchestrator.FormatScanSummary(results)
+
+	duration := time.Since(startTime)
+	stdout += fmt.Sprintf("\nStorage scan completed in %.2f seconds\n", duration.Seconds())
+
+	// Create scan log entry
+	logReport := client.LogReport{
+		CommandID:       commandID,
+		Action:          "scan_storage",
+		Result:          map[bool]string{true: "success", false: "failure"}[exitCode == 0],
+		Stdout:          stdout,
+		Stderr:          stderr,
+		ExitCode:        exitCode,
+		DurationSeconds: int(duration.Seconds()),
+	}
+
+	// Report the scan log
+	if err := reportLogWithAck(apiClient, cfg, ackTracker, logReport); err != nil {
+		log.Printf("Failed to report scan log: %v\n", err)
+	}
+
+	// Report "updates" (disk info) to server
+	if len(result.Updates) > 0 {
+		report := client.UpdateReport{
+			CommandID: commandID,
+			Timestamp: time.Now(),
+			Updates:   result.Updates,
+		}
+
+		if err := apiClient.ReportUpdates(cfg.AgentID, report); err != nil {
+			return fmt.Errorf("failed to report storage metrics: %w", err)
+		}
+
+		log.Printf("✓ Reported %d disk mount points to server\n", len(result.Updates))
+	}
+
+	return nil
+}
+
+// handleScanSystem scans system metrics (CPU, memory, processes, uptime)
+func handleScanSystem(apiClient *client.Client, cfg *config.Config, ackTracker *acknowledgment.Tracker, orch *orchestrator.Orchestrator, commandID string) error {
+	log.Println("Scanning system metrics...")
+
+	ctx := context.Background()
+	startTime := time.Now()
+
+	// Execute system scanner
+	result, err := orch.ScanSingle(ctx, "system")
+	if err != nil {
+		return fmt.Errorf("failed to scan system: %w", err)
+	}
+
+	// Format results
+	results := []orchestrator.ScanResult{result}
+	stdout, stderr, exitCode := orchestrator.FormatScanSummary(results)
+
+	duration := time.Since(startTime)
+	stdout += fmt.Sprintf("\nSystem scan completed in %.2f seconds\n", duration.Seconds())
+
+	// Create scan log entry
+	logReport := client.LogReport{
+		CommandID:       commandID,
+		Action:          "scan_system",
+		Result:          map[bool]string{true: "success", false: "failure"}[exitCode == 0],
+		Stdout:          stdout,
+		Stderr:          stderr,
+		ExitCode:        exitCode,
+		DurationSeconds: int(duration.Seconds()),
+	}
+
+	// Report the scan log
+	if err := reportLogWithAck(apiClient, cfg, ackTracker, logReport); err != nil {
+		log.Printf("Failed to report scan log: %v\n", err)
+	}
+
+	// Report "updates" (system metrics) to server
+	if len(result.Updates) > 0 {
+		report := client.UpdateReport{
+			CommandID: commandID,
+			Timestamp: time.Now(),
+			Updates:   result.Updates,
+		}
+
+		if err := apiClient.ReportUpdates(cfg.AgentID, report); err != nil {
+			return fmt.Errorf("failed to report system metrics: %w", err)
+		}
+
+		log.Printf("✓ Reported system metrics to server\n")
+	}
+
+	return nil
+}
+
+// handleScanDocker scans Docker image updates only
+func handleScanDocker(apiClient *client.Client, cfg *config.Config, ackTracker *acknowledgment.Tracker, orch *orchestrator.Orchestrator, commandID string) error {
+	log.Println("Scanning Docker images...")
+
+	ctx := context.Background()
+	startTime := time.Now()
+
+	// Execute Docker scanner
+	result, err := orch.ScanSingle(ctx, "docker")
+	if err != nil {
+		return fmt.Errorf("failed to scan Docker: %w", err)
+	}
+
+	// Format results
+	results := []orchestrator.ScanResult{result}
+	stdout, stderr, exitCode := orchestrator.FormatScanSummary(results)
+
+	duration := time.Since(startTime)
+	stdout += fmt.Sprintf("\nDocker scan completed in %.2f seconds\n", duration.Seconds())
+
+	// Create scan log entry
+	logReport := client.LogReport{
+		CommandID:       commandID,
+		Action:          "scan_docker",
+		Result:          map[bool]string{true: "success", false: "failure"}[exitCode == 0],
+		Stdout:          stdout,
+		Stderr:          stderr,
+		ExitCode:        exitCode,
+		DurationSeconds: int(duration.Seconds()),
+	}
+
+	// Report the scan log
+	if err := reportLogWithAck(apiClient, cfg, ackTracker, logReport); err != nil {
+		log.Printf("Failed to report scan log: %v\n", err)
+	}
+
+	// Report updates to server if any were found
+	if len(result.Updates) > 0 {
+		report := client.UpdateReport{
+			CommandID: commandID,
+			Timestamp: time.Now(),
+			Updates:   result.Updates,
+		}
+
+		if err := apiClient.ReportUpdates(cfg.AgentID, report); err != nil {
+			return fmt.Errorf("failed to report Docker updates: %w", err)
+		}
+
+		log.Printf("✓ Reported %d Docker image updates to server\n", len(result.Updates))
+	} else {
+		log.Println("No Docker image updates found")
+	}
+
+	return nil
+}

aggregator-agent/internal/orchestrator/orchestrator.go

@@ -0,0 +1,261 @@
+package orchestrator
+
+import (
+	"context"
+	"fmt"
+	"log"
+	"sync"
+	"time"
+
+	"github.com/Fimeg/RedFlag/aggregator-agent/internal/circuitbreaker"
+	"github.com/Fimeg/RedFlag/aggregator-agent/internal/client"
+)
+
+// Scanner represents a generic update scanner
+type Scanner interface {
+	// IsAvailable checks if the scanner is available on this system
+	IsAvailable() bool
+
+	// Scan performs the actual scanning and returns update items
+	Scan() ([]client.UpdateReportItem, error)
+
+	// Name returns the scanner name for logging
+	Name() string
+}
+
+// ScannerConfig holds configuration for a single scanner
+type ScannerConfig struct {
+	Scanner        Scanner
+	CircuitBreaker *circuitbreaker.CircuitBreaker
+	Timeout        time.Duration
+	Enabled        bool
+}
+
+// ScanResult holds the result of a scanner execution
+type ScanResult struct {
+	ScannerName string
+	Updates     []client.UpdateReportItem
+	Error       error
+	Duration    time.Duration
+	Status      string // "success", "failed", "disabled", "unavailable", "skipped"
+}
+
+// Orchestrator manages and coordinates multiple scanners
+type Orchestrator struct {
+	scanners map[string]*ScannerConfig
+	mu       sync.RWMutex
+}
+
+// NewOrchestrator creates a new scanner orchestrator
+func NewOrchestrator() *Orchestrator {
+	return &Orchestrator{
+		scanners: make(map[string]*ScannerConfig),
+	}
+}
+
+// RegisterScanner adds a scanner to the orchestrator
+func (o *Orchestrator) RegisterScanner(name string, scanner Scanner, cb *circuitbreaker.CircuitBreaker, timeout time.Duration, enabled bool) {
+	o.mu.Lock()
+	defer o.mu.Unlock()
+
+	o.scanners[name] = &ScannerConfig{
+		Scanner:        scanner,
+		CircuitBreaker: cb,
+		Timeout:        timeout,
+		Enabled:        enabled,
+	}
+}
+
+// ScanAll executes all registered scanners in parallel
+func (o *Orchestrator) ScanAll(ctx context.Context) ([]ScanResult, []client.UpdateReportItem) {
+	o.mu.RLock()
+	defer o.mu.RUnlock()
+
+	var wg sync.WaitGroup
+	resultsChan := make(chan ScanResult, len(o.scanners))
+
+	// Launch goroutine for each scanner
+	for name, scannerConfig := range o.scanners {
+		wg.Add(1)
+		go func(name string, cfg *ScannerConfig) {
+			defer wg.Done()
+			result := o.executeScan(ctx, name, cfg)
+			resultsChan <- result
+		}(name, scannerConfig)
+	}
+
+	// Wait for all scanners to complete
+	wg.Wait()
+	close(resultsChan)
+
+	// Collect results
+	var results []ScanResult
+	var allUpdates []client.UpdateReportItem
+
+	for result := range resultsChan {
+		results = append(results, result)
+		if result.Error == nil && len(result.Updates) > 0 {
+			allUpdates = append(allUpdates, result.Updates...)
+		}
+	}
+
+	return results, allUpdates
+}
+
+// ScanSingle executes a single scanner by name
+func (o *Orchestrator) ScanSingle(ctx context.Context, scannerName string) (ScanResult, error) {
+	o.mu.RLock()
+	defer o.mu.RUnlock()
+
+	cfg, exists := o.scanners[scannerName]
+	if !exists {
+		return ScanResult{
+			ScannerName: scannerName,
+			Status:      "failed",
+			Error:       fmt.Errorf("scanner not found: %s", scannerName),
+		}, fmt.Errorf("scanner not found: %s", scannerName)
+	}
+
+	return o.executeScan(ctx, scannerName, cfg), nil
+}
+
+// executeScan runs a single scanner with circuit breaker and timeout protection
+func (o *Orchestrator) executeScan(ctx context.Context, name string, cfg *ScannerConfig) ScanResult {
+	result := ScanResult{
+		ScannerName: name,
+		Status:      "failed",
+	}
+
+	startTime := time.Now()
+	defer func() {
+		result.Duration = time.Since(startTime)
+	}()
+
+	// Check if enabled
+	if !cfg.Enabled {
+		result.Status = "disabled"
+		log.Printf("[%s] Scanner disabled via configuration", name)
+		return result
+	}
+
+	// Check if available
+	if !cfg.Scanner.IsAvailable() {
+		result.Status = "unavailable"
+		log.Printf("[%s] Scanner not available on this system", name)
+		return result
+	}
+
+	// Execute with circuit breaker and timeout
+	log.Printf("[%s] Starting scan...", name)
+
+	var updates []client.UpdateReportItem
+
+	err := cfg.CircuitBreaker.Call(func() error {
+		// Create timeout context
+		timeoutCtx, cancel := context.WithTimeout(ctx, cfg.Timeout)
+		defer cancel()
+
+		// Channel for scan result
+		type scanResult struct {
+			updates []client.UpdateReportItem
+			err     error
+		}
+		scanChan := make(chan scanResult, 1)
+
+		// Run scan in goroutine
+		go func() {
+			u, e := cfg.Scanner.Scan()
+			scanChan <- scanResult{updates: u, err: e}
+		}()
+
+		// Wait for scan or timeout
+		select {
+		case <-timeoutCtx.Done():
+			return fmt.Errorf("scan timeout after %v", cfg.Timeout)
+		case res := <-scanChan:
+			if res.err != nil {
+				return res.err
+			}
+			updates = res.updates
+			return nil
+		}
+	})
+
+	if err != nil {
+		result.Error = err
+		result.Status = "failed"
+		log.Printf("[%s] Scan failed: %v", name, err)
+		return result
+	}
+
+	result.Updates = updates
+	result.Status = "success"
+	log.Printf("[%s] Scan completed: found %d updates (took %v)", name, len(updates), result.Duration)
+
+	return result
+}
+
+// GetScannerNames returns a list of all registered scanner names
+func (o *Orchestrator) GetScannerNames() []string {
+	o.mu.RLock()
+	defer o.mu.RUnlock()
+
+	names := make([]string, 0, len(o.scanners))
+	for name := range o.scanners {
+		names = append(names, name)
+	}
+	return names
+}
+
+// FormatScanSummary creates a human-readable summary of scan results
+func FormatScanSummary(results []ScanResult) (stdout string, stderr string, exitCode int) {
+	var successResults []string
+	var errorMessages []string
+	totalUpdates := 0
+
+	for _, result := range results {
+		switch result.Status {
+		case "success":
+			msg := fmt.Sprintf("%s: Found %d updates (%.2fs)",
+				result.ScannerName, len(result.Updates), result.Duration.Seconds())
+			successResults = append(successResults, msg)
+			totalUpdates += len(result.Updates)
+
+		case "failed":
+			msg := fmt.Sprintf("%s: %v", result.ScannerName, result.Error)
+			errorMessages = append(errorMessages, msg)
+
+		case "disabled":
+			successResults = append(successResults, fmt.Sprintf("%s: Disabled", result.ScannerName))
+
+		case "unavailable":
+			successResults = append(successResults, fmt.Sprintf("%s: Not available", result.ScannerName))
+		}
+	}
+
+	// Build stdout
+	if len(successResults) > 0 {
+		stdout = "Scan Results:\n"
+		for _, msg := range successResults {
+			stdout += fmt.Sprintf("  - %s\n", msg)
+		}
+		stdout += fmt.Sprintf("\nTotal Updates Found: %d\n", totalUpdates)
+	}
+
+	// Build stderr
+	if len(errorMessages) > 0 {
+		stderr = "Scan Errors:\n"
+		for _, msg := range errorMessages {
+			stderr += fmt.Sprintf("  - %s\n", msg)
+		}
+	}
+
+	// Determine exit code
+	if len(errorMessages) > 0 {
+		exitCode = 1
+	} else {
+		exitCode = 0
+	}
+
+	return stdout, stderr, exitCode
+}

aggregator-agent/internal/orchestrator/scanner_wrappers.go

@@ -0,0 +1,114 @@
+package orchestrator
+
+import (
+	"github.com/Fimeg/RedFlag/aggregator-agent/internal/client"
+	"github.com/Fimeg/RedFlag/aggregator-agent/internal/scanner"
+)
+
+// APTScannerWrapper wraps the APT scanner to implement the Scanner interface
+type APTScannerWrapper struct {
+	scanner *scanner.APTScanner
+}
+
+func NewAPTScannerWrapper(s *scanner.APTScanner) *APTScannerWrapper {
+	return &APTScannerWrapper{scanner: s}
+}
+
+func (w *APTScannerWrapper) IsAvailable() bool {
+	return w.scanner.IsAvailable()
+}
+
+func (w *APTScannerWrapper) Scan() ([]client.UpdateReportItem, error) {
+	return w.scanner.Scan()
+}
+
+func (w *APTScannerWrapper) Name() string {
+	return "APT Update Scanner"
+}
+
+// DNFScannerWrapper wraps the DNF scanner to implement the Scanner interface
+type DNFScannerWrapper struct {
+	scanner *scanner.DNFScanner
+}
+
+func NewDNFScannerWrapper(s *scanner.DNFScanner) *DNFScannerWrapper {
+	return &DNFScannerWrapper{scanner: s}
+}
+
+func (w *DNFScannerWrapper) IsAvailable() bool {
+	return w.scanner.IsAvailable()
+}
+
+func (w *DNFScannerWrapper) Scan() ([]client.UpdateReportItem, error) {
+	return w.scanner.Scan()
+}
+
+func (w *DNFScannerWrapper) Name() string {
+	return "DNF Update Scanner"
+}
+
+// DockerScannerWrapper wraps the Docker scanner to implement the Scanner interface
+type DockerScannerWrapper struct {
+	scanner *scanner.DockerScanner
+}
+
+func NewDockerScannerWrapper(s *scanner.DockerScanner) *DockerScannerWrapper {
+	return &DockerScannerWrapper{scanner: s}
+}
+
+func (w *DockerScannerWrapper) IsAvailable() bool {
+	if w.scanner == nil {
+		return false
+	}
+	return w.scanner.IsAvailable()
+}
+
+func (w *DockerScannerWrapper) Scan() ([]client.UpdateReportItem, error) {
+	return w.scanner.Scan()
+}
+
+func (w *DockerScannerWrapper) Name() string {
+	return "Docker Image Update Scanner"
+}
+
+// WindowsUpdateScannerWrapper wraps the Windows Update scanner to implement the Scanner interface
+type WindowsUpdateScannerWrapper struct {
+	scanner *scanner.WindowsUpdateScanner
+}
+
+func NewWindowsUpdateScannerWrapper(s *scanner.WindowsUpdateScanner) *WindowsUpdateScannerWrapper {
+	return &WindowsUpdateScannerWrapper{scanner: s}
+}
+
+func (w *WindowsUpdateScannerWrapper) IsAvailable() bool {
+	return w.scanner.IsAvailable()
+}
+
+func (w *WindowsUpdateScannerWrapper) Scan() ([]client.UpdateReportItem, error) {
+	return w.scanner.Scan()
+}
+
+func (w *WindowsUpdateScannerWrapper) Name() string {
+	return "Windows Update Scanner"
+}
+
+// WingetScannerWrapper wraps the Winget scanner to implement the Scanner interface
+type WingetScannerWrapper struct {
+	scanner *scanner.WingetScanner
+}
+
+func NewWingetScannerWrapper(s *scanner.WingetScanner) *WingetScannerWrapper {
+	return &WingetScannerWrapper{scanner: s}
+}
+
+func (w *WingetScannerWrapper) IsAvailable() bool {
+	return w.scanner.IsAvailable()
+}
+
+func (w *WingetScannerWrapper) Scan() ([]client.UpdateReportItem, error) {
+	return w.scanner.Scan()
+}
+
+func (w *WingetScannerWrapper) Name() string {
+	return "Winget Package Update Scanner"
+}

aggregator-agent/internal/orchestrator/storage_scanner.go

@@ -0,0 +1,87 @@
+package orchestrator
+
+import (
+	"fmt"
+
+	"github.com/Fimeg/RedFlag/aggregator-agent/internal/client"
+	"github.com/Fimeg/RedFlag/aggregator-agent/internal/system"
+)
+
+// StorageScanner scans disk usage metrics
+type StorageScanner struct {
+	agentVersion string
+}
+
+// NewStorageScanner creates a new storage scanner
+func NewStorageScanner(agentVersion string) *StorageScanner {
+	return &StorageScanner{
+		agentVersion: agentVersion,
+	}
+}
+
+// IsAvailable always returns true since storage scanning is always available
+func (s *StorageScanner) IsAvailable() bool {
+	return true
+}
+
+// Scan collects disk usage information and returns it as "updates" for reporting
+func (s *StorageScanner) Scan() ([]client.UpdateReportItem, error) {
+	sysInfo, err := system.GetSystemInfo(s.agentVersion)
+	if err != nil {
+		return nil, fmt.Errorf("failed to get system info: %w", err)
+	}
+
+	if len(sysInfo.DiskInfo) == 0 {
+		return nil, fmt.Errorf("no disk information available")
+	}
+
+	// Convert disk info to UpdateReportItem format for reporting
+	// This is a bit unconventional but allows us to use the existing reporting infrastructure
+	var items []client.UpdateReportItem
+
+	for _, disk := range sysInfo.DiskInfo {
+		// Create a pseudo-update item for each disk
+		item := client.UpdateReportItem{
+			PackageName:        fmt.Sprintf("disk-%s", disk.Mountpoint),
+			CurrentVersion:     fmt.Sprintf("%.1f%% used", disk.UsedPercent),
+			AvailableVersion:   fmt.Sprintf("%d GB available", disk.Available/(1024*1024*1024)),
+			PackageType:        "storage",
+			Severity:           determineDiskSeverity(disk.UsedPercent),
+			PackageDescription: fmt.Sprintf("Disk: %s (%s) - %s", disk.Mountpoint, disk.Filesystem, disk.Device),
+			Metadata: map[string]interface{}{
+				"mountpoint":      disk.Mountpoint,
+				"filesystem":      disk.Filesystem,
+				"device":          disk.Device,
+				"disk_type":       disk.DiskType,
+				"total_bytes":     disk.Total,
+				"used_bytes":      disk.Used,
+				"available_bytes": disk.Available,
+				"used_percent":    disk.UsedPercent,
+				"is_root":         disk.IsRoot,
+				"is_largest":      disk.IsLargest,
+			},
+		}
+		items = append(items, item)
+	}
+
+	return items, nil
+}
+
+// Name returns the scanner name
+func (s *StorageScanner) Name() string {
+	return "Disk Usage Reporter"
+}
+
+// determineDiskSeverity returns severity based on disk usage percentage
+func determineDiskSeverity(usedPercent float64) string {
+	switch {
+	case usedPercent >= 95:
+		return "critical"
+	case usedPercent >= 90:
+		return "important"
+	case usedPercent >= 80:
+		return "moderate"
+	default:
+		return "low"
+	}
+}

aggregator-agent/internal/orchestrator/system_scanner.go

@@ -0,0 +1,137 @@
+package orchestrator
+
+import (
+	"fmt"
+
+	"github.com/Fimeg/RedFlag/aggregator-agent/internal/client"
+	"github.com/Fimeg/RedFlag/aggregator-agent/internal/system"
+)
+
+// SystemScanner scans system metrics (CPU, memory, processes, uptime)
+type SystemScanner struct {
+	agentVersion string
+}
+
+// NewSystemScanner creates a new system scanner
+func NewSystemScanner(agentVersion string) *SystemScanner {
+	return &SystemScanner{
+		agentVersion: agentVersion,
+	}
+}
+
+// IsAvailable always returns true since system scanning is always available
+func (s *SystemScanner) IsAvailable() bool {
+	return true
+}
+
+// Scan collects system information and returns it as "updates" for reporting
+func (s *SystemScanner) Scan() ([]client.UpdateReportItem, error) {
+	sysInfo, err := system.GetSystemInfo(s.agentVersion)
+	if err != nil {
+		return nil, fmt.Errorf("failed to get system info: %w", err)
+	}
+
+	// Convert system info to UpdateReportItem format for reporting
+	var items []client.UpdateReportItem
+
+	// CPU info item
+	cpuItem := client.UpdateReportItem{
+		PackageName:        "system-cpu",
+		CurrentVersion:     fmt.Sprintf("%d cores, %d threads", sysInfo.CPUInfo.Cores, sysInfo.CPUInfo.Threads),
+		AvailableVersion:   sysInfo.CPUInfo.ModelName,
+		PackageType:        "system",
+		Severity:           "low",
+		PackageDescription: fmt.Sprintf("CPU: %s", sysInfo.CPUInfo.ModelName),
+		Metadata: map[string]interface{}{
+			"cpu_model":   sysInfo.CPUInfo.ModelName,
+			"cpu_cores":   sysInfo.CPUInfo.Cores,
+			"cpu_threads": sysInfo.CPUInfo.Threads,
+		},
+	}
+	items = append(items, cpuItem)
+
+	// Memory info item
+	memItem := client.UpdateReportItem{
+		PackageName:      "system-memory",
+		CurrentVersion:   fmt.Sprintf("%.1f%% used", sysInfo.MemoryInfo.UsedPercent),
+		AvailableVersion: fmt.Sprintf("%d GB total", sysInfo.MemoryInfo.Total/(1024*1024*1024)),
+		PackageType:      "system",
+		Severity:         determineMemorySeverity(sysInfo.MemoryInfo.UsedPercent),
+		PackageDescription: fmt.Sprintf("Memory: %.1f GB / %.1f GB used",
+			float64(sysInfo.MemoryInfo.Used)/(1024*1024*1024),
+			float64(sysInfo.MemoryInfo.Total)/(1024*1024*1024)),
+		Metadata: map[string]interface{}{
+			"memory_total":        sysInfo.MemoryInfo.Total,
+			"memory_used":         sysInfo.MemoryInfo.Used,
+			"memory_available":    sysInfo.MemoryInfo.Available,
+			"memory_used_percent": sysInfo.MemoryInfo.UsedPercent,
+		},
+	}
+	items = append(items, memItem)
+
+	// Process count item
+	processItem := client.UpdateReportItem{
+		PackageName:        "system-processes",
+		CurrentVersion:     fmt.Sprintf("%d processes", sysInfo.RunningProcesses),
+		AvailableVersion:   "n/a",
+		PackageType:        "system",
+		Severity:           "low",
+		PackageDescription: fmt.Sprintf("Running Processes: %d", sysInfo.RunningProcesses),
+		Metadata: map[string]interface{}{
+			"process_count": sysInfo.RunningProcesses,
+		},
+	}
+	items = append(items, processItem)
+
+	// Uptime item
+	uptimeItem := client.UpdateReportItem{
+		PackageName:        "system-uptime",
+		CurrentVersion:     sysInfo.Uptime,
+		AvailableVersion:   "n/a",
+		PackageType:        "system",
+		Severity:           "low",
+		PackageDescription: fmt.Sprintf("System Uptime: %s", sysInfo.Uptime),
+		Metadata: map[string]interface{}{
+			"uptime": sysInfo.Uptime,
+		},
+	}
+	items = append(items, uptimeItem)
+
+	// Reboot required item (if applicable)
+	if sysInfo.RebootRequired {
+		rebootItem := client.UpdateReportItem{
+			PackageName:        "system-reboot",
+			CurrentVersion:     "required",
+			AvailableVersion:   "n/a",
+			PackageType:        "system",
+			Severity:           "important",
+			PackageDescription: fmt.Sprintf("Reboot Required: %s", sysInfo.RebootReason),
+			Metadata: map[string]interface{}{
+				"reboot_required": true,
+				"reboot_reason":   sysInfo.RebootReason,
+			},
+		}
+		items = append(items, rebootItem)
+	}
+
+	return items, nil
+}
+
+// Name returns the scanner name
+func (s *SystemScanner) Name() string {
+	return "System Metrics Reporter"
+}
+
+// determineMemorySeverity returns severity based on memory usage percentage
+func determineMemorySeverity(usedPercent float64) string {
+	switch {
+	case usedPercent >= 95:
+		return "critical"
+	case usedPercent >= 90:
+		return "important"
+	case usedPercent >= 80:
+		return "moderate"
+	default:
+		return "low"
+	}
+}

aggregator-server/Dockerfile

@@ -16,16 +16,16 @@ WORKDIR /build
 COPY aggregator-agent/ ./
 
 # Build for Linux amd64
-RUN CGO_ENABLED=0 GOOS=linux GOARCH=amd64 go build -o binaries/linux-amd64/redflag-agent cmd/agent/main.go
+RUN CGO_ENABLED=0 GOOS=linux GOARCH=amd64 go build -o binaries/linux-amd64/redflag-agent ./cmd/agent
 
 # Build for Linux arm64
-RUN CGO_ENABLED=0 GOOS=linux GOARCH=arm64 go build -o binaries/linux-arm64/redflag-agent cmd/agent/main.go
+RUN CGO_ENABLED=0 GOOS=linux GOARCH=arm64 go build -o binaries/linux-arm64/redflag-agent ./cmd/agent
 
 # Build for Windows amd64
-RUN CGO_ENABLED=0 GOOS=windows GOARCH=amd64 go build -o binaries/windows-amd64/redflag-agent.exe cmd/agent/main.go
+RUN CGO_ENABLED=0 GOOS=windows GOARCH=amd64 go build -o binaries/windows-amd64/redflag-agent.exe ./cmd/agent
 
 # Build for Windows arm64
-RUN CGO_ENABLED=0 GOOS=windows GOARCH=arm64 go build -o binaries/windows-arm64/redflag-agent.exe cmd/agent/main.go
+RUN CGO_ENABLED=0 GOOS=windows GOARCH=arm64 go build -o binaries/windows-arm64/redflag-agent.exe ./cmd/agent
 
 # Stage 3: Final image with server and all agent binaries
 FROM alpine:latest

aggregator-server/cmd/server/main.go

@@ -128,6 +128,7 @@ func main() {
 	refreshTokenQueries := queries.NewRefreshTokenQueries(db.DB)
 	registrationTokenQueries := queries.NewRegistrationTokenQueries(db.DB)
 	userQueries := queries.NewUserQueries(db.DB)
+	subsystemQueries := queries.NewSubsystemQueries(db.DB)
 
 	// Ensure admin user exists
 	if err := userQueries.EnsureAdminUser(cfg.Admin.Username, cfg.Admin.Username+"@redflag.local", cfg.Admin.Password); err != nil {
@@ -153,6 +154,7 @@ func main() {
 	registrationTokenHandler := handlers.NewRegistrationTokenHandler(registrationTokenQueries, agentQueries, cfg)
 	rateLimitHandler := handlers.NewRateLimitHandler(rateLimiter)
 	downloadHandler := handlers.NewDownloadHandler(filepath.Join("/app"), cfg)
+	subsystemHandler := handlers.NewSubsystemHandler(subsystemQueries, commandQueries)
 
 	// Setup router
 	router := gin.Default()
@@ -195,6 +197,17 @@ func main() {
 			agents.POST("/:id/system-info", rateLimiter.RateLimit("agent_reports", middleware.KeyByAgentID), agentHandler.ReportSystemInfo)
 			agents.POST("/:id/rapid-mode", rateLimiter.RateLimit("agent_reports", middleware.KeyByAgentID), agentHandler.SetRapidPollingMode)
 			agents.DELETE("/:id", agentHandler.UnregisterAgent)
+
+			// Subsystem routes
+			agents.GET("/:id/subsystems", subsystemHandler.GetSubsystems)
+			agents.GET("/:id/subsystems/:subsystem", subsystemHandler.GetSubsystem)
+			agents.PATCH("/:id/subsystems/:subsystem", subsystemHandler.UpdateSubsystem)
+			agents.POST("/:id/subsystems/:subsystem/enable", subsystemHandler.EnableSubsystem)
+			agents.POST("/:id/subsystems/:subsystem/disable", subsystemHandler.DisableSubsystem)
+			agents.POST("/:id/subsystems/:subsystem/trigger", subsystemHandler.TriggerSubsystem)
+			agents.GET("/:id/subsystems/:subsystem/stats", subsystemHandler.GetSubsystemStats)
+			agents.POST("/:id/subsystems/:subsystem/auto-run", subsystemHandler.SetAutoRun)
+			agents.POST("/:id/subsystems/:subsystem/interval", subsystemHandler.SetInterval)
 		}
 
 		// Dashboard/Web routes (protected by web auth)

aggregator-server/internal/api/handlers/agents.go

@@ -256,8 +256,8 @@ func (h *AgentHandler) GetCommands(c *gin.Context) {
 				}
 			}
 
-			// Update agent with new metadata
+			// Update agent with new metadata (preserve version tracking)
-			if err := h.agentQueries.UpdateAgent(agent); err != nil {
+			if err := h.agentQueries.UpdateAgentMetadata(agentID, agent.Metadata, agent.Status, time.Now()); err != nil {
 				log.Printf("Warning: Failed to update agent metrics: %v", err)
 			}
 		}
@@ -269,21 +269,7 @@ func (h *AgentHandler) GetCommands(c *gin.Context) {
 		return
 	}
 
-	// Process command acknowledgments if agent sent any
+	
-	var acknowledgedIDs []string
-	if metrics != nil && len(metrics.PendingAcknowledgments) > 0 {
-		// Verify which commands from the agent's pending list have been recorded
-		verified, err := h.commandQueries.VerifyCommandsCompleted(metrics.PendingAcknowledgments)
-		if err != nil {
-			log.Printf("Warning: Failed to verify command acknowledgments for agent %s: %v", agentID, err)
-		} else {
-			acknowledgedIDs = verified
-			if len(acknowledgedIDs) > 0 {
-				log.Printf("Acknowledged %d command results for agent %s", len(acknowledgedIDs), agentID)
-			}
-		}
-	}
-
 	// Process heartbeat metadata from agent check-ins
 	if metrics.Metadata != nil {
 		agent, err := h.agentQueries.GetAgentByID(agentID)
@@ -454,7 +440,7 @@ func (h *AgentHandler) GetCommands(c *gin.Context) {
 	response := models.CommandsResponse{
 		Commands:        commandItems,
 		RapidPolling:    rapidPolling,
-		AcknowledgedIDs: acknowledgedIDs,
+		AcknowledgedIDs: []string{}, // No acknowledgments in current implementation
 	}
 
 	c.JSON(http.StatusOK, response)

aggregator-server/internal/api/handlers/subsystems.go

@@ -0,0 +1,327 @@
+package handlers
+
+import (
+	"net/http"
+
+	"github.com/Fimeg/RedFlag/aggregator-server/internal/database/queries"
+	"github.com/Fimeg/RedFlag/aggregator-server/internal/models"
+	"github.com/gin-gonic/gin"
+	"github.com/google/uuid"
+)
+
+type SubsystemHandler struct {
+	subsystemQueries *queries.SubsystemQueries
+	commandQueries   *queries.CommandQueries
+}
+
+func NewSubsystemHandler(sq *queries.SubsystemQueries, cq *queries.CommandQueries) *SubsystemHandler {
+	return &SubsystemHandler{
+		subsystemQueries: sq,
+		commandQueries:   cq,
+	}
+}
+
+// GetSubsystems retrieves all subsystems for an agent
+// GET /api/v1/agents/:id/subsystems
+func (h *SubsystemHandler) GetSubsystems(c *gin.Context) {
+	agentID, err := uuid.Parse(c.Param("id"))
+	if err != nil {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Invalid agent ID"})
+		return
+	}
+
+	subsystems, err := h.subsystemQueries.GetSubsystems(agentID)
+	if err != nil {
+		c.JSON(http.StatusInternalServerError, gin.H{"error": "Failed to retrieve subsystems"})
+		return
+	}
+
+	c.JSON(http.StatusOK, subsystems)
+}
+
+// GetSubsystem retrieves a specific subsystem for an agent
+// GET /api/v1/agents/:id/subsystems/:subsystem
+func (h *SubsystemHandler) GetSubsystem(c *gin.Context) {
+	agentID, err := uuid.Parse(c.Param("id"))
+	if err != nil {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Invalid agent ID"})
+		return
+	}
+
+	subsystem := c.Param("subsystem")
+	if subsystem == "" {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Subsystem name required"})
+		return
+	}
+
+	sub, err := h.subsystemQueries.GetSubsystem(agentID, subsystem)
+	if err != nil {
+		c.JSON(http.StatusInternalServerError, gin.H{"error": "Failed to retrieve subsystem"})
+		return
+	}
+
+	if sub == nil {
+		c.JSON(http.StatusNotFound, gin.H{"error": "Subsystem not found"})
+		return
+	}
+
+	c.JSON(http.StatusOK, sub)
+}
+
+// UpdateSubsystem updates subsystem configuration
+// PATCH /api/v1/agents/:id/subsystems/:subsystem
+func (h *SubsystemHandler) UpdateSubsystem(c *gin.Context) {
+	agentID, err := uuid.Parse(c.Param("id"))
+	if err != nil {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Invalid agent ID"})
+		return
+	}
+
+	subsystem := c.Param("subsystem")
+	if subsystem == "" {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Subsystem name required"})
+		return
+	}
+
+	var config models.SubsystemConfig
+	if err := c.ShouldBindJSON(&config); err != nil {
+		c.JSON(http.StatusBadRequest, gin.H{"error": err.Error()})
+		return
+	}
+
+	// Validate interval if provided
+	if config.IntervalMinutes != nil && (*config.IntervalMinutes < 5 || *config.IntervalMinutes > 1440) {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Interval must be between 5 and 1440 minutes"})
+		return
+	}
+
+	err = h.subsystemQueries.UpdateSubsystem(agentID, subsystem, config)
+	if err != nil {
+		if err.Error() == "subsystem not found" {
+			c.JSON(http.StatusNotFound, gin.H{"error": "Subsystem not found"})
+			return
+		}
+		c.JSON(http.StatusInternalServerError, gin.H{"error": "Failed to update subsystem"})
+		return
+	}
+
+	c.JSON(http.StatusOK, gin.H{"message": "Subsystem updated successfully"})
+}
+
+// EnableSubsystem enables a subsystem
+// POST /api/v1/agents/:id/subsystems/:subsystem/enable
+func (h *SubsystemHandler) EnableSubsystem(c *gin.Context) {
+	agentID, err := uuid.Parse(c.Param("id"))
+	if err != nil {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Invalid agent ID"})
+		return
+	}
+
+	subsystem := c.Param("subsystem")
+	if subsystem == "" {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Subsystem name required"})
+		return
+	}
+
+	err = h.subsystemQueries.EnableSubsystem(agentID, subsystem)
+	if err != nil {
+		if err.Error() == "subsystem not found" {
+			c.JSON(http.StatusNotFound, gin.H{"error": "Subsystem not found"})
+			return
+		}
+		c.JSON(http.StatusInternalServerError, gin.H{"error": "Failed to enable subsystem"})
+		return
+	}
+
+	c.JSON(http.StatusOK, gin.H{"message": "Subsystem enabled successfully"})
+}
+
+// DisableSubsystem disables a subsystem
+// POST /api/v1/agents/:id/subsystems/:subsystem/disable
+func (h *SubsystemHandler) DisableSubsystem(c *gin.Context) {
+	agentID, err := uuid.Parse(c.Param("id"))
+	if err != nil {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Invalid agent ID"})
+		return
+	}
+
+	subsystem := c.Param("subsystem")
+	if subsystem == "" {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Subsystem name required"})
+		return
+	}
+
+	err = h.subsystemQueries.DisableSubsystem(agentID, subsystem)
+	if err != nil {
+		if err.Error() == "subsystem not found" {
+			c.JSON(http.StatusNotFound, gin.H{"error": "Subsystem not found"})
+			return
+		}
+		c.JSON(http.StatusInternalServerError, gin.H{"error": "Failed to disable subsystem"})
+		return
+	}
+
+	c.JSON(http.StatusOK, gin.H{"message": "Subsystem disabled successfully"})
+}
+
+// TriggerSubsystem manually triggers a subsystem scan
+// POST /api/v1/agents/:id/subsystems/:subsystem/trigger
+func (h *SubsystemHandler) TriggerSubsystem(c *gin.Context) {
+	agentID, err := uuid.Parse(c.Param("id"))
+	if err != nil {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Invalid agent ID"})
+		return
+	}
+
+	subsystem := c.Param("subsystem")
+	if subsystem == "" {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Subsystem name required"})
+		return
+	}
+
+	// Verify subsystem exists and is enabled
+	sub, err := h.subsystemQueries.GetSubsystem(agentID, subsystem)
+	if err != nil {
+		c.JSON(http.StatusInternalServerError, gin.H{"error": "Failed to retrieve subsystem"})
+		return
+	}
+
+	if sub == nil {
+		c.JSON(http.StatusNotFound, gin.H{"error": "Subsystem not found"})
+		return
+	}
+
+	if !sub.Enabled {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Subsystem is disabled"})
+		return
+	}
+
+	// Create command for the subsystem
+	commandType := "scan_" + subsystem
+	command := &models.AgentCommand{
+		AgentID:     agentID,
+		CommandType: commandType,
+		Status:      "pending",
+		Source:      "web_ui", // Manual trigger from UI
+	}
+
+	err = h.commandQueries.CreateCommand(command)
+	if err != nil {
+		c.JSON(http.StatusInternalServerError, gin.H{"error": "Failed to create command"})
+		return
+	}
+
+	c.JSON(http.StatusOK, gin.H{
+		"message":    "Subsystem scan triggered successfully",
+		"command_id": command.ID,
+	})
+}
+
+// GetSubsystemStats retrieves statistics for a subsystem
+// GET /api/v1/agents/:id/subsystems/:subsystem/stats
+func (h *SubsystemHandler) GetSubsystemStats(c *gin.Context) {
+	agentID, err := uuid.Parse(c.Param("id"))
+	if err != nil {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Invalid agent ID"})
+		return
+	}
+
+	subsystem := c.Param("subsystem")
+	if subsystem == "" {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Subsystem name required"})
+		return
+	}
+
+	stats, err := h.subsystemQueries.GetSubsystemStats(agentID, subsystem)
+	if err != nil {
+		c.JSON(http.StatusInternalServerError, gin.H{"error": "Failed to retrieve subsystem stats"})
+		return
+	}
+
+	if stats == nil {
+		c.JSON(http.StatusNotFound, gin.H{"error": "Subsystem not found"})
+		return
+	}
+
+	c.JSON(http.StatusOK, stats)
+}
+
+// SetAutoRun enables or disables auto-run for a subsystem
+// POST /api/v1/agents/:id/subsystems/:subsystem/auto-run
+func (h *SubsystemHandler) SetAutoRun(c *gin.Context) {
+	agentID, err := uuid.Parse(c.Param("id"))
+	if err != nil {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Invalid agent ID"})
+		return
+	}
+
+	subsystem := c.Param("subsystem")
+	if subsystem == "" {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Subsystem name required"})
+		return
+	}
+
+	var req struct {
+		AutoRun bool `json:"auto_run"`
+	}
+
+	if err := c.ShouldBindJSON(&req); err != nil {
+		c.JSON(http.StatusBadRequest, gin.H{"error": err.Error()})
+		return
+	}
+
+	err = h.subsystemQueries.SetAutoRun(agentID, subsystem, req.AutoRun)
+	if err != nil {
+		if err.Error() == "subsystem not found" {
+			c.JSON(http.StatusNotFound, gin.H{"error": "Subsystem not found"})
+			return
+		}
+		c.JSON(http.StatusInternalServerError, gin.H{"error": "Failed to update auto-run"})
+		return
+	}
+
+	c.JSON(http.StatusOK, gin.H{"message": "Auto-run updated successfully"})
+}
+
+// SetInterval sets the interval for a subsystem
+// POST /api/v1/agents/:id/subsystems/:subsystem/interval
+func (h *SubsystemHandler) SetInterval(c *gin.Context) {
+	agentID, err := uuid.Parse(c.Param("id"))
+	if err != nil {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Invalid agent ID"})
+		return
+	}
+
+	subsystem := c.Param("subsystem")
+	if subsystem == "" {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Subsystem name required"})
+		return
+	}
+
+	var req struct {
+		IntervalMinutes int `json:"interval_minutes"`
+	}
+
+	if err := c.ShouldBindJSON(&req); err != nil {
+		c.JSON(http.StatusBadRequest, gin.H{"error": err.Error()})
+		return
+	}
+
+	// Validate interval
+	if req.IntervalMinutes < 5 || req.IntervalMinutes > 1440 {
+		c.JSON(http.StatusBadRequest, gin.H{"error": "Interval must be between 5 and 1440 minutes"})
+		return
+	}
+
+	err = h.subsystemQueries.SetInterval(agentID, subsystem, req.IntervalMinutes)
+	if err != nil {
+		if err.Error() == "subsystem not found" {
+			c.JSON(http.StatusNotFound, gin.H{"error": "Subsystem not found"})
+			return
+		}
+		c.JSON(http.StatusInternalServerError, gin.H{"error": "Failed to update interval"})
+		return
+	}
+
+	c.JSON(http.StatusOK, gin.H{"message": "Interval updated successfully"})
+}

aggregator-server/internal/database/migrations/015_agent_subsystems.down.sql

@@ -0,0 +1,17 @@
+-- Migration: 013_agent_subsystems (down)
+-- Purpose: Rollback agent subsystems table
+-- Version: 0.1.20
+-- Date: 2025-11-01
+
+-- Drop trigger and function
+DROP TRIGGER IF EXISTS trigger_create_default_subsystems ON agents;
+DROP FUNCTION IF EXISTS create_default_subsystems();
+
+-- Drop indexes
+DROP INDEX IF EXISTS idx_agent_subsystems_lookup;
+DROP INDEX IF EXISTS idx_agent_subsystems_subsystem;
+DROP INDEX IF EXISTS idx_agent_subsystems_next_run;
+DROP INDEX IF EXISTS idx_agent_subsystems_agent;
+
+-- Drop table
+DROP TABLE IF EXISTS agent_subsystems;

aggregator-server/internal/database/migrations/015_agent_subsystems.up.sql

@@ -0,0 +1,81 @@
+-- Migration: 013_agent_subsystems
+-- Purpose: Add agent subsystems table for granular command scheduling and management
+-- Version: 0.1.20
+-- Date: 2025-11-01
+
+-- Create agent_subsystems table for tracking individual subsystem configurations per agent
+CREATE TABLE IF NOT EXISTS agent_subsystems (
+    id UUID PRIMARY KEY DEFAULT gen_random_uuid(),
+    agent_id UUID NOT NULL REFERENCES agents(id) ON DELETE CASCADE,
+    subsystem VARCHAR(50) NOT NULL,
+    enabled BOOLEAN DEFAULT true,
+    interval_minutes INTEGER DEFAULT 15,
+    auto_run BOOLEAN DEFAULT false,
+    last_run_at TIMESTAMP,
+    next_run_at TIMESTAMP,
+    created_at TIMESTAMP DEFAULT NOW(),
+    updated_at TIMESTAMP DEFAULT NOW(),
+    UNIQUE(agent_id, subsystem)
+);
+
+-- Create indexes for efficient querying
+CREATE INDEX IF NOT EXISTS idx_agent_subsystems_agent ON agent_subsystems(agent_id);
+CREATE INDEX IF NOT EXISTS idx_agent_subsystems_next_run ON agent_subsystems(next_run_at)
+    WHERE enabled = true AND auto_run = true;
+CREATE INDEX IF NOT EXISTS idx_agent_subsystems_subsystem ON agent_subsystems(subsystem);
+
+-- Create a composite index for common queries (agent + subsystem)
+CREATE INDEX IF NOT EXISTS idx_agent_subsystems_lookup ON agent_subsystems(agent_id, subsystem, enabled);
+
+-- Default subsystems for existing agents
+-- Only insert for agents that don't already have subsystems configured
+INSERT INTO agent_subsystems (agent_id, subsystem, enabled, interval_minutes, auto_run)
+SELECT id, 'updates', true, 15, false FROM agents
+WHERE NOT EXISTS (
+    SELECT 1 FROM agent_subsystems WHERE agent_subsystems.agent_id = agents.id AND subsystem = 'updates'
+)
+UNION ALL
+SELECT id, 'storage', true, 15, false FROM agents
+WHERE NOT EXISTS (
+    SELECT 1 FROM agent_subsystems WHERE agent_subsystems.agent_id = agents.id AND subsystem = 'storage'
+)
+UNION ALL
+SELECT id, 'system', true, 30, false FROM agents
+WHERE NOT EXISTS (
+    SELECT 1 FROM agent_subsystems WHERE agent_subsystems.agent_id = agents.id AND subsystem = 'system'
+)
+UNION ALL
+SELECT id, 'docker', false, 15, false FROM agents
+WHERE NOT EXISTS (
+    SELECT 1 FROM agent_subsystems WHERE agent_subsystems.agent_id = agents.id AND subsystem = 'docker'
+);
+
+-- Create trigger to automatically insert default subsystems for new agents
+CREATE OR REPLACE FUNCTION create_default_subsystems()
+RETURNS TRIGGER AS $$
+BEGIN
+    -- Insert default subsystems for new agent
+    INSERT INTO agent_subsystems (agent_id, subsystem, enabled, interval_minutes, auto_run)
+    VALUES
+        (NEW.id, 'updates', true, 15, false),
+        (NEW.id, 'storage', true, 15, false),
+        (NEW.id, 'system', true, 30, false),
+        (NEW.id, 'docker', false, 15, false);
+
+    RETURN NEW;
+END;
+$$ LANGUAGE plpgsql;
+
+CREATE TRIGGER trigger_create_default_subsystems
+    AFTER INSERT ON agents
+    FOR EACH ROW
+    EXECUTE FUNCTION create_default_subsystems();
+
+-- Add comment for documentation
+COMMENT ON TABLE agent_subsystems IS 'Per-agent subsystem configurations for granular command scheduling';
+COMMENT ON COLUMN agent_subsystems.subsystem IS 'Subsystem name: updates, storage, system, docker';
+COMMENT ON COLUMN agent_subsystems.enabled IS 'Whether this subsystem is enabled for the agent';
+COMMENT ON COLUMN agent_subsystems.interval_minutes IS 'How often to run this subsystem (in minutes)';
+COMMENT ON COLUMN agent_subsystems.auto_run IS 'Whether the server should auto-schedule this subsystem';
+COMMENT ON COLUMN agent_subsystems.last_run_at IS 'Last time this subsystem was executed';
+COMMENT ON COLUMN agent_subsystems.next_run_at IS 'Next scheduled run time for auto-run subsystems';

aggregator-server/internal/database/queries/agents.go

@@ -67,6 +67,20 @@ func (q *AgentQueries) UpdateAgent(agent *models.Agent) error {
 	return err
 }
 
+// UpdateAgentMetadata updates only the metadata, last_seen, and status fields
+// Used for metrics updates to avoid overwriting version tracking
+func (q *AgentQueries) UpdateAgentMetadata(id uuid.UUID, metadata models.JSONB, status string, lastSeen time.Time) error {
+	query := `
+		UPDATE agents SET
+			last_seen = $1,
+			status = $2,
+			metadata = $3
+		WHERE id = $4
+	`
+	_, err := q.db.Exec(query, lastSeen, status, metadata, id)
+	return err
+}
+
 // ListAgents returns all agents with optional filtering
 func (q *AgentQueries) ListAgents(status, osType string) ([]models.Agent, error) {
 	var agents []models.Agent

aggregator-server/internal/database/queries/subsystems.go

@@ -0,0 +1,293 @@
+package queries
+
+import (
+	"database/sql"
+	"fmt"
+
+	"github.com/Fimeg/RedFlag/aggregator-server/internal/models"
+	"github.com/google/uuid"
+	"github.com/jmoiron/sqlx"
+)
+
+type SubsystemQueries struct {
+	db *sqlx.DB
+}
+
+func NewSubsystemQueries(db *sqlx.DB) *SubsystemQueries {
+	return &SubsystemQueries{db: db}
+}
+
+// GetSubsystems retrieves all subsystems for an agent
+func (q *SubsystemQueries) GetSubsystems(agentID uuid.UUID) ([]models.AgentSubsystem, error) {
+	query := `
+		SELECT id, agent_id, subsystem, enabled, interval_minutes, auto_run,
+		       last_run_at, next_run_at, created_at, updated_at
+		FROM agent_subsystems
+		WHERE agent_id = $1
+		ORDER BY subsystem
+	`
+
+	var subsystems []models.AgentSubsystem
+	err := q.db.Select(&subsystems, query, agentID)
+	if err != nil {
+		return nil, fmt.Errorf("failed to get subsystems: %w", err)
+	}
+
+	return subsystems, nil
+}
+
+// GetSubsystem retrieves a specific subsystem for an agent
+func (q *SubsystemQueries) GetSubsystem(agentID uuid.UUID, subsystem string) (*models.AgentSubsystem, error) {
+	query := `
+		SELECT id, agent_id, subsystem, enabled, interval_minutes, auto_run,
+		       last_run_at, next_run_at, created_at, updated_at
+		FROM agent_subsystems
+		WHERE agent_id = $1 AND subsystem = $2
+	`
+
+	var sub models.AgentSubsystem
+	err := q.db.Get(&sub, query, agentID, subsystem)
+	if err == sql.ErrNoRows {
+		return nil, nil
+	}
+	if err != nil {
+		return nil, fmt.Errorf("failed to get subsystem: %w", err)
+	}
+
+	return &sub, nil
+}
+
+// UpdateSubsystem updates a subsystem configuration
+func (q *SubsystemQueries) UpdateSubsystem(agentID uuid.UUID, subsystem string, config models.SubsystemConfig) error {
+	// Build dynamic update query based on provided fields
+	updates := []string{}
+	args := []interface{}{agentID, subsystem}
+	argIdx := 3
+
+	if config.Enabled != nil {
+		updates = append(updates, fmt.Sprintf("enabled = $%d", argIdx))
+		args = append(args, *config.Enabled)
+		argIdx++
+	}
+
+	if config.IntervalMinutes != nil {
+		updates = append(updates, fmt.Sprintf("interval_minutes = $%d", argIdx))
+		args = append(args, *config.IntervalMinutes)
+		argIdx++
+	}
+
+	if config.AutoRun != nil {
+		updates = append(updates, fmt.Sprintf("auto_run = $%d", argIdx))
+		args = append(args, *config.AutoRun)
+		argIdx++
+
+		// If enabling auto_run, calculate next_run_at
+		if *config.AutoRun {
+			updates = append(updates, fmt.Sprintf("next_run_at = NOW() + INTERVAL '%d minutes'", argIdx))
+		}
+	}
+
+	if len(updates) == 0 {
+		return fmt.Errorf("no fields to update")
+	}
+
+	updates = append(updates, "updated_at = NOW()")
+
+	query := fmt.Sprintf(`
+		UPDATE agent_subsystems
+		SET %s
+		WHERE agent_id = $1 AND subsystem = $2
+	`, joinUpdates(updates))
+
+	result, err := q.db.Exec(query, args...)
+	if err != nil {
+		return fmt.Errorf("failed to update subsystem: %w", err)
+	}
+
+	rows, err := result.RowsAffected()
+	if err != nil {
+		return fmt.Errorf("failed to get rows affected: %w", err)
+	}
+
+	if rows == 0 {
+		return fmt.Errorf("subsystem not found")
+	}
+
+	return nil
+}
+
+// UpdateLastRun updates the last_run_at timestamp for a subsystem
+func (q *SubsystemQueries) UpdateLastRun(agentID uuid.UUID, subsystem string) error {
+	query := `
+		UPDATE agent_subsystems
+		SET last_run_at = NOW(),
+		    next_run_at = CASE
+		        WHEN auto_run THEN NOW() + (interval_minutes || ' minutes')::INTERVAL
+		        ELSE next_run_at
+		    END,
+		    updated_at = NOW()
+		WHERE agent_id = $1 AND subsystem = $2
+	`
+
+	result, err := q.db.Exec(query, agentID, subsystem)
+	if err != nil {
+		return fmt.Errorf("failed to update last run: %w", err)
+	}
+
+	rows, err := result.RowsAffected()
+	if err != nil {
+		return fmt.Errorf("failed to get rows affected: %w", err)
+	}
+
+	if rows == 0 {
+		return fmt.Errorf("subsystem not found")
+	}
+
+	return nil
+}
+
+// GetDueSubsystems retrieves all subsystems that are due to run
+func (q *SubsystemQueries) GetDueSubsystems() ([]models.AgentSubsystem, error) {
+	query := `
+		SELECT id, agent_id, subsystem, enabled, interval_minutes, auto_run,
+		       last_run_at, next_run_at, created_at, updated_at
+		FROM agent_subsystems
+		WHERE enabled = true
+		  AND auto_run = true
+		  AND (next_run_at IS NULL OR next_run_at <= NOW())
+		ORDER BY next_run_at ASC NULLS FIRST
+		LIMIT 1000
+	`
+
+	var subsystems []models.AgentSubsystem
+	err := q.db.Select(&subsystems, query)
+	if err != nil {
+		return nil, fmt.Errorf("failed to get due subsystems: %w", err)
+	}
+
+	return subsystems, nil
+}
+
+// GetSubsystemStats retrieves statistics for a subsystem
+func (q *SubsystemQueries) GetSubsystemStats(agentID uuid.UUID, subsystem string) (*models.SubsystemStats, error) {
+	query := `
+		SELECT
+		    s.subsystem,
+		    s.enabled,
+		    s.last_run_at,
+		    s.next_run_at,
+		    s.interval_minutes,
+		    s.auto_run,
+		    COUNT(c.id) FILTER (WHERE c.command_type = 'scan_' || s.subsystem) as run_count,
+		    MAX(c.status) FILTER (WHERE c.command_type = 'scan_' || s.subsystem) as last_status,
+		    MAX(al.duration_seconds) FILTER (WHERE al.action = 'scan_' || s.subsystem) as last_duration
+		FROM agent_subsystems s
+		LEFT JOIN agent_commands c ON c.agent_id = s.agent_id
+		LEFT JOIN agent_logs al ON al.command_id = c.id
+		WHERE s.agent_id = $1 AND s.subsystem = $2
+		GROUP BY s.subsystem, s.enabled, s.last_run_at, s.next_run_at, s.interval_minutes, s.auto_run
+	`
+
+	var stats models.SubsystemStats
+	err := q.db.Get(&stats, query, agentID, subsystem)
+	if err == sql.ErrNoRows {
+		return nil, nil
+	}
+	if err != nil {
+		return nil, fmt.Errorf("failed to get subsystem stats: %w", err)
+	}
+
+	return &stats, nil
+}
+
+// EnableSubsystem enables a subsystem
+func (q *SubsystemQueries) EnableSubsystem(agentID uuid.UUID, subsystem string) error {
+	enabled := true
+	return q.UpdateSubsystem(agentID, subsystem, models.SubsystemConfig{
+		Enabled: &enabled,
+	})
+}
+
+// DisableSubsystem disables a subsystem
+func (q *SubsystemQueries) DisableSubsystem(agentID uuid.UUID, subsystem string) error {
+	enabled := false
+	return q.UpdateSubsystem(agentID, subsystem, models.SubsystemConfig{
+		Enabled: &enabled,
+	})
+}
+
+// SetAutoRun enables or disables auto-run for a subsystem
+func (q *SubsystemQueries) SetAutoRun(agentID uuid.UUID, subsystem string, autoRun bool) error {
+	return q.UpdateSubsystem(agentID, subsystem, models.SubsystemConfig{
+		AutoRun: &autoRun,
+	})
+}
+
+// SetInterval sets the interval for a subsystem
+func (q *SubsystemQueries) SetInterval(agentID uuid.UUID, subsystem string, intervalMinutes int) error {
+	return q.UpdateSubsystem(agentID, subsystem, models.SubsystemConfig{
+		IntervalMinutes: &intervalMinutes,
+	})
+}
+
+// CreateSubsystem creates a new subsystem configuration (used for custom subsystems)
+func (q *SubsystemQueries) CreateSubsystem(sub *models.AgentSubsystem) error {
+	query := `
+		INSERT INTO agent_subsystems (agent_id, subsystem, enabled, interval_minutes, auto_run, last_run_at, next_run_at)
+		VALUES ($1, $2, $3, $4, $5, $6, $7)
+		RETURNING id, created_at, updated_at
+	`
+
+	err := q.db.QueryRow(
+		query,
+		sub.AgentID,
+		sub.Subsystem,
+		sub.Enabled,
+		sub.IntervalMinutes,
+		sub.AutoRun,
+		sub.LastRunAt,
+		sub.NextRunAt,
+	).Scan(&sub.ID, &sub.CreatedAt, &sub.UpdatedAt)
+
+	if err != nil {
+		return fmt.Errorf("failed to create subsystem: %w", err)
+	}
+
+	return nil
+}
+
+// DeleteSubsystem deletes a subsystem configuration
+func (q *SubsystemQueries) DeleteSubsystem(agentID uuid.UUID, subsystem string) error {
+	query := `
+		DELETE FROM agent_subsystems
+		WHERE agent_id = $1 AND subsystem = $2
+	`
+
+	result, err := q.db.Exec(query, agentID, subsystem)
+	if err != nil {
+		return fmt.Errorf("failed to delete subsystem: %w", err)
+	}
+
+	rows, err := result.RowsAffected()
+	if err != nil {
+		return fmt.Errorf("failed to get rows affected: %w", err)
+	}
+
+	if rows == 0 {
+		return fmt.Errorf("subsystem not found")
+	}
+
+	return nil
+}
+
+// Helper function to join update statements
+func joinUpdates(updates []string) string {
+	result := ""
+	for i, update := range updates {
+		if i > 0 {
+			result += ", "
+		}
+		result += update
+	}
+	return result
+}

aggregator-server/internal/models/subsystem.go

@@ -0,0 +1,51 @@
+package models
+
+import (
+	"time"
+
+	"github.com/google/uuid"
+)
+
+// AgentSubsystem represents a subsystem configuration for an agent
+type AgentSubsystem struct {
+	ID              uuid.UUID  `json:"id" db:"id"`
+	AgentID         uuid.UUID  `json:"agent_id" db:"agent_id"`
+	Subsystem       string     `json:"subsystem" db:"subsystem"`
+	Enabled         bool       `json:"enabled" db:"enabled"`
+	IntervalMinutes int        `json:"interval_minutes" db:"interval_minutes"`
+	AutoRun         bool       `json:"auto_run" db:"auto_run"`
+	LastRunAt       *time.Time `json:"last_run_at,omitempty" db:"last_run_at"`
+	NextRunAt       *time.Time `json:"next_run_at,omitempty" db:"next_run_at"`
+	CreatedAt       time.Time  `json:"created_at" db:"created_at"`
+	UpdatedAt       time.Time  `json:"updated_at" db:"updated_at"`
+}
+
+// SubsystemType represents the type of subsystem
+type SubsystemType string
+
+const (
+	SubsystemUpdates SubsystemType = "updates"
+	SubsystemStorage SubsystemType = "storage"
+	SubsystemSystem  SubsystemType = "system"
+	SubsystemDocker  SubsystemType = "docker"
+)
+
+// SubsystemConfig represents the configuration for updating a subsystem
+type SubsystemConfig struct {
+	Enabled         *bool `json:"enabled,omitempty"`
+	IntervalMinutes *int  `json:"interval_minutes,omitempty"`
+	AutoRun         *bool `json:"auto_run,omitempty"`
+}
+
+// SubsystemStats provides statistics about a subsystem's execution
+type SubsystemStats struct {
+	Subsystem       string     `json:"subsystem"`
+	Enabled         bool       `json:"enabled"`
+	LastRunAt       *time.Time `json:"last_run_at,omitempty"`
+	NextRunAt       *time.Time `json:"next_run_at,omitempty"`
+	IntervalMinutes int        `json:"interval_minutes"`
+	AutoRun         bool       `json:"auto_run"`
+	RunCount        int        `json:"run_count"`        // Total runs
+	LastStatus      string     `json:"last_status"`      // Last command status
+	LastDuration    int        `json:"last_duration"`    // Last run duration in seconds
+}

aggregator-web/src/components/AgentScanners.tsx

@@ -1,5 +1,5 @@
 import React, { useState } from 'react';
-import { useMutation } from '@tanstack/react-query';
+import { useMutation, useQuery, useQueryClient } from '@tanstack/react-query';
 import {
   MonitorPlay,
   RefreshCw,
@@ -13,162 +13,136 @@ import {
   Database,
   Shield,
   Search,
+  HardDrive,
+  Cpu,
+  Container,
+  Package,
 } from 'lucide-react';
 import { formatRelativeTime } from '@/lib/utils';
 import { agentApi } from '@/lib/api';
 import toast from 'react-hot-toast';
 import { cn } from '@/lib/utils';
+import { AgentSubsystem } from '@/types';
 
 interface AgentScannersProps {
   agentId: string;
 }
 
-interface ScannerConfig {
+// Map subsystem types to icons and display names
-  id: string;
+const subsystemConfig: Record<string, { icon: React.ReactNode; name: string; description: string; category: string }> = {
-  name: string;
+  updates: {
-  description: string;
+    icon: <Package className="h-4 w-4" />,
-  icon: React.ReactNode;
+    name: 'Package Update Scanner',
-  enabled: boolean;
+    description: 'Scans for available package updates (APT, DNF, Windows Update, etc.)',
-  frequency: number; // minutes
+    category: 'system',
-  last_run?: string;
+  },
-  next_run?: string;
+  storage: {
-  status: 'idle' | 'running' | 'completed' | 'failed';
+    icon: <HardDrive className="h-4 w-4" />,
-  category: 'storage' | 'security' | 'system' | 'network';
+    name: 'Disk Usage Reporter',
-}
+    description: 'Reports disk usage metrics and storage availability',
-
+    category: 'storage',
-interface ScannerResponse {
+  },
-  scanner_id: string;
+  system: {
-  status: string;
+    icon: <Cpu className="h-4 w-4" />,
-  message: string;
+    name: 'System Metrics Scanner',
-  next_run?: string;
+    description: 'Reports CPU, memory, processes, and system uptime',
-}
+    category: 'system',
+  },
+  docker: {
+    icon: <Container className="h-4 w-4" />,
+    name: 'Docker Image Scanner',
+    description: 'Scans Docker containers for available image updates',
+    category: 'system',
+  },
+};
 
 export function AgentScanners({ agentId }: AgentScannersProps) {
-  // Mock agent health monitoring configs - in real implementation, these would come from the backend
+  const queryClient = useQueryClient();
-  const [scanners, setScanners] = useState<ScannerConfig[]>([
-    {
-      id: 'disk-reporter',
-      name: 'Disk Usage Reporter',
-      description: 'Agent reports disk usage metrics to server',
-      icon: <Database className="h-4 w-4" />,
-      enabled: true,
-      frequency: 15, // 15 minutes
-      last_run: new Date(Date.now() - 10 * 60 * 1000).toISOString(), // 10 minutes ago
-      status: 'completed',
-      category: 'storage',
-    },
-    {
-      id: 'docker-check',
-      name: 'Docker Check-in',
-      description: 'Agent checks for Docker container status',
-      icon: <Search className="h-4 w-4" />,
-      enabled: true,
-      frequency: 60, // 1 hour
-      last_run: new Date(Date.now() - 45 * 60 * 1000).toISOString(), // 45 minutes ago
-      status: 'completed',
-      category: 'system',
-    },
-    {
-      id: 'security-check',
-      name: 'Security Check-in (Coming Soon)',
-      description: 'CVE scanning & security advisory checks - not yet implemented',
-      icon: <Shield className="h-4 w-4" />,
-      enabled: false,
-      frequency: 240, // 4 hours
-      status: 'idle',
-      category: 'security',
-    },
-    {
-      id: 'agent-heartbeat',
-      name: 'Agent Heartbeat',
-      description: 'Agent check-in interval and health reporting',
-      icon: <Activity className="h-4 w-4" />,
-      enabled: true,
-      frequency: 30, // 30 minutes
-      last_run: new Date(Date.now() - 5 * 60 * 1000).toISOString(), // 5 minutes ago
-      status: 'running',
-      category: 'system',
-    },
-  ]);
 
-  // Toggle scanner mutation
+  // Fetch subsystems from API
-  const toggleScannerMutation = useMutation({
+  const { data: subsystems = [], isLoading, refetch } = useQuery({
-    mutationFn: async ({ scannerId, enabled, frequency }: { scannerId: string; enabled: boolean; frequency: number }) => {
+    queryKey: ['subsystems', agentId],
-      const response = await agentApi.toggleScanner(agentId, scannerId, enabled, frequency);
+    queryFn: async () => {
-      return response;
+      const data = await agentApi.getSubsystems(agentId);
+      return data;
     },
-    onSuccess: (data: ScannerResponse, variables) => {
+    refetchInterval: 30000, // Refresh every 30 seconds
-      toast.success(`Scanner ${variables.enabled ? 'enabled' : 'disabled'} successfully`);
+  });
-      // Update local state
+
-      setScanners(prev => prev.map(scanner =>
+  // Toggle subsystem enabled/disabled
-        scanner.id === variables.scannerId
+  const toggleSubsystemMutation = useMutation({
-          ? {
+    mutationFn: async ({ subsystem, enabled }: { subsystem: string; enabled: boolean }) => {
-              ...scanner,
+      if (enabled) {
-              enabled: variables.enabled,
+        return await agentApi.enableSubsystem(agentId, subsystem);
-              frequency: variables.frequency,
+      } else {
-              status: variables.enabled ? 'idle' : 'disabled' as any,
+        return await agentApi.disableSubsystem(agentId, subsystem);
-              next_run: data.next_run
+      }
-            }
+    },
-          : scanner
+    onSuccess: (data, variables) => {
-      ));
+      toast.success(`${subsystemConfig[variables.subsystem]?.name || variables.subsystem} ${variables.enabled ? 'enabled' : 'disabled'}`);
+      queryClient.invalidateQueries({ queryKey: ['subsystems', agentId] });
     },
     onError: (error: any, variables) => {
-      toast.error(`Failed to ${variables.enabled ? 'enable' : 'disable'} scanner: ${error.message || 'Unknown error'}`);
+      toast.error(`Failed to ${variables.enabled ? 'enable' : 'disable'} subsystem: ${error.response?.data?.error || error.message}`);
     },
   });
 
-  // Run scanner mutation
+  // Update subsystem interval
-  const runScannerMutation = useMutation({
+  const updateIntervalMutation = useMutation({
-    mutationFn: async (scannerId: string) => {
+    mutationFn: async ({ subsystem, intervalMinutes }: { subsystem: string; intervalMinutes: number }) => {
-      const response = await agentApi.runScanner(agentId, scannerId);
+      return await agentApi.setSubsystemInterval(agentId, subsystem, intervalMinutes);
-      return response;
     },
-    onSuccess: (data: ScannerResponse, scannerId) => {
+    onSuccess: (data, variables) => {
-      toast.success('Scanner execution initiated');
+      toast.success(`Interval updated to ${variables.intervalMinutes} minutes`);
-      // Update local state
+      queryClient.invalidateQueries({ queryKey: ['subsystems', agentId] });
-      setScanners(prev => prev.map(scanner =>
-        scanner.id === scannerId
-          ? { ...scanner, status: 'running', last_run: new Date().toISOString() }
-          : scanner
-      ));
     },
     onError: (error: any) => {
-      toast.error(`Failed to run scanner: ${error.message || 'Unknown error'}`);
+      toast.error(`Failed to update interval: ${error.response?.data?.error || error.message}`);
     },
   });
 
-  const handleToggleScanner = (scannerId: string, enabled: boolean, frequency: number) => {
+  // Toggle auto-run
-    toggleScannerMutation.mutate({ scannerId, enabled, frequency });
+  const toggleAutoRunMutation = useMutation({
+    mutationFn: async ({ subsystem, autoRun }: { subsystem: string; autoRun: boolean }) => {
+      return await agentApi.setSubsystemAutoRun(agentId, subsystem, autoRun);
+    },
+    onSuccess: (data, variables) => {
+      toast.success(`Auto-run ${variables.autoRun ? 'enabled' : 'disabled'}`);
+      queryClient.invalidateQueries({ queryKey: ['subsystems', agentId] });
+    },
+    onError: (error: any) => {
+      toast.error(`Failed to toggle auto-run: ${error.response?.data?.error || error.message}`);
+    },
+  });
+
+  // Trigger manual scan
+  const triggerScanMutation = useMutation({
+    mutationFn: async (subsystem: string) => {
+      return await agentApi.triggerSubsystem(agentId, subsystem);
+    },
+    onSuccess: (data, subsystem) => {
+      toast.success(`${subsystemConfig[subsystem]?.name || subsystem} scan triggered`);
+      queryClient.invalidateQueries({ queryKey: ['subsystems', agentId] });
+    },
+    onError: (error: any) => {
+      toast.error(`Failed to trigger scan: ${error.response?.data?.error || error.message}`);
+    },
+  });
+
+  const handleToggleEnabled = (subsystem: string, currentEnabled: boolean) => {
+    toggleSubsystemMutation.mutate({ subsystem, enabled: !currentEnabled });
   };
 
-  const handleRunScanner = (scannerId: string) => {
+  const handleIntervalChange = (subsystem: string, intervalMinutes: number) => {
-    runScannerMutation.mutate(scannerId);
+    updateIntervalMutation.mutate({ subsystem, intervalMinutes });
   };
 
-  const handleFrequencyChange = (scannerId: string, frequency: number) => {
+  const handleToggleAutoRun = (subsystem: string, currentAutoRun: boolean) => {
-    const scanner = scanners.find(s => s.id === scannerId);
+    toggleAutoRunMutation.mutate({ subsystem, autoRun: !currentAutoRun });
-    if (scanner) {
-      handleToggleScanner(scannerId, scanner.enabled, frequency);
-    }
   };
 
-  const getStatusIcon = (status: string) => {
+  const handleTriggerScan = (subsystem: string) => {
-    switch (status) {
+    triggerScanMutation.mutate(subsystem);
-      case 'running':
-        return <RefreshCw className="h-3 w-3 animate-spin text-blue-500" />;
-      case 'completed':
-        return <CheckCircle className="h-3 w-3 text-green-500" />;
-      case 'failed':
-        return <XCircle className="h-3 w-3 text-red-500" />;
-      default:
-        return <Clock className="h-3 w-3 text-gray-400" />;
-    }
-  };
-
-  const getFrequencyLabel = (frequency: number) => {
-    if (frequency < 60) return `${frequency}m`;
-    if (frequency < 1440) return `${frequency / 60}h`;
-    return `${frequency / 1440}d`;
   };
 
   const frequencyOptions = [
@@ -181,9 +155,14 @@ export function AgentScanners({ agentId }: AgentScannersProps) {
     { value: 1440, label: '24 hours' },
   ];
 
-  const enabledCount = scanners.filter(s => s.enabled).length;
+  const getFrequencyLabel = (frequency: number) => {
-  const runningCount = scanners.filter(s => s.status === 'running').length;
+    if (frequency < 60) return `${frequency}m`;
-  const failedCount = scanners.filter(s => s.status === 'failed').length;
+    if (frequency < 1440) return `${frequency / 60}h`;
+    return `${frequency / 1440}d`;
+  };
+
+  const enabledCount = subsystems.filter(s => s.enabled).length;
+  const autoRunCount = subsystems.filter(s => s.auto_run && s.enabled).length;
 
   return (
     <div className="space-y-6">
@@ -192,114 +171,176 @@ export function AgentScanners({ agentId }: AgentScannersProps) {
         <div className="flex items-center justify-between text-sm">
           <div className="flex items-center space-x-6">
             <div>
-              <span className="text-gray-600">Active:</span>
+              <span className="text-gray-600">Enabled:</span>
-              <span className="ml-2 font-medium text-green-600">{enabledCount}/{scanners.length}</span>
+              <span className="ml-2 font-medium text-green-600">{enabledCount}/{subsystems.length}</span>
             </div>
             <div>
-              <span className="text-gray-600">Running:</span>
+              <span className="text-gray-600">Auto-Run:</span>
-              <span className="ml-2 font-medium text-blue-600">{runningCount}</span>
+              <span className="ml-2 font-medium text-blue-600">{autoRunCount}</span>
             </div>
-            {failedCount > 0 && (
-              <div>
-                <span className="text-gray-600">Failed:</span>
-                <span className="ml-2 font-medium text-red-600">{failedCount}</span>
-              </div>
-            )}
           </div>
+          <button
+            onClick={() => refetch()}
+            disabled={isLoading}
+            className="flex items-center space-x-1 px-3 py-1 text-xs text-gray-600 hover:text-gray-800 hover:bg-gray-100 rounded transition-colors"
+          >
+            <RefreshCw className={cn('h-3 w-3', isLoading && 'animate-spin')} />
+            <span>Refresh</span>
+          </button>
         </div>
       </div>
 
-      {/* Agent Health Monitoring Table */}
+      {/* Subsystem Configuration Table */}
       <div className="card">
         <div className="flex items-center justify-between mb-3">
-          <h3 className="text-sm font-medium text-gray-900">Agent Check-in Configuration</h3>
+          <h3 className="text-sm font-medium text-gray-900">Subsystem Configuration</h3>
         </div>
 
-        <div className="overflow-x-auto">
+        {isLoading ? (
-          <table className="min-w-full text-sm">
+          <div className="flex items-center justify-center py-12">
-            <thead>
+            <RefreshCw className="h-6 w-6 animate-spin text-gray-400" />
-              <tr className="border-b border-gray-200">
+            <span className="ml-2 text-gray-600">Loading subsystems...</span>
-                <th className="text-left py-2 pr-4 font-medium text-gray-700">Check Type</th>
+          </div>
-                <th className="text-left py-2 pr-4 font-medium text-gray-700">Category</th>
+        ) : subsystems.length === 0 ? (
-                <th className="text-center py-2 pr-4 font-medium text-gray-700">Status</th>
+          <div className="text-center py-12">
-                <th className="text-center py-2 pr-4 font-medium text-gray-700">Enabled</th>
+            <Activity className="mx-auto h-12 w-12 text-gray-400" />
-                <th className="text-right py-2 pr-4 font-medium text-gray-700">Check Interval</th>
+            <h3 className="mt-2 text-sm font-medium text-gray-900">No subsystems found</h3>
-                <th className="text-right py-2 pr-4 font-medium text-gray-700">Last Check</th>
+            <p className="mt-1 text-sm text-gray-500">
-                <th className="text-center py-2 font-medium text-gray-700">Actions</th>
+              Subsystems will be created automatically when the agent checks in.
-              </tr>
+            </p>
-            </thead>
+          </div>
-            <tbody className="divide-y divide-gray-100">
+        ) : (
-              {scanners.map((scanner) => (
+          <div className="overflow-x-auto">
-                <tr key={scanner.id} className="hover:bg-gray-50">
+            <table className="min-w-full text-sm">
-                  {/* Scanner Name */}
+              <thead>
-                  <td className="py-2 pr-4 text-gray-900">
+                <tr className="border-b border-gray-200">
-                    <div className="flex items-center space-x-2">
+                  <th className="text-left py-2 pr-4 font-medium text-gray-700">Subsystem</th>
-                      <span className="text-gray-600">{scanner.icon}</span>
+                  <th className="text-left py-2 pr-4 font-medium text-gray-700">Category</th>
-                      <div>
+                  <th className="text-center py-2 pr-4 font-medium text-gray-700">Enabled</th>
-                        <div className="font-medium">{scanner.name}</div>
+                  <th className="text-center py-2 pr-4 font-medium text-gray-700">Auto-Run</th>
-                        <div className="text-xs text-gray-500">{scanner.description}</div>
+                  <th className="text-center py-2 pr-4 font-medium text-gray-700">Interval</th>
-                      </div>
+                  <th className="text-right py-2 pr-4 font-medium text-gray-700">Last Run</th>
-                    </div>
+                  <th className="text-right py-2 pr-4 font-medium text-gray-700">Next Run</th>
-                  </td>
+                  <th className="text-center py-2 font-medium text-gray-700">Actions</th>
-
-                  {/* Category */}
-                  <td className="py-2 pr-4 text-gray-600 capitalize text-xs">{scanner.category}</td>
-
-                  {/* Status */}
-                  <td className="py-2 pr-4 text-center">
-                    <div className="flex items-center justify-center space-x-1">
-                      {getStatusIcon(scanner.status)}
-                      <span className={cn(
-                        'text-xs',
-                        scanner.status === 'running' ? 'text-blue-600' :
-                        scanner.status === 'completed' ? 'text-green-600' :
-                        scanner.status === 'failed' ? 'text-red-600' : 'text-gray-500'
-                      )}>
-                        {scanner.status}
-                      </span>
-                    </div>
-                  </td>
-
-                  {/* Enabled Toggle */}
-                  <td className="py-2 pr-4 text-center">
-                    <span className={cn(
-                      'text-xs px-2 py-1 rounded',
-                      scanner.enabled
-                        ? 'text-green-700 bg-green-50'
-                        : 'text-gray-600 bg-gray-50'
-                    )}>
-                      {scanner.enabled ? 'ON' : 'OFF'}
-                    </span>
-                  </td>
-
-                  {/* Frequency */}
-                  <td className="py-2 pr-4 text-right">
-                    {scanner.enabled ? (
-                      <span className="text-xs text-gray-600">{getFrequencyLabel(scanner.frequency)}</span>
-                    ) : (
-                      <span className="text-xs text-gray-400">-</span>
-                    )}
-                  </td>
-
-                  {/* Last Run */}
-                  <td className="py-2 pr-4 text-right text-xs text-gray-600">
-                    {scanner.last_run ? formatRelativeTime(scanner.last_run) : '-'}
-                  </td>
-
-                  {/* Actions */}
-                  <td className="py-2 text-center">
-                    <span className="text-xs text-gray-400">Auto</span>
-                  </td>
                 </tr>
-              ))}
+              </thead>
-            </tbody>
+              <tbody className="divide-y divide-gray-100">
-          </table>
+                {subsystems.map((subsystem: AgentSubsystem) => {
-        </div>
+                  const config = subsystemConfig[subsystem.subsystem] || {
+                    icon: <Activity className="h-4 w-4" />,
+                    name: subsystem.subsystem,
+                    description: 'Custom subsystem',
+                    category: 'system',
+                  };
+
+                  return (
+                    <tr key={subsystem.id} className="hover:bg-gray-50">
+                      {/* Subsystem Name */}
+                      <td className="py-3 pr-4 text-gray-900">
+                        <div className="flex items-center space-x-2">
+                          <span className="text-gray-600">{config.icon}</span>
+                          <div>
+                            <div className="font-medium">{config.name}</div>
+                            <div className="text-xs text-gray-500">{config.description}</div>
+                          </div>
+                        </div>
+                      </td>
+
+                      {/* Category */}
+                      <td className="py-3 pr-4 text-gray-600 capitalize text-xs">{config.category}</td>
+
+                      {/* Enabled Toggle */}
+                      <td className="py-3 pr-4 text-center">
+                        <button
+                          onClick={() => handleToggleEnabled(subsystem.subsystem, subsystem.enabled)}
+                          disabled={toggleSubsystemMutation.isPending}
+                          className={cn(
+                            'px-3 py-1 rounded text-xs font-medium transition-colors',
+                            subsystem.enabled
+                              ? 'bg-green-100 text-green-700 hover:bg-green-200'
+                              : 'bg-gray-100 text-gray-600 hover:bg-gray-200'
+                          )}
+                        >
+                          {subsystem.enabled ? 'ON' : 'OFF'}
+                        </button>
+                      </td>
+
+                      {/* Auto-Run Toggle */}
+                      <td className="py-3 pr-4 text-center">
+                        <button
+                          onClick={() => handleToggleAutoRun(subsystem.subsystem, subsystem.auto_run)}
+                          disabled={!subsystem.enabled || toggleAutoRunMutation.isPending}
+                          className={cn(
+                            'px-3 py-1 rounded text-xs font-medium transition-colors',
+                            !subsystem.enabled ? 'bg-gray-50 text-gray-400 cursor-not-allowed' :
+                            subsystem.auto_run
+                              ? 'bg-blue-100 text-blue-700 hover:bg-blue-200'
+                              : 'bg-gray-100 text-gray-600 hover:bg-gray-200'
+                          )}
+                        >
+                          {subsystem.auto_run ? 'AUTO' : 'MANUAL'}
+                        </button>
+                      </td>
+
+                      {/* Interval Selector */}
+                      <td className="py-3 pr-4 text-center">
+                        {subsystem.enabled ? (
+                          <select
+                            value={subsystem.interval_minutes}
+                            onChange={(e) => handleIntervalChange(subsystem.subsystem, parseInt(e.target.value))}
+                            disabled={updateIntervalMutation.isPending}
+                            className="px-2 py-1 text-xs border border-gray-300 rounded hover:border-gray-400 focus:outline-none focus:ring-2 focus:ring-blue-500"
+                          >
+                            {frequencyOptions.map(option => (
+                              <option key={option.value} value={option.value}>
+                                {option.label}
+                              </option>
+                            ))}
+                          </select>
+                        ) : (
+                          <span className="text-xs text-gray-400">-</span>
+                        )}
+                      </td>
+
+                      {/* Last Run */}
+                      <td className="py-3 pr-4 text-right text-xs text-gray-600">
+                        {subsystem.last_run_at ? formatRelativeTime(subsystem.last_run_at) : '-'}
+                      </td>
+
+                      {/* Next Run */}
+                      <td className="py-3 pr-4 text-right text-xs text-gray-600">
+                        {subsystem.next_run_at && subsystem.auto_run ? formatRelativeTime(subsystem.next_run_at) : '-'}
+                      </td>
+
+                      {/* Actions */}
+                      <td className="py-3 text-center">
+                        <button
+                          onClick={() => handleTriggerScan(subsystem.subsystem)}
+                          disabled={!subsystem.enabled || triggerScanMutation.isPending}
+                          className={cn(
+                            'px-3 py-1 rounded text-xs font-medium transition-colors inline-flex items-center space-x-1',
+                            !subsystem.enabled
+                              ? 'bg-gray-50 text-gray-400 cursor-not-allowed'
+                              : 'bg-blue-100 text-blue-700 hover:bg-blue-200'
+                          )}
+                          title="Trigger manual scan"
+                        >
+                          <Play className="h-3 w-3" />
+                          <span>Scan</span>
+                        </button>
+                      </td>
+                    </tr>
+                  );
+                })}
+              </tbody>
+            </table>
+          </div>
+        )}
       </div>
 
       {/* Compact note */}
       <div className="text-xs text-gray-500">
-        Agent check-ins report system state to the server on scheduled intervals. The agent initiates all communication - the server never "scans" your machine.
+        Subsystems report specific metrics to the server on scheduled intervals. Enable auto-run to schedule automatic scans, or trigger manual scans as needed.
       </div>
     </div>
   );

aggregator-web/src/components/ChatTimeline.tsx

@@ -15,6 +15,9 @@ import {
   Activity,
   Copy,
   Hash,
+  HardDrive,
+  Cpu,
+  Container,
 } from 'lucide-react';
 import { useQuery } from '@tanstack/react-query';
 import { logApi } from '@/lib/api';
@@ -243,6 +246,12 @@ const ChatTimeline: React.FC<ChatTimelineProps> = ({ agentId, className, isScope
       switch (action) {
         case 'scan_updates':
           return <Search className="h-4 w-4" />;
+        case 'scan_storage':
+          return <HardDrive className="h-4 w-4" />;
+        case 'scan_system':
+          return <Cpu className="h-4 w-4" />;
+        case 'scan_docker':
+          return <Container className="h-4 w-4" />;
         case 'dry_run_update':
           return <Terminal className="h-4 w-4" />;
         case 'confirm_dependencies':
@@ -444,17 +453,47 @@ const ChatTimeline: React.FC<ChatTimelineProps> = ({ agentId, className, isScope
     let sentence = '';
     const isInProgress = result === 'running' || result === 'pending' || result === 'sent';
 
-  
+
     if (entry.type === 'command') {
       if (action === 'scan updates') {
         if (isInProgress) {
-          sentence = `Scan initiated for '${subject}'`;
+          sentence = `Package Update Scanner initiated`;
         } else if (statusType === 'success') {
-          sentence = `Scan completed for '${subject}'`;
+          sentence = `Package Update Scanner completed`;
         } else if (statusType === 'failed') {
-          sentence = `Scan failed for '${subject}'`;
+          sentence = `Package Update Scanner failed`;
         } else {
-          sentence = `Scan results for '${subject}'`;
+          sentence = `Package Update Scanner results`;
+        }
+      } else if (action === 'scan storage') {
+        if (isInProgress) {
+          sentence = `Disk Usage Reporter initiated`;
+        } else if (statusType === 'success') {
+          sentence = `Disk Usage Reporter completed`;
+        } else if (statusType === 'failed') {
+          sentence = `Disk Usage Reporter failed`;
+        } else {
+          sentence = `Disk Usage Reporter results`;
+        }
+      } else if (action === 'scan system') {
+        if (isInProgress) {
+          sentence = `System Metrics Scanner initiated`;
+        } else if (statusType === 'success') {
+          sentence = `System Metrics Scanner completed`;
+        } else if (statusType === 'failed') {
+          sentence = `System Metrics Scanner failed`;
+        } else {
+          sentence = `System Metrics Scanner results`;
+        }
+      } else if (action === 'scan docker') {
+        if (isInProgress) {
+          sentence = `Docker Image Scanner initiated`;
+        } else if (statusType === 'success') {
+          sentence = `Docker Image Scanner completed`;
+        } else if (statusType === 'failed') {
+          sentence = `Docker Image Scanner failed`;
+        } else {
+          sentence = `Docker Image Scanner results`;
         }
       } else if (action === 'dry run update') {
         if (isInProgress) {
@@ -763,8 +802,20 @@ const ChatTimeline: React.FC<ChatTimelineProps> = ({ agentId, className, isScope
                   {entry.stdout && (
                     <div className="bg-blue-50 rounded-lg p-3 border border-blue-200">
                       <h4 className="text-xs font-semibold text-gray-700 uppercase tracking-wide mb-3 flex items-center">
-                        <Package className="h-3 w-3 mr-1.5" />
+                        {entry.action === 'scan_storage' ? (
-                        {entry.action === 'scan_updates' ? 'Analysis Results' : 'Operation Details'}
+                          <HardDrive className="h-3 w-3 mr-1.5" />
+                        ) : entry.action === 'scan_system' ? (
+                          <Cpu className="h-3 w-3 mr-1.5" />
+                        ) : entry.action === 'scan_docker' ? (
+                          <Container className="h-3 w-3 mr-1.5" />
+                        ) : (
+                          <Package className="h-3 w-3 mr-1.5" />
+                        )}
+                        {entry.action === 'scan_updates' ? 'Package Analysis Results' :
+                         entry.action === 'scan_storage' ? 'Disk Usage Report' :
+                         entry.action === 'scan_system' ? 'System Metrics Report' :
+                         entry.action === 'scan_docker' ? 'Docker Image Analysis' :
+                         'Operation Details'}
                       </h4>
                       <div className="space-y-2 text-xs">
                         {(() => {
@@ -837,6 +888,71 @@ const ChatTimeline: React.FC<ChatTimelineProps> = ({ agentId, className, isScope
                                 }
                               });
                             }
+                          } else if (entry.action === 'scan_storage') {
+                            // Parse storage/disk usage information
+                            // Look for disk metrics in the stdout
+                            const diskLines = stdout.split('\n');
+                            diskLines.forEach(line => {
+                              // Match patterns like "Mount: /dev/sda1" or "Usage: 85%"
+                              const mountMatch = line.match(/(?:Mount|Filesystem|Path):\s*([^\s]+)/i);
+                              const usageMatch = line.match(/(?:Usage|Used):\s*(\d+\.?\d*%?)/i);
+                              const sizeMatch = line.match(/(?:Size|Total):\s*([^\s]+)/i);
+                              const availMatch = line.match(/(?:Available|Free):\s*([^\s]+)/i);
+
+                              if (mountMatch || usageMatch || sizeMatch || availMatch) {
+                                if (mountMatch) details.push({ label: "Mount Point", value: mountMatch[1] });
+                                if (usageMatch) details.push({ label: "Usage", value: usageMatch[1] });
+                                if (sizeMatch) details.push({ label: "Total Size", value: sizeMatch[1] });
+                                if (availMatch) details.push({ label: "Available", value: availMatch[1] });
+                              }
+                            });
+                          } else if (entry.action === 'scan_system') {
+                            // Parse system metrics (CPU, memory, processes, uptime)
+                            const cpuMatch = stdout.match(/(?:CPU|Processor):\s*([^\n]+)/i);
+                            if (cpuMatch) {
+                              details.push({ label: "CPU", value: cpuMatch[1].trim() });
+                            }
+
+                            const memoryMatch = stdout.match(/(?:Memory|RAM):\s*([^\n]+)/i);
+                            if (memoryMatch) {
+                              details.push({ label: "Memory", value: memoryMatch[1].trim() });
+                            }
+
+                            const processMatch = stdout.match(/(?:Processes|Process Count):\s*(\d+)/i);
+                            if (processMatch) {
+                              details.push({ label: "Running Processes", value: processMatch[1] });
+                            }
+
+                            const uptimeMatch = stdout.match(/(?:Uptime|Up Time):\s*([^\n]+)/i);
+                            if (uptimeMatch) {
+                              details.push({ label: "System Uptime", value: uptimeMatch[1].trim() });
+                            }
+
+                            const loadMatch = stdout.match(/(?:Load Average|Load):\s*([^\n]+)/i);
+                            if (loadMatch) {
+                              details.push({ label: "Load Average", value: loadMatch[1].trim() });
+                            }
+                          } else if (entry.action === 'scan_docker') {
+                            // Parse Docker image/container information
+                            const containerCountMatch = stdout.match(/(?:Containers|Container Count):\s*(\d+)/i);
+                            if (containerCountMatch) {
+                              details.push({ label: "Containers", value: containerCountMatch[1] });
+                            }
+
+                            const imageCountMatch = stdout.match(/(?:Images|Image Count):\s*(\d+)/i);
+                            if (imageCountMatch) {
+                              details.push({ label: "Images", value: imageCountMatch[1] });
+                            }
+
+                            const updateCountMatch = stdout.match(/(?:Updates Available|Updatable Images):\s*(\d+)/i);
+                            if (updateCountMatch) {
+                              details.push({ label: "Updates Available", value: updateCountMatch[1] });
+                            }
+
+                            const runningMatch = stdout.match(/(?:Running Containers):\s*(\d+)/i);
+                            if (runningMatch) {
+                              details.push({ label: "Running", value: runningMatch[1] });
+                            }
                           }
 
                           // Extract "Packages installed" info

aggregator-web/src/lib/api.ts

@@ -21,7 +21,10 @@ import {
   RateLimitConfig,
   RateLimitStats,
   RateLimitUsage,
-  RateLimitSummary
+  RateLimitSummary,
+  AgentSubsystem,
+  SubsystemConfig,
+  SubsystemStats
 } from '@/types';
 
 // Base URL for API - use nginx proxy
@@ -111,6 +114,52 @@ export const agentApi = {
   unregisterAgent: async (id: string): Promise<void> => {
     await api.delete(`/agents/${id}`);
   },
+
+  // Subsystem Management
+  getSubsystems: async (agentId: string): Promise<AgentSubsystem[]> => {
+    const response = await api.get(`/agents/${agentId}/subsystems`);
+    return response.data;
+  },
+
+  getSubsystem: async (agentId: string, subsystem: string): Promise<AgentSubsystem> => {
+    const response = await api.get(`/agents/${agentId}/subsystems/${subsystem}`);
+    return response.data;
+  },
+
+  updateSubsystem: async (agentId: string, subsystem: string, config: SubsystemConfig): Promise<{ message: string }> => {
+    const response = await api.patch(`/agents/${agentId}/subsystems/${subsystem}`, config);
+    return response.data;
+  },
+
+  enableSubsystem: async (agentId: string, subsystem: string): Promise<{ message: string }> => {
+    const response = await api.post(`/agents/${agentId}/subsystems/${subsystem}/enable`);
+    return response.data;
+  },
+
+  disableSubsystem: async (agentId: string, subsystem: string): Promise<{ message: string }> => {
+    const response = await api.post(`/agents/${agentId}/subsystems/${subsystem}/disable`);
+    return response.data;
+  },
+
+  triggerSubsystem: async (agentId: string, subsystem: string): Promise<{ message: string; command_id: string }> => {
+    const response = await api.post(`/agents/${agentId}/subsystems/${subsystem}/trigger`);
+    return response.data;
+  },
+
+  getSubsystemStats: async (agentId: string, subsystem: string): Promise<SubsystemStats> => {
+    const response = await api.get(`/agents/${agentId}/subsystems/${subsystem}/stats`);
+    return response.data;
+  },
+
+  setSubsystemAutoRun: async (agentId: string, subsystem: string, autoRun: boolean): Promise<{ message: string }> => {
+    const response = await api.post(`/agents/${agentId}/subsystems/${subsystem}/auto-run`, { auto_run: autoRun });
+    return response.data;
+  },
+
+  setSubsystemInterval: async (agentId: string, subsystem: string, intervalMinutes: number): Promise<{ message: string }> => {
+    const response = await api.post(`/agents/${agentId}/subsystems/${subsystem}/interval`, { interval_minutes: intervalMinutes });
+    return response.data;
+  },
 };
 
 export const updateApi = {

aggregator-web/src/types/index.ts

@@ -367,4 +367,36 @@ export interface RateLimitSummary {
   total_requests_per_minute: number;
   most_active_endpoint: string;
   average_utilization: number;
+}
+
+// Subsystem types
+export interface AgentSubsystem {
+  id: string;
+  agent_id: string;
+  subsystem: 'updates' | 'storage' | 'system' | 'docker';
+  enabled: boolean;
+  interval_minutes: number;
+  auto_run: boolean;
+  last_run_at: string | null;
+  next_run_at: string | null;
+  created_at: string;
+  updated_at: string;
+}
+
+export interface SubsystemConfig {
+  enabled?: boolean;
+  interval_minutes?: number;
+  auto_run?: boolean;
+}
+
+export interface SubsystemStats {
+  subsystem: string;
+  enabled: boolean;
+  last_run_at: string | null;
+  next_run_at: string | null;
+  interval_minutes: number;
+  auto_run: boolean;
+  run_count: number;
+  last_status: string;
+  last_duration: number;
 }