Function runGraph

apps/cli/internal/cli/graph.go:86–303

nolint:gocognit,gocyclo,funlen // TODO: refactor to reduce complexity

(cmd *cobra.Command, args []string)

//nolint:gocognit,gocyclo,funlen // TODO: refactor to reduce complexity
func runGraph(cmd *cobra.Command, args []string) error {
	flags := GetGlobalFlags()

	// Validate conflicting flags
	if graphUpstream && graphDownstream {
		return fmt.Errorf("cannot use both --upstream and --downstream")
	}

	// --all overrides --exclude-status
	if graphAll {
		graphExcludeStatus = []string{}
	}

	scanDir := ResolveScanDir(args)

	// Create scanner and scan for tasks
	taskScanner := scanner.NewScanner(scanDir, flags.Verbose, flags.IgnoreDirs)
	result, err := taskScanner.Scan()
	if err != nil {
		return fmt.Errorf("scan failed: %w", err)
	}

	tasks := result.Tasks

	// Report any scan errors if verbose
	if flags.Verbose && len(result.Errors) > 0 {
		fmt.Fprintf(os.Stderr, "\nWarning: encountered %d errors during scan:\n", len(result.Errors))
		for _, scanErr := range result.Errors {
			fmt.Fprintf(os.Stderr, "  %s: %v\n", scanErr.FilePath, scanErr.Error)
		}
		fmt.Fprintln(os.Stderr)
	}

	warnDuplicateIDs(tasks)

	filtered := false

	// Apply shortcut and generic filters
	shortcuts := FilterShortcuts{
		Status:   graphStatus,
		Priority: graphPriority,
		Phase:    graphPhase,
		Scope:    graphScope,
		Filters:  graphFilters,
	}
	hasShortcutFilters := shortcuts.Status != "" || shortcuts.Priority != "" ||
		shortcuts.Phase != "" || shortcuts.Scope != "" || len(shortcuts.Filters) > 0
	if hasShortcutFilters {
		tasks, err = applyShortcutFilters(tasks, shortcuts)
		if err != nil {
			return err
		}
		filtered = true
	}

	// Filter tasks by status if requested
	if len(graphExcludeStatus) > 0 {
		excludeMap := make(map[string]bool)