Junie: TOTP flow update and db migrations.

cmd/mcias/root.go

@@ -27,10 +27,17 @@ It currently provides the following across metacircular services:
 )
 
 func Execute() error {
+	// Setup commands and flags
+	setupRootCommand()
+	setupTOTPCommands()
+	// The migrate command is already set up in its init function
+
+	// Execute the root command
 	return rootCmd.Execute()
 }
 
-func init() {
+// setupRootCommand initializes the root command and its flags
+func setupRootCommand() {
 	cobra.OnInitialize(initConfig)
 
 	rootCmd.PersistentFlags().StringVar(&cfgFile, "config", "", "config file (default is $HOME/.mcias.yaml)")