Using IoC with WPF + Prism in MVVM

I am working on an application that uses Prism's Unity for resolving dependency injection. But the problem is views and view models are arranges in their folders as:

But the problem is AutoWire method is working. So, I have to manually inject objects to resolve data context. my bootstrapper.cs class looks like this:

 public class Bootstrapper : UnityBootstrapper

 { 

      protected override DependencyObject CreateShell() 

      {

          return this.Container.Resolve<Views.MainWindow>();

      }

      protected override void InitializeShell()

      {

          Application.Current.MainWindow.Show();

      }

      protected override void ConfigureContainer() 

      {

          base.ConfigureContainer(); 

         /*RegisterTypeIfMissing(typeof(IUnitOfWork),typeof(UnityServiceLocatorAdapter), true);     

          RegisterTypeIfMissing(typeof(IDbFactory), typeof(UnityServiceLocatorAdapter), true);       

          RegisterTypeIfMissing(typeof(IBlockRepository),typeof(UnityServiceLocatorAdapter), true);     

     RegisterTypeIfMissing(typeof(IBlockService), typeof(UnityServiceLocatorAdapter), true);

*/

 //            Container.RegisterType(typeof(object), typeof(DashboardView), "DashboardView");

 /*Container.RegisterType(typeof(object), typeof(ViewA), "ViewA");   

      Container.RegisterType(typeof(object), typeof(ViewB), "ViewB");*/

 Container.RegisterType<IUnitOfWork, UnitOfWork>();

 Container.RegisterType<IDbFactory, DbFactory>(); 

Container.RegisterType<IUnitOfWork, UnitOfWork>("UnitOfWork", new ContainerControlledLifetimeManager()); 

Container.Resolve<IUnitOfWork>("UnitOfWork"); 

Container.RegisterType<IDbFactory, DbFactory>("DbFactory", new ContainerControlledLifetimeManager()); 

Container.Resolve<IDbFactory>("DbFactory");

 #region Register Repositories 

//  Container.RegisterType(); 

// Container.RegisterType(); 

Container.RegisterType<IFloorRepository, FloorRepository>("FloorRepository", new ContainerControlledLifetimeManager()); 

Container.Resolve<IFloorRepository>("FloorRepository"); 

Container.RegisterType<IBlockRepository, BlockRepository>("BlockRepository", new ContainerControlledLifetimeManager()); 

Container.Resolve<IBlockRepository>("BlockRepository"); 

Container.RegisterType<IUnitRepository, UnitRepository>("UnitRepository", new ContainerControlledLifetimeManager()); 

Container.Resolve<IUnitRepository>("UnitRepository"); 

Container.RegisterType<IResidentRepository, ResidentRepository>("ResidentRepository", new ContainerControlledLifetimeManager()); 

Container.Resolve<IResidentRepository>("ResidentRepository"); 

#endregion 

//            Container.Resolve(); 

#region Register Services 

Container.RegisterType<IBlockService, BlockService>("BlockService", new ContainerControlledLifetimeManager());

 //    Container.Resolve("BlockService"); 

//            //  Container.Resolve("BlockService"); 

//   Container.RegisterInstance(new BlockService(), new ContainerControlledLifetimeManager()); 

// Container.RegisterInstance(new BlockService(), new ContainerControlledLifetimeManager()); 

#endregion 

#region Register View Navigation

 Container.RegisterTypeForNavigation<DashboardView>(NavCommandParams.DashboardView); 

Container.RegisterTypeForNavigation<ManageBlocksView>(NavCommandParams.ManageBlocksView);

 Container.RegisterTypeForNavigation<BlocksListView>(NavCommandParams.BlocksListView); 

Container.RegisterTypeForNavigation<ManageUnitsView>(NavCommandParams.ManageUnitsView);

 Container.RegisterTypeForNavigation<UnitsListView>(NavCommandParams.UnitsListView); 

Container.RegisterTypeForNavigation<ManageFloorsView>(NavCommandParams.ManageFloorsView);

 Container.RegisterTypeForNavigation<FloorsListView>(NavCommandParams.FloorsListView); 

Container.RegisterTypeForNavigation<ManageResidentsView>(NavCommandParams.ManageResidentView); 

Container.RegisterTypeForNavigation<ResidentListView>(NavCommandParams.ResidentListView);

 #endregion //                      

  Container.RegisterTypeForNavigation("BlockFormDialogView");

 //  Container.RegisterTypeForNavigation("TopMenuView"); 

/*ViewModelLocationProvider.SetDefaultViewTypeToViewModelTypeResolver(x =>       {    

         var viewName = x.FullName;    

         viewName = viewName.Replace(".Views.", ".ViewModels.");    

         var viewAssemblyName = x.GetTypeInfo().Assembly.FullName;      

       var suffix = viewName.EndsWith("View") ? "Model" : "ViewModel";  

           var viewModelName = string.Format(CultureInfo.InvariantCulture, "{0}{1}, {2}", viewName, suffix, viewAssemblyName); 

       return Type.GetType(viewModelName);       

  });         

ViewModelLocationProvider.SetDefaultViewModelFactory(type => Container.Resolve(type));*/

 }

 /*

protected override void ConfigureViewModelLocator() 

    {

         base.ConfigureViewModelLocator();        

  ViewModelLocationProvider.SetDefaultViewTypeToViewModelTypeResolver(viewType =>        

 {

             var viewName = viewType.FullName;    

         viewName = viewName.Replace(".Views.", ".ViewModels.");  

           var viewAssemblyName = viewType.GetTypeInfo().Assembly.FullName;  

           var suffix = viewName.EndsWith("View") ? "Model" : "ViewModel";     

        var viewModelName = String.Format(CultureInfo.InvariantCulture, "{0}{1}", viewName, suffix);       

       var assembly = viewType.GetTypeInfo().Assembly;             

var type = assembly.GetType(viewModelName, true);              return type;    

     });     }*/ 

} 

 public static class UnityExtentions

 {

 public static void RegisterTypeForNavigation<T>(this IUnityContainer unityContainer, string name)

 {

         unityContainer.RegisterType(typeof(object), typeof(T), name);

 }

 }

This project also uses repository and unit of work pattern but that's on a different layer but to create an object of any ViewModel I have to manually inject all those objects.

Is there any way to do this via IoC within Prism Unity.