Controls Not Recognized in VS 2012

I have a project with 15-20 custom controls which are assigned in web.config file. I had no problem to publish the website while I used to have VS 2010.

When I installed VS 2012 my custom controls are not recognized while publish. I can build the project without problem but I can't publish that in the local folder.

Any thing change from 2010 to 2012?

I have different tagPrefix for user customControls and server controls.

https://connect.microsoft.com/VisualStudio/feedback/details/758383/problems-with-intellisense-when-mixing-usercontrols-and-controls-in-the-same-tagprefix

Any help is highly appreciated.

<controls><add tagPrefix="tip" namespace="CustomControls"/><add tagPrefix="tip" src="~/App_Controls/Buildings.ascx" tagName="Buildings"/><add tagPrefix="tip" src="~/App_Controls/Billing.aspx" tagName="Billing"/>
................<add tagPrefix="asp" namespace="System.Web.UI" assembly="System.Web.Extensions, Version=3.5.0.0, Culture=neutral, PublicKeyToken=31BF3856AD364"/><add tagPrefix="asp" namespace="System.Web.UI.WebControls" assembly="System.Web.Extensions, Version=3.5.0.0, Culture=neutral, PublicKeyToken=31BF3856AD364"/></controls>