ASP.global_asax is missing from compiled Assembly

I am using aspnet___compiler.exe to compile my asp.net 3.5SP1 websites, then 开发者_开发知识库aspnet_merge.exe to merge the assemblies into a single one.

The assembly is then uploaded to the production server. This usually works pretty well but sometimes when testing on the staging server I get the following message:

Parser Error Message: Could not load file or assembly 'App_global.asax, Version=0.0.0.0, Culture=neutral, PublicKeyToken=null' or one of its dependencies. The system cannot find the file specified.

When looking at the assembly with Reflector and comparing it with a working version of the same assembly I see that the type ASP.global_asax is indeed missing.

When changing something on the site and compiling it again, I get a working version that includes 'ASP.global_asax'.

This is kind of annoying, I am wondering whether this is a bug in the compiler in some special circumstances?

Anybody else encountered this and found out how to fix it?

I've been running into this issue today and found this:

http://blogs.msdn.com/b/isha/archive/2009/04/04/issues-with-wcf-service-when-the-asp-net-website-is-deployed-using-the-web-deployment-project-and-as-non-updatable-project.aspx