Web.Config in subdirectory inheriting configuration from root of Website

I have a DNN webite running in DirectoryA underneath that there is a separate application running in DirectoryA\DirectoryB. They both have web.config files and are defined as unique applications in IIS.
It's been a while since I did any ASP.NET development so I don't recall how to stop the web.config for ApplicationB from inheriting certain configuration keys from applicationA.

ApplicationA is a dotnetnuke application running in the Default Application Pool
ApplicationB is a C# web app running it's own Application Pool (folder name)

I understand what's happening I just don't know how to remedy it.

the first hangup in applicationB is below and it's getting that key from ApplicationA's web.config (DNN)


Description: An error occurred during the processing of a configuration file required to service this request. Please review the specific error details below and modify your configuration file appropriately.

Parser Error Message: The code subdirectory '/owner/App_Code/HTML/' does not exist.

Source Error:


Line 104:      -->
Line 105:      <codeSubDirectories>
Line 106:        <add directoryName="HTML" />
Line 107:      </codeSubDirectories>
Line 108:    </compilation>

LVL 9
Michael KnightAsked:
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samtran0331Commented:
Have you seen this?
http://www.aspdotnetfaq.com/Faq/how-to-disable-web-config-inheritance-for-child-applications-in-subfolders-in-asp-net.aspx

Read the entire article...but the important part starts at:
"Here is the solution:"

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Michael KnightAuthor Commented:
that's the one, thanks.
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