sdk: Conflict resolution from desktop MSBuild fails to get assembly identity from cross-gen'ed linux binaries

1. Crete a new console project.
2. Modify the contents to the following.

<Project Sdk="Microsoft.NET.Sdk">

  <PropertyGroup>
    <OutputType>Exe</OutputType>
    <TargetFramework>netcoreapp2.0</TargetFramework>
    <RuntimeIdentifier>centos.7-x64</RuntimeIdentifier>
  </PropertyGroup>

  <ItemGroup>
    <PackageReference Include="System.Threading" Version="4.3.0" />
  </ItemGroup>

</Project>

1. dotnet restore
2. dotnet publish --> works correctly
3. msbuild /t:publish --> app will fail to start with a refdef mismatch for System.Threading.

This is because the System.Threading.dll conflict isn’t being resolved. If you examine the log you’ll see

Encountered conflict between 'CopyLocal:C:\Users\ericstj\.nuget\packages\runtime.linux-x64.microsoft.netcore.app\2.0.0\runtimes\linux-x64\lib\netcoreapp2.0\System.Threading.dll' and 'CopyLocal:C:\Users\ericstj\.nuget\packages\system.threading\4.3.0\lib\netstandard1.3\System.Threading.dll'.  Could not determine a winner because 'CopyLocal:C:\Users\ericstj\.nuget\packages\runtime.linux-x64.microsoft.netcore.app\2.0.0\runtimes\linux-x64\lib\netcoreapp2.0\System.Threading.dll' is not an assembly.

Compare this to the following in dotnet publish:

Encountered conflict between 'CopyLocal:C:\Users\ericstj\.nuget\packages\runtime.linux-x64.microsoft.netcore.app\2.0.0\runtimes\linux-x64\lib\netcoreapp2.0\System.Threading.dll' and 'CopyLocal:C:\Users\ericstj\.nuget\packages\system.threading\4.0.11\lib\netstandard1.3\System.Threading.dll'.  Choosing 'CopyLocal:C:\Users\ericstj\.nuget\packages\runtime.linux-x64.microsoft.netcore.app\2.0.0\runtimes\linux-x64\lib\netcoreapp2.0\System.Threading.dll' because AssemblyVersion '4.1.0.0' is greater than '4.0.11.0'.

It would seem that the desktop implementation for getting the assembly version can’t handle the cross-gened assemblies, however the core implementation can.