running dotcover from VS2013 IDE vs command line produce different results Follow

When I try to run dotcover using VS2013 IDE the report generated is different compared to when being ran from a command line.  Why is this happening?


This is part of my msbuild script

<LocalDrive Condition="'$(LocalDrive)'==''">E:\</LocalDrive>
<BuildFolder Condition="'$(BuildFolder)'==''">$(LocalDrive)BCS</BuildFolder>
<VSPath Condition="'$(VSPath)'==''">C:\Program Files (x86)\Microsoft Visual Studio 12.0</VSPath>

<DotCoverResultsPath Condition="'$(DotCoverResultsPath)'==''">$(MSBuildProjectDirectory)\dotCover</DotCoverResultsPath>
<DotCoverOutDir Condition="'$(DotCoverOutDir)'==''">$(MSBuildProjectDirectory)\CodeQuality\dotCover</DotCoverOutDir>
<DotCoverSnapshotDir Condition="'$(DotCoverSnapshotDir)'==''">$(LocalDrive)Apps\DotCover\snapshot</DotCoverSnapshotDir>
<DotCoverPath Condition="'$(DotCoverPath)'==''">$(JenkinsWSPath)\ZipResult\DotCoverLogZip</DotCoverPath>
<dotCoverExePath Condition="'$(dotCoverExePath)'==''">$(LocalDrive)Program Files (x86)\JetBrains\dotCover\v2.7\Bin\dotCover.exe</dotCoverExePath>

<VSTestResultsPath Condition="'$(VSTestResultsPath)'==''">$(MSBuildProjectDirectory)\TestResults</VSTestResultsPath>
<MsTestPath Condition="'$(MsTestPath)'==''">$(VSPath)\Common7\IDE\CommonExtensions\Microsoft\TestWindow\vstest.console.exe</MsTestPath>
<MsTestResultPath Condition="'$(MsTestResultPath)'==''">$(VSPath)\Common7\IDE\TestResults</MsTestResultPath>

<Target Name="integration" >
    <ItemGroup>
        <TestAssemblies Include="$(BuildFolder)\Main\Dev\bin\*.Tests.Integration.dll"/>
    </ItemGroup>
    
    <!--<Target Name="integration">-->
    <!-- Call CheckOneAssemblyFile foreach file in TestAssemblies -->
    <MSBuild Projects="$(MSBuildProjectFile)"
        Properties="CurrAssemblyFile=%(TestAssemblies.FileName);CurrAssemblyFullPath=%(TestAssemblies.FullPath);TestResPath=$(DotCoverResultsPath);DCoverOutDir=$(DotCoverOutDir);CtOnErr=$(ContOnError);
        DCoverSSDir=$(DotCoverSnapshotDir)"  Targets="CheckOneAssemblyFile">
    </MSBuild>
</Target>

<Target Name="CheckOneAssemblyFile">
    <PropertyGroup>
        <TestAssembliesName>"$(CurrAssemblyFile.Replace(".Tests.Integration",""))"</TestAssembliesName>
    </PropertyGroup>

    <!-- This will produce an htm output -->
    <Message Text="Perform coverage analysis" Importance="high"/>

    <Exec Command='"$(MsTestPath)" "$(CurrAssemblyFullPath)" /Settings:&quot;$(BuildFolder)\Main\Dev\local.testsettings&quot; /Logger:TRX /framework:Framework45 /platform:x64 /inIsolation' ContinueOnError='$(CtOnErr)'/>

</Target>