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http://jira.codehaus.org/browse/MCLOVER-70?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel#action_94704
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Indrajit Khare commented on MCLOVER-70:
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I noticed this recently as well.  Using the maven-clover-plugin does not give 
comprehensive coverage numbers.  For projects that have modules that are 
dependent transitively non-clovered jars are being used for the dependencies 
when running tests in clover:instrument.

> Non-Clovered Jars used for Transitive Dependencies
> --------------------------------------------------
>
>                 Key: MCLOVER-70
>                 URL: http://jira.codehaus.org/browse/MCLOVER-70
>             Project: Maven 2.x Clover Plugin
>          Issue Type: Bug
>    Affects Versions: 2.3
>            Reporter: James Olsen
>
> When executing tests or building ear/war archives, the plugin is not using 
> instrumented jars for transitive dependencies.  The ordinary jar is used 
> instead.  Hence no test coverage stats are obtained for those components.  
> Adding the transitive dependency as a direct dependency on the project 
> results in both the instrumented and plain jar appearing in the archive.  I 
> presume the same also happens for the unit test classpath although I haven't 
> confirmed.
> The plugin should use the instrumented version of the jar where available 
> regardless of whether the dependency is direct or transitive.

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