Duplicate eclipse entry in classpath file when main and sub-projects share a dependency AND downloadSources = true

Using Gradle 1.6,

Sub-Project build.gradle contains

dependencies {
    ...
    compile group:'commons-collections',
         name:'commons-collections',
       version:'3.2'
    ...
}

The main project has no direct dependency to commons-collections. Its build.gradle contains

// ----------------------------------------------------------------
// Sub-projects
// ----------------------------------------------------------------
def CSOS
        = "csos-trunk"
evaluationDependsOn(":${CSOS}")
// ensure the relevant sub-projects are parsed before this one
  // -----------------------------------------------------------------------------
// Build Configurations
// -----------------------------------------------------------------------------
configurations {
 // compile is to contain ALL server side compile time dependencies
  compile {
    transitive = false
 }
 // gwt contains compile time dependencies (and also runtime) that are exclusively client side only
 // any dependencies shared with the "server" should be defined in the "compile" group
 gwt {
  extendsFrom compile
 // gwt contains ALL client side dependencies
  transitive = false
 // without this line transitive is true
 }
      ...
}
  dependencies {
 // --------------------------------------------------------------------------------------------------------------------------------------------
 // sub projects "compile" dependencies
  // --------------------------------------------------------------------------------------------------------------------------------------------
 compile project(":${CSOS}").sourceSets.main.output
    ...
}
  // ----------------------------------------------------------------
// File locations
 // ----------------------------------------------------------------
def DIR_BUILD_GWT_DEV
    = "war"
def DIR_CLASSES
          = "${DIR_BUILD_GWT_DEV}/WEB-INF/classes"
def DIR_TEST_CLASSES
     = "build/classes/test"
def DIR_TEST_RESOURCES
   = "build/resources/test"
  eclipse {
 project {
  referencedProjects "${CSOS}"
  }
 classpath {
  // Remove the comment below to get rid of Eclipse classpath file duplicates
  //downloadSources = false
            plusConfigurations += configurations.gwt // ensure gwt dependencies are included
   defaultOutputDir = new File(DIR_CLASSES)
  // separate the main and test eclipse output into separate folders
  file {
   whenMerged { cp ->
    cp.entries.findAll { it instanceof SourceFolder && it.path.startsWith("src/main") }*.output = "${DIR_CLASSES}"
    cp.entries.findAll { it instanceof SourceFolder && it.path.startsWith("src/test/java") }*.output = "${DIR_TEST_CLASSES}"
    cp.entries.findAll { it instanceof SourceFolder && it.path.startsWith("src/test/resources") }*.output = "${DIR_TEST_RESOURCES}"
   }
  }
 }
}

On the main project, “gradle dependencies” produces

runtime - Runtime classpath for source set 'main'.
...
+--- net.sf.gilead:gilead4gwt:1.3.0
|
  +--- net.sf.gilead:gilead-core:1.3.0 (*)
|
  +--- net.sf.gilead:gilead-hibernate:1.3.0
|
  |
  +--- net.sf.gilead:gilead-core:1.3.0 (*)
|
  |
  +--- org.hibernate:hibernate:3.2.6.ga
|
  |
  |
  +--- net.sf.ehcache:ehcache:1.2.3
|
  |
  |
  |
  \--- commons-collections:commons-collections:2.1 -> 3.2
...

After “gradle eclipse”, eclipse complains about the .classpath file stating

Build path contains duplicate entry: '<repository-path>/filestore/commons-collections/commons-collections/3.2/jar/<md5>/commons-collections-3.2.jar for project <name>

And the .classpath file contains the following duplicate entries

<classpathentry sourcepath="C:/Users/pwills/.gradle/caches/artifacts-24/filestore/commons-collections/commons-collections/3.2/source/73d0340eaecbb0ec9d3e0ace90547ef08cbfaf27/commons-collections-3.2-sources.jar" kind="lib" path="C:/Users/pwills/.gradle/caches/artifacts-24/filestore/commons-collections/commons-collections/3.2/jar/f951934aa5ae5a88d7e6dfaa6d32307d834a88be/commons-collections-3.2.jar" exported="true"/>
 <classpathentry kind="lib" path="C:/Users/pwills/.gradle/caches/artifacts-24/filestore/commons-collections/commons-collections/3.2/jar/f951934aa5ae5a88d7e6dfaa6d32307d834a88be/commons-collections-3.2.jar" exported="true"/>

If I change the eclipse task so that downloadSources = false, then the duplicate disappears.