By default, groovyc is run in a forked JVM. I guess the class path that
Gradle passes might get too long. Try:
gradle clean build -d | grep -A 50
'org.codehaus.groovy.tools.FileSystemCompiler'

If this confirms my assumption, feel free to raise an issue against Gradle.
It puts too much on the compile class path currently.

Meanwhile, you can try to run groovyc in the same JVM:

[compileGroovy, compileTestGroovy]*.groovyOptions.fork = false

You might have to raise the heap limit for the Gradle JVM:

export GRADLE_OPTS=-Xmx512m

Hope this helps.

--
Peter Niederwieser 
Developer, Gradle
http://www.gradle.org
Trainer & Consultant, Gradle Inc.
http://www.gradle.biz
Founder, Spock Framework
http://spockframework.org
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