You may also put this in a file like /etc/tomcat6/policy.d/99custom-
fixes.policy :

grant codeBase "file:${catalina.home}/bin/tomcat-juli.jar" {
        permission java.lang.RuntimePermission "setContextClassLoader";
};

... does the job without too widely opening security.

-- 
Tomcat security configuration error prevents proper logging when used with 
Sun's JVM
https://bugs.launchpad.net/bugs/410379
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