The way OpenJPA bootstraps, persistence.xml wins over System.properties.
Pass a map like so Persistence.createEntityManagerFactory("your_pu_name",
propertyOveridesMap).
If you need to override for say test versus production, you can move your
properties from persistence.xml to openjpa.xml, see
http://openjpa.apache.org/builds/2.0.1/apache-openjpa-2.0.1/docs/manual/ref_guide_conf_specify.html
http://openjpa.apache.org/builds/2.0.1/apache-openjpa-2.0.1/docs/manual/ref_guide_conf_specify.html
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