Comment from #9:

With this commit, all the pregelix test cases have started failing (see the differences between with this commit and without this commit.

Perhaps the reason is related to the different base directory? the NullPointerException is caused when trying to iterate over new File(PATH_TO_JOBS).listFiles() in https://github.com/uci-cbcl/genomix/blob/genomix/fullstack_genomix/genomix/genomix-pregelix/src/test/java/edu/uci/ics/genomix/pregelix/JobRun/BasicGraphCleanTestSuite.java#L151