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java.lang.NullPointerException at owltools.cli.CommandRunner.runSingleIteration(CommandRunner.java:531) at owltools.cli.CommandRunnerBase.run(CommandRunnerBase.java:76) at owltools.cli.CommandRunner.run(CommandRunner.java:237) at owltools.cli.CommandRunnerBase.run(CommandRunnerBase.java:68) at owltools.cli.CommandRunner.run(CommandRunner.java:237) at owltools.cli.CommandLineInterface.main(CommandLineInterface.java:12)