This might be related with #52 .
In https://github.com/linkedin/dynamometer/blob/master/dynamometer-infra/src/main/java/com/linkedin/dynamometer/Client.java#L327 it is trying to find whether there is help option entered for the function, but internally it is using a GnuParser (which is deprecated from version 1.3), and during the flatten process it will try to pull the substring of -h from option -hadoop_binary_path and thinks it is asking for help information.
Note this only happens when you put the -hadoop_binary_path as the first option since other options will make the flatten end early.