new version 1.3

fixed compiler warnings

fixed mpi compiler warnings and build bugs

fixed comments on output reads and adjusted tests to reflect new comm…

…ent structure

fixed ReadSetStream to auto-detect fastq quality (as best it can). Fi…

…xed runFilterTest and runMeraculousTest to account for quality scaling

reduced verbositiy of debug messages

fixed assertions

fixed minor bugs in AddNewbler bransh

set Kmernator version to 1.2

bugfix in buildReferenceMap