minor format changes
fixed output filename generation for galaxy support
more formatting changes to support galaxy and fastq comments
added --histogram-file option
added purgeMinDepth to DNA.  added optimize/sort to purgeMinDepth for better performance
minor changes
fixed warning to go to --log-file.  added contig extender dataset
added contig extender dataset
trap exceptions better
adjusted bucket count formulas for weak and singlton KmerMaps
added logging of mpi buffer sizes
adjusted KmerArray to allow for mixed sorted and unsorted ranges to support faster KmerSpectrum building
fixed bug where cmd line --threads was overridden by environment
changed logging
changed logging
fixed some mpi and thread problems
fixed OpenMP issue detecting the number of threads
tracking more timings in MPIBuffer
attempt to improve performance when threaded in MPIBuildKmerSpectrum
refactored signal handling and exception mangement to gracefully handle out of memory exceptions and kill signals