Merge pull request #46 from mnfienen/classy

Classy
removed allReaches, replaced by allSegs.seg_reaches
Merge pull request #47 from hwreeves-USGS/hwrclassy

removed allReaches, replaced by allSegs.seg_reaches
Finished the Mat1 and Mat2 output file writing. Need to sort out some of the parameters in the XML input file that are read in as if general but in truth should be reach or segment specific.

Also, the write_SFR_tables method needs testing.
mergetool auto-merged