Added more species to CPD thermo library.
Changes to database made by Aaron Vandeputte.
Merge branch 'master' of git://github.com/GreenGroup/RMG-Java into jp10
Added new reaction family Intramolecular Diels Alder.
Aaron's changes to kinetics groups
Aaron's changes to JP10 kinetics libraries
JP10 thermo libraries update
Aaron's changes to thermo groups
Allow all kinetics families
All of Aar's changnges
Added function for finding the closest distance between two nodes
in a graph
Modifications to make intra H migration use smallest ring template.

Temporary hack.  This code may be suspicious.
Updating database changes to multiple families for JP10

Adding new famil&ies 14Birad and 14Birad2
Updated intraHmigration, Intra add Endocyclic, Intra add Exocyclic
R addition to Multiple bond
Added function for finding the closest distance between two nodes
in a graph
Modifications to make intra H migration use smallest ring template.

Temporary hack.  This code may be suspicious.
Removal of some groups from the intra H migration library
Still looking for a way around the fact that the new code recognizes duplicate reactions although the small ring reaction is not recognized due to radical sites in the bran
Updating aromatic perception
updated Sandeep`s algoritm to sample an additional time through all rings when an aromatic ring is recognized
solves naphtalene problems (checked for benzene, naphtalene, anthracene, corene and C7H8)
Debugging to account for phenyl radical

C in ring with 2 adjacent neighbours breaks aromaticity
this commit will not recognize benzyne as being aromatic, need to correct with ring corrections
Fix to minimum distance finder for nodes in a chemgraph.
Fix to minimum distance finder for nodes in a chemgraph.