[MRH] Updated Species.java
[MRH] Updated Species.java

1) RMG did not correctly convert an InChI to an adjacency list (InChI2AdjList.java) for single heavy atom radical species.  The problem was that MRH assumed the radical information would be stored in the "M RAD" lines located at the bottom of a .mol file.  For these single heavy atom radical species (using InChI-v.1.01) that is not the case.  The information is stored under the "atom block" using the "valence" flag.  RMG now checks the status of this flag for any .mol file with a single heavy atom.

2) I updated the Species.make(String,ChemGraph,int) function.  This is only used when making species stored in a Restart file.  Before, RMG would check each new species against the SpeciesDictionary.  Since I know all of the species are unique, I just make the species and put it in the dictionary (less chemgraph comparisons).

KEHANG/RMG-Java,jwallen/RMG-Java,keceli/RMG-Java,keceli/RMG-Java,enochd/RMG-Java,enochd/RMG-Java,rwest/RMG-Java,ReactionMechanismGenerator/RMG-Java,keceli/RMG-Java,KEHANG/RMG-Java,rwest/RMG-Java,faribas/RMG-Java,connie/RMG-Java,rwest/RMG-Java,KEHANG/RMG-Java,ReactionMechanismGenerator/RMG-Java,jwallen/RMG-Java,enochd/RMG-Java,nyee/RMG-Java,KEHANG/RMG-Java,jwallen/RMG-Java,connie/RMG-Java,enochd/RMG-Java,keceli/RMG-Java,keceli/RMG-Java,nyee/RMG-Java,connie/RMG-Java,ReactionMechanismGenerator/RMG-Java,KEHANG/RMG-Java,rwest/RMG-Java,jwallen/RMG-Java,connie/RMG-Java,faribas/RMG-Java,enochd/RMG-Java,nyee/RMG-Java,faribas/RMG-Java,rwest/RMG-Java,connie/RMG-Java,nyee/RMG-Java,KEHANG/RMG-Java,enochd/RMG-Java,nyee/RMG-Java,nyee/RMG-Java,jwallen/RMG-Java,keceli/RMG-Java,jwallen/RMG-Java,ReactionMechanismGenerator/RMG-Java,faribas/RMG-Java,ReactionMechanismGenerator/RMG-Java