Create 'whole_organism' structure on a leading sentence not starting
with an organ. 
Added OntologyFactory for partOfFile or other formal ontologies.
"." in the middle of a sentence should not be treated as an
End_Of_SubClause chunk. They are unassigned and be ignored in the
processing step. 
Processed 'or' in chromomsome counts (x = 3, 5, or 7). Moved
chromosomeChunking after organChunking.