Added utility method for path to repo folder.
Revert "Added utility method for path to repo folder."

This reverts commit 1e5fb526ca91d00e8127da533d7b596937aa5d4d.
Jenkins: unit tests passed with bundle update, updating Gemfile.lock
Make user config settings override existing
Jenkins: unit tests passed with bundle update, updating Gemfile.lock
Jenkins: unit tests passed with bundle update, updating Gemfile.lock
increase memory for java parsing process
Create CSV file of ontology classes.

For a given ontology, generates a CSV file of all the classes in the
ontology.  Only includes columns for standard properties.  Fixes
NCBO-371.
Jenkins: unit tests passed with bundle update, updating Gemfile.lock
Unit test improvements.
Jenkins: unit tests passed with bundle update, updating Gemfile.lock
Merge branch 'ncbo-371' into staging
Jenkins: unit tests passed with bundle update, updating Gemfile.lock
Jenkins: unit tests passed with bundle update, updating Gemfile.lock
User#to_s should output just the username
Remove extra require of ontologies_linked_data
Gemfile.lock update
Compress ontology CSV files.  See #NCBO-371.
Resolving conflict.
Jenkins: unit tests passed with bundle update, updating Gemfile.lock