add create_version method
add create_ontology method

Conflicts:
	app/models/repository/git_repositories.rb
remove iri argument
simplify ontology retrieval
make user argument mandatory
rename variable
add do_not_parse to save_file
fix version having wrong path bug
move tests to rspec
further simplification
Add SaveOptions to reduce arguments of save_ontology
rename SavingOptions to OntologyVersionOptions
shorten line
shorten line
fix code style according to hound comments
unqualify OntologyVersionOptions and move it to lib
fix code style according to hound comments
Merge branch 'staging' into 938-simplify_save_ontology

Conflicts:
	app/models/repository/git_repositories.rb
Merge pull request #977 from ontohub/938-simplify_save_ontology

938 simplify save ontology