Revision history for ONTO-PERL
==============================

0.01  Wed Jun  7 13:05:23 2006
	- original version; created by h2xs 1.23 with options
		-AXc -n CCO
		
0.xx ...

0.22 Improvements in exports

0.23 obo2owl methods were enhanced

0.24 Ontology.pm has many more functionalities

0.25 GOA parser, OBO parser enhanced

0.26 Enhanced: NCBIParser.pm, GoaParser.pm and Ontology.pm

0.27 obo2owl transformation updated, new modules for dealing with IDs

0.28 Performance improvement (code tuning)

0.29 More adjustments to follow OBO 1.2 spec, Set data structures improved

0.30 In sync with oboInOwl, IntAct modules

0.31 oboInOwl as well as ontology exports to OBO and OWL were improved

0.32 obo2owl and owl2obo scripts updated and improved, OBO and OWL Parsers enhanced

1.0  Ontology union/intersection methods are now available. Many more tests were added and examples of usage

1.01 CPAN test report fixed (SKIP tests when the required modules are missing)

1.02 'subsets' for relationship types are now supported, test improvements

1.03 export order improved (alphabetical way)

1.04 more 'order' improvements in test files

1.05 dates treatment is now WindowsTM compatible

1.06 documentation has been enhanced: many more examples, PODs, etc.

1.07 dbxref's parsing has been relaxed and improved. 'onto-perl' became 'ONTO-PERL' and some files were moved to more meaningful directories

1.08 RDF export is now available (obo2rdf.pl). Improved documentation.

1.09 Minor documentation improvements. Performance improvement for CCO-related modules. 

1.10 Added missing file (obo2rdf.pl)

1.11 Documentation and cosmetic improvements. Minor bug fixes.

1.12 CCO related modules were improved.

1.13 IntAct parser tests fixed. New RDF related modules.

1.14 Fixed issue related to the missing 'lib' directory.

1.15 Fixed issue with URL's that were hard-coded.

1.16 obo2owl ready for Galaxy.

1.17 Added some more scripts.

1.18 Added missing scripts.

1.19 Fixed old bug (multiple relationships between 2 terms). Added 3 more scripts (trimming, get sub-ontology, and get terms by name).

1.20 Fixed DbXref bug (http-like URLs).

1.21 New scripts (get_obsolete_terms.pl and get_root_terms.pl). POD improvements.

1.22 Added get_term_synonyms.pl; Added $VERSION to Ontology.pm; RegExp improvements.

1.23 Added support for 'created_by' and 'creation_date' tags; fixed bug in synonyms parsing.

1.24 Added new classes to deal with OBO ID in a more generic way; added many more tests; fixed bug when a term def was empty.

1.25 IDspaces are now better supported; more tests added; removed unnecessary code.

1.26 IDspaces bug fix; new set: IDspaceSet; code cleaning. Improved exports.

1.27 Closed some TODO's. Some refactoring to comply with the OBO guide. New modules Subset.pm and Map.pm

1.28 Added missing file (SubsetDefSet.pm), which broke many tests. Fixed minor bugs.