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National Cancer Institute Center for Bioinformatics
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LexEVS 5.0 Release Notes

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May 08 2009

Product Changes

• New Feature: Removed convenience methods for codeToName
  EVS:CF#15222
• New Feature: Update to work with SDK 4.1
  EVS:CF#15942
• New Feature: Javadocs should open in new window
  EVS:CF#16686
• New Feature: LexBIG GUI launch support for OSX environment
  EVS:CF#16989
• New Feature: Import RRF Representation of Relationship Groups
  EVS:CF#17019
• New Feature: CodingSchemeId not present in exported LexGrid XML
  EVS:CF#17183
• New Feature: OWL Loader Enhancements
  EVS:CF#17233
• New Feature: Finalize BDA for 5.0 release
  EVS:CF#17508
• New Feature: Model revisions & readiness for Silver/Gold Compatibility
  (scope modified & approved 1/14/09)
  EVS:CF#17509
• New Feature: 5.0 Data Services/SDK
  EVS:CF#17511
• New Feature: 2009/01 model changes
  (please see Gforge tracker for more detail on the nature of the changes and further descriptions)
  EVS:CF#18449
• New Feature: Add 'namespace' to the Lucene Indexes
  EVS:CF#19883
• New Feature: Change name of ProtegeFramesLoader to RadlexProtegeFramesLoader
  EVS:CF#19888
• New Feature: Rename getParentsOf() and getChildrenOf()
  EVS:CF#19889
• New Feature: Support query of non-concept entities
  EVS:CF#19890
• New Feature: Creation of XSL stylesheets for transformation of LexBig data to n-1 LexBig versions
  EVS:CF#20043

• Bug: Implement getAssociation for EVS API web service
  EVS:CF#15091
• Bug: Two constructors create ConceptReferenceList methods throw exceptions
  EVS:CF#15976
• Bug: Example to dump/query auxiliary metadata
  EVS:CF#16508
• Bug: Better error handling for invalid search criteria in http interface
  EVS:CF#16579
• Bug: Users should have the ability to request Search results be sorted
  EVS:CF#17161
• Bug: Remove JUnit test dependency on 'Automobiles' vocab for LexEVS Grid Services
  EVS:CF#17405
• Bug: Change -nf option to -fe (fail on error)
  EVS:CF#17410
• Bug: EntityDescription not assigned to the NCI PT (rdfs:label) using Scrubber output
  EVS:CF#17421
• Bug: LexBIG History 'getEditActionList' Error
  EVS:CF#19411
• Bug: Owl loader fails when duplicate objectProperty is loaded from two namespaces
  EVS:CF#19462
• Bug: Supported Coding Scheme default is set even when coding scheme name is specified in manifest
  EVS:CF#19484
• Bug: Applying manifest with only an association forward/reverse name receives 'String index out of range' exception.
  EVS:CF#19485
• Bug: CodedNodeGraph not resolving across ontology boundary
  EVS:CF#19492
• Bug: Entity 'isActive' not being indexed correctly on Postgresql and MS Access
  EVS:CF#19573
• Bug: Problem applying supportedNamespace
  EVS:CF#19586
• Bug: Unable to load NCIT v9.01d and other large ontologies
  EVS:CF#19600
• Bug: Equivalent CodingScheme on SupportedNamespace default value not being set correctly.
  EVS:CF#19628
• Bug: Relationships not resolving that contain a Namespace that has a localId that does not match the CodingScheme.
  EVS:CF#19629
• Bug: CodingSchemeProperties not being persisted to the database.
  EVS:CF#19702
• Bug: LexBIG property behavior does not match EA model
  EVS:CF#19716
• Bug: Transitivity Table not being built
  EVS:CF#19741
• Bug: Supported Hierarchies not being fully populated in 2.3 - 5.0 Compatibility Test
  EVS:CF#19864
• Bug: LexBIG 2.3 xml import command fails
  EVS:CF#19900
• Bug: Metathesaurus history accessing wrong column name
  EVS:CF#20032
• Bug: Owl loader ClassCast Exception while loading OWLObjectProperties
  EVS:CF#20037
• Bug: Lucene Indexer fails with empty EntityDescription
  EVS:CF#20068
• Bug: EMF loaders fail while inserting CodingScheme Properties
  EVS:CF#20070
• Bug: Exception entering null into BIGINT column on PostgreSQL database.
  EVS:CF#20193
• Bug: Blank description in the Service Context on grid portal
  EVS:CF#20419

Important Remaining Issues

• Description of the issue including special circumstances and workarounds. GF tracker number hyperlinked to the tracker. Note: Write for the intended audience.

  Indented commentary if needed (example). Continue the previous pattern for each issue.

Make use of logging consistent - eliminate system out. We will address this if time permits
EVS:CF#14971
The NCI_Thesaurus association Has_Salt_Form and Has_Free_Acid_Or_Base needs reverse name. We will address this if time permits.
EVS:CF#15975
gov.nih.nci.evs.domain.Atom.getLUI does not return value. We will address this if time permits.
EVS:CF#15667
Serializer Exception on org.apach.lucene.search.regenex. We will address this if time permits.
EVS:CF#16678
Results not Deserializing Properly when using QueryModifiers on CQL Queries
EVS:CF#19406
Root concepts found by ListHierarchyMetaBySource when running against NCI MetaThesaurus with source set to NCI are different from root concepts in NCI Thesaurus.
EVS:CF#20354

CORE Product Dependencies

Refer to the CORE Product Dependency Matrix for the caCORE SDK and other software technologies on which this release of this product relies.

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