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National Cancer Institute Center for Bioinformatics
Protege 1.4.2 Release Notes
24 September 2010

Product Changes

The objective of this release of Protege 1.4.2 is to provide the remaining feature requests and bugs fixes found in previous Protege releases that have been determined to be a priority for the final release of Protege.  Currently, there is no development planned after the 1.4.2 release.

New Feature Highlights
* 2948:  Object properties available in role construction dialog are restricted according to the domain of the class that the role is being asserted on

* 6082:  Forward and Backward navigation buttons have been enabled in the NCIEditTab.

* 16121:  Buttons to make a class Defined or Primitive have been added to the NCIEditTab.  If the entire list of Necessary conditions is to be made Necessary and Sufficient, the conditions don't need to be made defining one at a time, pressing the appropriate button makes all these conditions N&S.  The same applies to making a class primitive starting from a defined class.  Individual conditions can still be made either defining or non-defining as necessary.

* 21375:  Internal format of complex properties has been modified.  An xml schema is now used to specify the format.  This affects batch editing jobs that include complex properties.  The format to use for DEFINITION and ALT_DEFINITION in a batch edit is:

<ncicp:ComplexDefinition xmlns:ncicp="http://ncicb.nci.nih.gov/xml/owl/EVS/ComplexProperties.xsd#"><ncicp:def-definition>Text of DEFINITION.</ncicp:def-definition><ncicp:def-source>NCI or some other</ncicp:def-source><ncicp:attr>some attribution</ncicp:attr><ncicp:Definition_Reviewer_Name>Someone's name</ncicp:Definition_Reviewer_Name><ncicp:Definition_Review_Date>a date in YYMMDD format</ncicp:Definition_Review_Date></ncicp:ComplexDefinition> 

If no attribution is required the entire set of tags can be eliminated from the above.  And the format for a FULL_SYN is:

 <ncicp:ComplexTerm xmlns:ncicp="http://ncicb.nci.nih.gov/xml/owl/EVS/ComplexProperties.xsd#"><ncicp:term-name>some term</ncicp:term-name><ncicp:term-group>PT or another type</ncicp:term-group><ncicp:term-source>NCI or another source</ncicp:term-source><ncicp:source-code>some code</ncicp:source-code> </ncicp:ComplexTerm>

If no source code is required the entire set of tags can be eliminated from the above.  

Behavior To Be Aware Of

A number of GForge items were created that need additional comment.

  • GF#22104 - search string appears empty when invoked from restriction dialog box
  • GF#23565 - refactoring namespaces
  • GF#24510 - Need a fail-safe for creating codes for properties
  • GF#26667 - Robustness/QC
  • GF#28509 - Edit tab does not handle & or < properly
  • GF#28710 - The rejection of the modification failed in Prompt.
  • GF#29143 - role groups not handled when toggling prim/defined
  • GF#29347 - Cannot complete SMW roundtrip with Protege / NPO SMW
  • GF#29513 - Improved formatting of batch load with error
  • GF#29517 - When invalid format is provided on a clone it doesn't retain previously entered Definition
  • GF#29665 - "Create Workflow Task" doesn't work" in 1.4.2.223 ByCode.

This is deemed an inconsistency in behavior and is slated for a fix in 1.4.1. For now, editors need to be aware that deleting associations in batch requires that the association's rdf:ID be entered in its entirety.

List of New Features

GForge number
(hyperlinked)

Brief description of item

16191

Export of inferred Ontology - Tweaks to output file

18998

Load explanation server from the Protege KB using the OWL API converter in Protege 3.4

18999

Serialize state at explanation server shut-down so start-up can be incremental since previous run

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List of Bug Fixes


GForge number
(hyperlinked)

Brief description of item

7679

(make configurable) Default search parameters for Advanced Search are not default for search w/in search

9298

Prompt - accept and reject icons in 'changed by' panel of 'table' view don't work

11082

Change of Focus after Retire

20906

Protege incorrectly exporting names with quotes

21549

Single quote mark around multi-word parents

21738

Hierarchy is not refreshing the D when retire concept

21946

Incorrect unretire functionality

22090

Tool Tab compression and disappearance

22104

search string appears empty when invoked from restriction dialog box

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Other Items Closed


The defects in the following list were not reproducible, or were fixed as a by-product of refactoring, or were related to configuration setup.

GForge number
(hyperlinked)

Brief description of item

 

 

 

 

 

 

 

 

 

 

 

 

 

 


 

 

 

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CORE Product Dependencies

No caCORE dependencies. This software is used for editing and maintaining NCI Thesaurus and BiomedGT

Release History

Release

Date

1.0

Jun 07

1.1

Sept 07

1.2.0

Dec 07

1.2.1

Feb 08

1.2.2

May 08

1.2.3

Jul 08

1.2.3 Patch

Aug 08

1.3.0

Mar 09

1.4.0

Sep 09

1.4.1

Jan 10

1.4.2

Sep 10

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