Release Notes - cTAKES - Version 4.0.0 - HTML format

Sub-task

  • [CTAKES-151] - LVG is not thread safe for multiple instances inside of a single JVM.

Bug

  • [CTAKES-66] - FileLocator.locateOnClasspath should take Class object
  • [CTAKES-178] - parsing of medication strength does not verify a number was discovered (strength value includes both the dosage and strength value in some cases)
  • [CTAKES-231] - missing NEs because of inconsistent chunking for parallel sentence constructions
  • [CTAKES-233] - DictionaryLookup can't identify "CIN I".
  • [CTAKES-275] - some of the older junit tests don't have the right Project name in the run configurations
  • [CTAKES-282] - Dirty on check-out in Eclipse
  • [CTAKES-299] - cannot configure ClearNLPSemanticRoleLabelerAE using XML descriptor
  • [CTAKES-302] - Element type "hibernate-mapping" must be followed by either attribute specifications, ">" or "/>".
  • [CTAKES-322] - run_cTAKES.groovy still references 3.1.1
  • [CTAKES-330] - runctakesCVD.sh autoload pipeline
  • [CTAKES-341] - FractionFSM annotates incorrect span
  • [CTAKES-348] - Upgrade to Java 8
  • [CTAKES-349] - JdbcWriterTemplate does not store rows if there are fewer than 100 per note
  • [CTAKES-364] - Dictionary-Lookup-Fast will fail with URI is not Hierarchical
  • [CTAKES-371] - update PTB tokenization logic in fast dictionary module
  • [CTAKES-389] - cTAKES dictionary lookup missed word starting string bug
  • [CTAKES-392] - org.apache.ctakes.core.util.IdentifiedAnnotationUtil missing
  • [CTAKES-398] - Cannot access cTAKES forums
  • [CTAKES-401] - License headers are JavaDoc comments but should be block comments
  • [CTAKES-409] - I got AnalysisEngineProcessException, when i tried to convert clinical note to snomed ct using ctakes in multi threaded environment
  • [CTAKES-418] - Exception: java.io.FileNotFoundException: ctakes-temporal/data/misc/{various}
  • [CTAKES-419] - ctakes-trunk-compiletest fails Caused by: org.apache.uima.cas.CASRuntimeException: No sofaFS with name UriView found.
  • [CTAKES-452] - ctakes-template-filler (RelationExtractorAggregateWithoutOrangeBook.xml) refers to a non-existing file
  • [CTAKES-469] - could not able to run ytex with DBCollection reader
  • [CTAKES-534] - Error while creating custom dictionary
  • [CTAKES-540] - How to run DrugMentionAnnotator.xml?

New Feature

  • [CTAKES-188] - GSoC: Create an interface for cTAKES
  • [CTAKES-382] - Add ability to easily add extension of UmlsConcept Type to jcas via dictionary lookup
  • [CTAKES-424] - Dictionary Creation GUI
  • [CTAKES-425] - Ctakes Pipeline Creator GUI
  • [CTAKES-426] - simple pipeline description files

Improvement

  • [CTAKES-39] - Upgrade LVG to a later version
  • [CTAKES-77] - Update POSTagger Unit Tests
  • [CTAKES-78] - Update Chunker unit tests
  • [CTAKES-235] - Improve Dictionary Lookup Component
  • [CTAKES-236] - Use UmlsConcept instead of OntologyConcept for Drugs
  • [CTAKES-237] - Consolidate the rx_norm index lookup into the same umls dictionary
  • [CTAKES-238] - update the umls dictionaries to the latest versions (2013)
  • [CTAKES-328] - Clean up XML Annotator Descriptors
  • [CTAKES-373] - MaxentParserWrapper can't handle section dividers: "=========="
  • [CTAKES-380] - New Sentence Detector
  • [CTAKES-386] - Remove all .classpath and.project files
  • [CTAKES-387] - Upgrade gov.nih.nlm.nls lvg artifact across the codebase
  • [CTAKES-399] - Add profile to pom.xml which permits build with JDK1.8
  • [CTAKES-411] - Fix Unit tests with LVG (URI is not hierarchal in mvn package) test
  • [CTAKES-417] - Update OpenNLP to 1.7.2
  • [CTAKES-421] - Incorporate dictionary builder GUI into cTAKES
  • [CTAKES-429] - Upgrade all dictionary databases to hsqldb 2.3
  • [CTAKES-430] - new coreference annotator using mention-synchronous paradigm

Test

  • [CTAKES-391] - how to get DrugMention information from CAS object

Wish

Task

  • [CTAKES-138] - Remove 3rd party jars from our SVN
  • [CTAKES-403] - Build your own Dictionary not working
  • [CTAKES-410] - Create cTAKES 4.0.0 Release
  • [CTAKES-423] - Remove redundant entries from pom.xml

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