cTAKES GUI

 to build pipelines from cTAKES components and to run pipelines.

• select cTAKES components to include
• view descriptions of the components, and inputs, outputs, parameters, dependencies
• implemented using the new Pipe Bits

Dictionary Builder GUI

  to build a custom dictionary from a local UMLS installation.

Temporal Module

 multiple new annotators to discover meaningful events, temporal expressions, and their relations from clinical text and place them on a timeline.

Example Clinical Documents with Manual Annotations

Pipe Bits

 pipe bits document cTAKES modules - see cTAKES GUI.

• document descriptions of components, and inputs, outputs, parameters, dependencies
• implemented as Java annotations
• simplifies pipeline builders
• indicates whether a component is a Collection Reader, Annotator, or a Cas Consumer (Writer)

Changes 

 if you've written code that directly uses classes within cTAKES, you could be affected by the following:

• Three older, lesser-used assertion-related classes were removed from cTAKES to remove a dependency on jars that are not in maven central:
  
  • AssertionAnalysisEngine
  • AssertionAnalysisEngineFit
  • ConceptConverterAnalysisEngine
  Other classes within ctakes-annotation provide similar functionality.
• Class IdentifiedAnnotationUtil was renamed to OntologyConceptUtil