Serialized Form (Apache cTAKES 4.0.0 API)

Package org.apache.ctakes.assertion.eval

Class org.apache.ctakes.assertion.eval.AnnotationStatisticsCompact extends Object implements Serializable

serialVersionUID:: 1L

Serialized Fields

referenceOutcomes

com.google.common.collect.Multiset<E> referenceOutcomes

predictedOutcomes

com.google.common.collect.Multiset<E> predictedOutcomes

correctOutcomes

com.google.common.collect.Multiset<E> correctOutcomes

confusionMatrix

org.cleartk.eval.util.ConfusionMatrix<T extends Comparable<? super T>> confusionMatrix

Package org.apache.ctakes.assertion.util
- Class org.apache.ctakes.assertion.util.SemanticClasses extends HashMap<String,HashSet<String>> implements Serializable
  
  serialVersionUID:
  
  1L
Package org.apache.ctakes.core.fsm.condition
- Class org.apache.ctakes.core.fsm.condition.CombineCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_condition1
```
net.openai.util.fsm.Condition iv_condition1
```
    - iv_condition2
```
net.openai.util.fsm.Condition iv_condition2
```
- Class org.apache.ctakes.core.fsm.condition.DayNightWordCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.core.fsm.condition.DecimalCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.core.fsm.condition.DecimalRangeCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_lowNum
```
double iv_lowNum
```
    - iv_highNum
```
double iv_highNum
```
- Class org.apache.ctakes.core.fsm.condition.DecimalValueCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_num
```
double iv_num
```
- Class org.apache.ctakes.core.fsm.condition.DisjoinCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_condition1
```
net.openai.util.fsm.Condition iv_condition1
```
    - iv_condition2
```
net.openai.util.fsm.Condition iv_condition2
```
- Class org.apache.ctakes.core.fsm.condition.HourMinuteCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_minMinute
```
int iv_minMinute
```
    - iv_maxMinute
```
int iv_maxMinute
```
    - iv_minHour
```
int iv_minHour
```
    - iv_maxHour
```
int iv_maxHour
```
- Class org.apache.ctakes.core.fsm.condition.IntegerCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.core.fsm.condition.IntegerRangeCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_lowNum
```
int iv_lowNum
```
    - iv_highNum
```
int iv_highNum
```
- Class org.apache.ctakes.core.fsm.condition.IntegerValueCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_num
```
int iv_num
```
- Class org.apache.ctakes.core.fsm.condition.NegateCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_originalCondition
```
net.openai.util.fsm.Condition iv_originalCondition
```
- Class org.apache.ctakes.core.fsm.condition.NumberCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.core.fsm.condition.PunctuationValueCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_punctChar
```
char iv_punctChar
```
- Class org.apache.ctakes.core.fsm.condition.RangeCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.core.fsm.condition.RomanNumeralCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.core.fsm.condition.SymbolValueCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_symbolChar
```
char iv_symbolChar
```
- Class org.apache.ctakes.core.fsm.condition.TextSetCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_textSet
```
Set<E> iv_textSet
```
    - iv_isCaseSensitive
```
boolean iv_isCaseSensitive
```
- Class org.apache.ctakes.core.fsm.condition.TextValueCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_word
```
String iv_word
```
    - iv_isCaseSensitive
```
boolean iv_isCaseSensitive
```
- Class org.apache.ctakes.core.fsm.condition.WordSetCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_wordSet
```
Set<E> iv_wordSet
```
    - iv_isCaseSensitive
```
boolean iv_isCaseSensitive
```
- Class org.apache.ctakes.core.fsm.condition.WordValueCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_word
```
String iv_word
```
    - iv_isCaseSensitive
```
boolean iv_isCaseSensitive
```
Package org.apache.ctakes.core.fsm.state
- Class org.apache.ctakes.core.fsm.state.NamedState extends net.openai.util.fsm.State implements Serializable
- Class org.apache.ctakes.core.fsm.state.NonTerminalEndState extends NamedState implements Serializable
Package org.apache.ctakes.dependency.parser.util
- Class org.apache.ctakes.dependency.parser.util.DependencyPath extends LinkedList<ConllDependencyNode> implements Serializable
  - Serialized Fields
    - commonNode
```
ConllDependencyNode commonNode
```
Package org.apache.ctakes.dictionary.lookup
- Class org.apache.ctakes.dictionary.lookup.DictionaryException extends Exception implements Serializable
  
  serialVersionUID:
  
  1L
Package org.apache.ctakes.dictionary.lookup.filter
- Class org.apache.ctakes.dictionary.lookup.filter.FilterException extends Exception implements Serializable
  
  serialVersionUID:
  
  1L
Package org.apache.ctakes.dictionary.lookup2.consumer
- Class org.apache.ctakes.dictionary.lookup2.consumer.WsdTermConsumer extends Object implements Serializable
Package org.apache.ctakes.dictionary.lookup2.dictionary
- Class org.apache.ctakes.dictionary.lookup2.dictionary.RareWordDictionaryWrapper extends Object implements Serializable
Package org.apache.ctakes.drugner.fsm.elements.conditions
- Class org.apache.ctakes.drugner.fsm.elements.conditions.ContainsSetTextValueCondition extends net.openai.util.fsm.Condition implements Serializable
  - Serialized Fields
    - iv_TextSet
```
Set<E> iv_TextSet
```
    - iv_isCaseSensitive
```
boolean iv_isCaseSensitive
```
- Class org.apache.ctakes.drugner.fsm.elements.conditions.DecimalStrengthStatusCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.drugner.fsm.elements.conditions.DosageCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.drugner.fsm.elements.conditions.DrugChangeStatusCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.drugner.fsm.elements.conditions.FormCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.drugner.fsm.elements.conditions.FractionCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.drugner.fsm.elements.conditions.FractionStrengthCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.drugner.fsm.elements.conditions.FrequencyUnitCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.drugner.fsm.elements.conditions.RangeDosageCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.drugner.fsm.elements.conditions.RangeStrengthCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.drugner.fsm.elements.conditions.RouteCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.drugner.fsm.elements.conditions.StrengthCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.drugner.fsm.elements.conditions.StrengthUnitCombinedCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.drugner.fsm.elements.conditions.StrengthUnitCondition extends net.openai.util.fsm.Condition implements Serializable
- Class org.apache.ctakes.drugner.fsm.elements.conditions.TimeCondition extends net.openai.util.fsm.Condition implements Serializable
Package org.apache.ctakes.drugner.fsm.states.util
- Class org.apache.ctakes.drugner.fsm.states.util.IndentStartState extends NamedState implements Serializable
Package org.apache.ctakes.gui.component
- Class org.apache.ctakes.gui.component.CellRendererLabel extends JLabel implements Serializable
- Class org.apache.ctakes.gui.component.CellRendererPanel extends JPanel implements Serializable
- Class org.apache.ctakes.gui.component.DisablerPane extends JPanel implements Serializable
  - Serialized Fields
    - _menuBar
```
JMenuBar _menuBar
```
    - _contentPane
```
Container _contentPane
```
    - _dragging
```
boolean _dragging
```
    - _needToRedispatch
```
boolean _needToRedispatch
```
- Class org.apache.ctakes.gui.component.FileChooserPanel extends JPanel implements Serializable
- Class org.apache.ctakes.gui.component.FileTableCellEditor extends AbstractCellEditor implements Serializable
  - Serialized Fields
    - _button
```
JButton _button
```
    - _chooser
```
JFileChooser _chooser
```
    - _selectedFile
```
File _selectedFile
```
- Class org.apache.ctakes.gui.component.LoggerPanel extends JScrollPane implements Serializable
  - Serialized Fields
    - _appender
```
org.apache.log4j.Appender _appender
```
    - _textAreaDoc
```
Document _textAreaDoc
```
- Class org.apache.ctakes.gui.component.PositionedSplitPane extends JSplitPane implements Serializable
  - Serialized Fields
    - LOCKER
```
Object LOCKER
```
    - _isLocationSet
```
boolean _isLocationSet
```
    - _pixelLocation
```
int _pixelLocation
```
    - _proportionalLocation
```
double _proportionalLocation
```
- Class org.apache.ctakes.gui.component.SmoothTipList extends JList<T> implements Serializable
- Class org.apache.ctakes.gui.component.SmoothTipTable extends JTable implements Serializable
- Class org.apache.ctakes.gui.component.SmoothToolTip extends JToolTip implements Serializable
  - Serialized Fields
    - _settingUI
```
boolean _settingUI
```
      This is set to true for the life of the setUI call.
- Class org.apache.ctakes.gui.component.SystemOutPanel extends JScrollPane implements Serializable
  - Serialized Fields
    - _isStandardOutRedirect
```
boolean _isStandardOutRedirect
```
    - _textAreaDoc
```
Document _textAreaDoc
```
    - _oldStandardStream
```
PrintStream _oldStandardStream
```
- Class org.apache.ctakes.gui.component.TextLineNumber extends JPanel implements Serializable
  - Serialized Fields
    - component
```
JTextComponent component
```
    - updateFont
```
boolean updateFont
```
    - borderGap
```
int borderGap
```
    - currentLineForeground
```
Color currentLineForeground
```
    - digitAlignment
```
float digitAlignment
```
    - minimumDisplayDigits
```
int minimumDisplayDigits
```
    - lastDigits
```
int lastDigits
```
    - lastHeight
```
int lastHeight
```
    - lastLine
```
int lastLine
```
    - fonts
```
Map<K,V> fonts
```
Package org.apache.ctakes.gui.pipeline.bit
- Class org.apache.ctakes.gui.pipeline.bit.BitInfoPanel extends JPanel implements Serializable
  - Serialized Fields
    - _pipeBitInfo
```
PipeBitInfo _pipeBitInfo
```
    - _pipeBitClass
```
Class<T> _pipeBitClass
```
    - _name
```
JComponent _name
```
    - _description
```
JLabel _description
```
    - _dependencies
```
JLabel _dependencies
```
    - _usables
```
JLabel _usables
```
    - _products
```
JLabel _products
```
    - _parameterTableModel
```
ParameterTableModel _parameterTableModel
```
    - _parameterInfoPanel
```
ParameterInfoPanel _parameterInfoPanel
```
Package org.apache.ctakes.gui.pipeline.bit.available
- Class org.apache.ctakes.gui.pipeline.bit.available.AvailablesListModel extends AbstractListModel<PipeBitInfo> implements Serializable
  - Serialized Fields
    - _pipeBitInfos
```
List<E> _pipeBitInfos
```
    - _pipeBitMap
```
Map<K,V> _pipeBitMap
```
Package org.apache.ctakes.gui.pipeline.bit.info
- Class org.apache.ctakes.gui.pipeline.bit.info.PipeBitInfoPanel extends BitInfoPanel implements Serializable
Package org.apache.ctakes.gui.pipeline.bit.parameter
- Class org.apache.ctakes.gui.pipeline.bit.parameter.ParameterInfoPanel extends JPanel implements Serializable
  - Serialized Fields
    - _name
```
JLabel _name
```
    - _type
```
JLabel _type
```
    - _description
```
JLabel _description
```
    - _mandatory
```
JLabel _mandatory
```
    - _values
```
JComponent _values
```
    - _holder
```
ParameterHolder _holder
```
Package org.apache.ctakes.gui.pipeline.bit.user
- Class org.apache.ctakes.gui.pipeline.bit.user.UserBitInfoPanel extends BitInfoPanel implements Serializable
  - Serialized Fields
    - _bitNameListener
```
org.apache.ctakes.gui.pipeline.bit.user.UserBitInfoPanel.BitNameListener _bitNameListener
```
- Class org.apache.ctakes.gui.pipeline.bit.user.UserBitListModel extends AbstractListModel<UserBit> implements Serializable
  - Serialized Fields
    - _readerBit
```
UserBit _readerBit
```
    - _userBits
```
List<E> _userBits
```
- Class org.apache.ctakes.gui.pipeline.bit.user.UserParameterInfoPanel extends ParameterInfoPanel implements Serializable
Package org.apache.ctakes.temporal.ae
- Class org.apache.ctakes.temporal.ae.DocTimeRelWithTreeAnnotator extends Object implements Serializable
Package org.apache.ctakes.temporal.ae.feature.selection
- Class org.apache.ctakes.temporal.ae.feature.selection.ZscoreNormalizationExtractor.ZscoreRunningStat extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - data
```
List<E> data
```
    - sum
```
double sum
```
    - mean
```
double mean
```
    - n
```
int n
```
Package org.apache.ctakes.temporal.eval
- Class org.apache.ctakes.temporal.eval.EvaluationOfEventPropertiesTk extends Object implements Serializable
Package org.apache.ctakes.utils.struct
- Class org.apache.ctakes.utils.struct.CounterMap extends HashMap<K,Integer> implements Serializable
Package org.apache.ctakes.ytex.kernel.metric
- Class org.apache.ctakes.ytex.kernel.metric.ConceptPair extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - concept1
```
String concept1
```
    - concept2
```
String concept2
```
- Class org.apache.ctakes.ytex.kernel.metric.ConceptPairSimilarity extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - conceptPair
```
ConceptPair conceptPair
```
    - similarities
```
List<E> similarities
```
    - similarityInfo
```
SimilarityInfo similarityInfo
```
- Class org.apache.ctakes.ytex.kernel.metric.LCSPath extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - concept1Path
```
List<E> concept1Path
```
    - concept2Path
```
List<E> concept2Path
```
    - lcs
```
String lcs
```
- Class org.apache.ctakes.ytex.kernel.metric.SimilarityInfo extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - corpusLcs
```
String corpusLcs
```
    - corpusLcsIC
```
Double corpusLcsIC
```
    - intrinsicLcs
```
String intrinsicLcs
```
    - intrinsicLcsIC
```
Double intrinsicLcsIC
```
    - lcsDist
```
Integer lcsDist
```
    - lcsPaths
```
List<E> lcsPaths
```
    - lcses
```
Set<E> lcses
```
Package org.apache.ctakes.ytex.kernel.model
- Class org.apache.ctakes.ytex.kernel.model.ClassifierEvaluation extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - classifierEvaluationId
```
int classifierEvaluationId
```
    - name
```
String name
```
    - experiment
```
String experiment
```
    - fold
```
int fold
```
    - run
```
int run
```
    - algorithm
```
String algorithm
```
    - label
```
String label
```
    - options
```
String options
```
    - model
```
byte[] model
```
    - param1
```
Double param1
```
    - param2
```
String param2
```
    - classifierInstanceEvaluations
```
Map<K,V> classifierInstanceEvaluations
```
- Class org.apache.ctakes.ytex.kernel.model.ClassifierEvaluationIRStat extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - classifierEvaluation
```
ClassifierEvaluation classifierEvaluation
```
    - classifierEvaluationIRStatId
```
int classifierEvaluationIRStatId
```
    - f1
```
double f1
```
    - fn
```
int fn
```
    - fp
```
int fp
```
    - irClass
```
String irClass
```
    - irClassId
```
int irClassId
```
    - npv
```
double npv
```
    - ppv
```
double ppv
```
    - sensitivity
```
double sensitivity
```
    - specificity
```
double specificity
```
    - tn
```
int tn
```
    - tp
```
int tp
```
    - type
```
String type
```
- Class org.apache.ctakes.ytex.kernel.model.ClassifierInstanceEvaluation extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - predictedClassId
```
int predictedClassId
```
    - targetClassId
```
Integer targetClassId
```
    - classifierEvaluation
```
ClassifierEvaluation classifierEvaluation
```
    - classifierInstanceEvaluationId
```
int classifierInstanceEvaluationId
```
    - classifierInstanceProbabilities
```
Map<K,V> classifierInstanceProbabilities
```
    - instanceId
```
long instanceId
```
- Class org.apache.ctakes.ytex.kernel.model.ConceptGraph extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - conceptList
```
List<E> conceptList
```
    - depthMax
```
short depthMax
```
    - intrinsicICMax
```
double intrinsicICMax
```
    - root
```
String root
```
- Class org.apache.ctakes.ytex.kernel.model.ConcRel extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialization Methods
    - readObject
```
private void readObject(ObjectInputStream in)
                 throws IOException,
                        ClassNotFoundException
```
      read parent/children concept ids, not the objects
      
      Throws:
      
      IOException
      
      ClassNotFoundException
    - writeObject
```
private void writeObject(ObjectOutputStream out)
                  throws IOException
```
      serialize parent/children concept ids, not the objects
      
      Throws:
      
      IOException
  - Serialized Fields
    - children
```
Set<E> children
```
      children of this concept
    - childrenArray
```
int[] childrenArray
```
    - depth
```
short depth
```
    - intrinsicInfoContent
```
double intrinsicInfoContent
```
    - nodeCUI
```
String nodeCUI
```
      id of this concept
    - nodeIndex
```
int nodeIndex
```
    - parents
```
Set<E> parents
```
      parents of this concept
    - parentsArray
```
int[] parentsArray
```
      for java object serialization, need to avoid default serializer behavior of writing out entire object graph. just write the parent/children object ids and resolve the connections after loading this object.
- Class org.apache.ctakes.ytex.kernel.model.CrossValidationFold extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - corpusName
```
String corpusName
```
    - crossValidationFoldId
```
int crossValidationFoldId
```
    - fold
```
int fold
```
    - instanceIds
```
Set<E> instanceIds
```
    - label
```
String label
```
    - run
```
int run
```
    - splitName
```
String splitName
```
- Class org.apache.ctakes.ytex.kernel.model.CrossValidationFoldInstance extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - instanceId
```
long instanceId
```
    - train
```
boolean train
```
- Class org.apache.ctakes.ytex.kernel.model.FeatureEvaluation extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - corpusName
```
String corpusName
```
    - crossValidationFoldId
```
int crossValidationFoldId
```
    - evaluationType
```
String evaluationType
```
    - featureEvaluationId
```
int featureEvaluationId
```
    - featureSetName
```
String featureSetName
```
    - label
```
String label
```
    - param1
```
double param1
```
    - param2
```
String param2
```
- Class org.apache.ctakes.ytex.kernel.model.FeatureParentChild extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - featureRankChild
```
FeatureRank featureRankChild
```
    - featureRankParent
```
FeatureRank featureRankParent
```
    - featureParentChildId
```
int featureParentChildId
```
- Class org.apache.ctakes.ytex.kernel.model.FeatureRank extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - evaluation
```
double evaluation
```
    - featureEval
```
FeatureEvaluation featureEval
```
    - featureName
```
String featureName
```
    - rank
```
int rank
```
    - featureRankId
```
int featureRankId
```
- Class org.apache.ctakes.ytex.kernel.model.KernelEvaluation extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - kernelEvaluationId
```
int kernelEvaluationId
```
    - corpusName
```
String corpusName
```
    - label
```
String label
```
    - experiment
```
String experiment
```
    - foldId
```
int foldId
```
    - param1
```
double param1
```
    - param2
```
String param2
```
- Class org.apache.ctakes.ytex.kernel.model.KernelEvaluationInstance extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - instanceId1
```
long instanceId1
```
    - instanceId2
```
long instanceId2
```
    - kernelEvaluationId
```
int kernelEvaluationId
```
    - similarity
```
double similarity
```
- Class org.apache.ctakes.ytex.kernel.model.SemiLClassifierEvaluation extends ClassifierEvaluation implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - distance
```
String distance
```
    - degree
```
int degree
```
    - softLabel
```
boolean softLabel
```
    - normalizedLaplacian
```
boolean normalizedLaplacian
```
    - mu
```
double mu
```
    - lambda
```
double lambda
```
    - gamma
```
double gamma
```
    - percentLabeled
```
double percentLabeled
```
- Class org.apache.ctakes.ytex.kernel.model.SVMClassifierEvaluation extends ClassifierEvaluation implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - cost
```
Double cost
```
    - weight
```
String weight
```
    - degree
```
Integer degree
```
    - gamma
```
Double gamma
```
    - kernel
```
Integer kernel
```
    - supportVectors
```
Integer supportVectors
```
    - vcdim
```
Double vcdim
```
Package org.apache.ctakes.ytex.kernel.tree
- Class org.apache.ctakes.ytex.kernel.tree.Node extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - type
```
String type
```
    - value
```
Map<K,V> value
```
    - children
```
List<E> children
```
Package org.apache.ctakes.ytex.tools
- Class org.apache.ctakes.ytex.tools.DBAnnotationViewerMain extends JFrame implements Serializable
  
  serialVersionUID:
  
  -3201723535833938833L
  - Serialized Fields
    - strDescriptorFile
```
String strDescriptorFile
```
      the descriptor file. Save this so that we can initialaze the casDescriptor just 1x. When view is pressed, we see if this has changed; if yes, then we reinitialize
    - casDescriptor
```
org.apache.uima.cas.CAS casDescriptor
```
      cas loaded from strDescriptorFile
    - jdbcProperties
```
Properties jdbcProperties
```
      properties loaded from ytex.properties file
    - styleMapFile
```
File styleMapFile
```
      style map initialized with descriptor
    - annotationViewGenerator
```
org.apache.uima.tools.util.htmlview.AnnotationViewGenerator annotationViewGenerator
```
    - defaultCasViewName
```
String defaultCasViewName
```
    - prefsMed
```
org.apache.uima.tools.docanalyzer.PrefsMediator prefsMed
```
    - processedStyleMap
```
boolean processedStyleMap
```
    - javaViewerRB
```
JRadioButton javaViewerRB
```
    - javaViewerUCRB
```
JRadioButton javaViewerUCRB
```
    - htmlRB
```
JRadioButton htmlRB
```
    - xmlRB
```
JRadioButton xmlRB
```
    - documentIDField
```
JTextField documentIDField
```
    - uimaHomeDir
```
File uimaHomeDir
```
    - taeDescriptorFileSelector
```
org.apache.uima.tools.util.gui.FileSelector taeDescriptorFileSelector
```
    - viewButton
```
JButton viewButton
```
    - aboutDialog
```
JDialog aboutDialog
```
    - prefs
```
Preferences prefs
```
      Stores user preferences

Package org.apache.ctakes.ytex.tools.docanalyzer

Class org.apache.ctakes.ytex.tools.docanalyzer.DBAnnotationViewerDialog extends JDialog implements Serializable

serialVersionUID:: -7259891069111863433L

Serialized Fields

tempDir
```
File tempDir
```

annotationViewGenerator

org.apache.uima.tools.util.htmlview.AnnotationViewGenerator annotationViewGenerator

styleMapEditor

org.apache.uima.tools.stylemap.StyleMapEditor styleMapEditor

med1

org.apache.uima.tools.docanalyzer.PrefsMediator med1

styleMapFile
```
File styleMapFile
```
inputDirPath
```
String inputDirPath
```

typeSystem

org.apache.uima.cas.TypeSystem typeSystem

typesToDisplay
```
String[] typesToDisplay
```
javaViewerRB
```
JRadioButton javaViewerRB
```
javaViewerUCRB
```
JRadioButton javaViewerUCRB
```
htmlRB
```
JRadioButton htmlRB
```
xmlRB
```
JRadioButton xmlRB
```
documentIDField
```
JTextField documentIDField
```
cas
```
org.apache.uima.cas.CAS cas
```
processedStyleMap
```
boolean processedStyleMap
```
defaultCasViewName
```
String defaultCasViewName
```

Package org.apache.ctakes.ytex.uima.model
- Class org.apache.ctakes.ytex.uima.model.AnnotationContainmentLink extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - parentAnnotationId
```
int parentAnnotationId
```
    - parentUimaTypeId
```
int parentUimaTypeId
```
    - childAnnotationId
```
int childAnnotationId
```
    - childUimaTypeId
```
int childUimaTypeId
```
- Class org.apache.ctakes.ytex.uima.model.Document extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - analysisBatch
```
String analysisBatch
```
    - cas
```
byte[] cas
```
      the document CAS - serialised in XMI format and compressed.
    - docText
```
String docText
```
      document plain text
    - documentAnnotations
```
List<E> documentAnnotations
```
    - documentClasses
```
List<E> documentClasses
```
    - documentID
```
Integer documentID
```
      the document id
    - instanceID
```
long instanceID
```
      external document id
    - instanceKey
```
String instanceKey
```
- Class org.apache.ctakes.ytex.uima.model.DocumentAnnotation extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - begin
```
Integer begin
```
    - coveredText
```
String coveredText
```
    - document
```
Document document
```
    - documentAnnotationID
```
int documentAnnotationID
```
    - end
```
Integer end
```
    - uimaType
```
UimaType uimaType
```
- Class org.apache.ctakes.ytex.uima.model.DocumentClass extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - documentClassID
```
int documentClassID
```
    - task
```
String task
```
    - classAuto
```
Integer classAuto
```
    - classGold
```
Integer classGold
```
    - document
```
Document document
```
- Class org.apache.ctakes.ytex.uima.model.NamedEntityRegex extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - namedEntityRegexID
```
int namedEntityRegexID
```
    - code
```
String code
```
    - codingScheme
```
String codingScheme
```
    - oid
```
String oid
```
    - regex
```
String regex
```
    - context
```
String context
```
- Class org.apache.ctakes.ytex.uima.model.SegmentRegex extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - segmentRegexID
```
int segmentRegexID
```
    - regex
```
String regex
```
    - segmentID
```
String segmentID
```
    - limitToRegex
```
boolean limitToRegex
```
- Class org.apache.ctakes.ytex.uima.model.UimaType extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - tableName
```
String tableName
```
    - uimaTypeID
```
int uimaTypeID
```
    - uimaTypeName
```
String uimaTypeName
```
Package org.apache.ctakes.ytex.umls.model
- Class org.apache.ctakes.ytex.umls.model.MRCONSO extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - aui
```
String aui
```
    - code
```
String code
```
    - cui
```
String cui
```
    - cvf
```
int cvf
```
    - ispref
```
String ispref
```
    - lat
```
String lat
```
    - lui
```
String lui
```
    - sab
```
String sab
```
    - saui
```
String saui
```
    - scui
```
String scui
```
    - sdui
```
String sdui
```
    - srl
```
int srl
```
    - str
```
String str
```
    - stt
```
String stt
```
    - sui
```
String sui
```
    - suppress
```
String suppress
```
    - ts
```
String ts
```
    - tty
```
String tty
```
- Class org.apache.ctakes.ytex.umls.model.MRREL extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - cui1
```
String cui1
```
    - cui2
```
String cui2
```
    - rel
```
String rel
```
    - rela
```
String rela
```
    - rui
```
String rui
```
    - sab
```
String sab
```
- Class org.apache.ctakes.ytex.umls.model.MRSTY extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - cui
```
String cui
```
    - tui
```
String tui
```
    - stn
```
String stn
```
    - sty
```
String sty
```
    - atui
```
String atui
```
    - cvf
```
int cvf
```
- Class org.apache.ctakes.ytex.umls.model.UmlsAuiFirstWord extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - aui
```
String aui
```
    - fstem
```
String fstem
```
    - fword
```
String fword
```
    - stemmedStr
```
String stemmedStr
```
    - tokenizedStr
```
String tokenizedStr
```
Package org.apache.ctakes.ytex.web.search
- Class org.apache.ctakes.ytex.web.search.ConceptFirstWord extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - fword
```
String fword
```
    - conceptId
```
String conceptId
```
    - text
```
String text
```
- Class org.apache.ctakes.ytex.web.search.ConceptLookupBean extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - conceptSearchService
```
ConceptSearchService conceptSearchService
```
    - currentCUI
```
ConceptFirstWord currentCUI
```
    - searchCUI
```
ConceptFirstWord searchCUI
```
    - matchesList
```
List<E> matchesList
```
- Class org.apache.ctakes.ytex.web.search.DocumentSearchResult extends Object implements Serializable
  - Serialized Fields
    - documentID
```
int documentID
```
    - sentenceText
```
String sentenceText
```
    - documentDate
```
Date documentDate
```
    - documentTitle
```
String documentTitle
```
    - documentTypeName
```
String documentTypeName
```
    - cuiText
```
String cuiText
```
- Class org.apache.ctakes.ytex.web.search.DocumentViewBean extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - docText
```
String docText
```
    - documentID
```
int documentID
```
    - rawText
```
String rawText
```
    - searchProperties
```
Properties searchProperties
```
    - ytexProperties
```
Properties ytexProperties
```
- Class org.apache.ctakes.ytex.web.search.SemanticSearchBean extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - dateFrom
```
Date dateFrom
```
    - dateTo
```
Date dateTo
```
    - patientId
```
Integer patientId
```
    - negationStatus
```
Boolean negationStatus
```
    - currentCUI
```
ConceptFirstWord currentCUI
```
    - searchCUI
```
ConceptFirstWord searchCUI
```
    - matchesList
```
List<E> matchesList
```
    - searchResultList
```
List<E> searchResultList
```
- Class org.apache.ctakes.ytex.web.search.SemanticSimBean extends Object implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.apache.ctakes.ytex.web.search.SemanticSimBean.SimilarityEntry extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - conceptPair
```
ConceptPair conceptPair
```
    - similarityMap
```
Map<K,V> similarityMap
```

Serialized Form

Package org.apache.ctakes.assertion.eval

Class org.apache.ctakes.assertion.eval.AnnotationStatisticsCompact extends Object implements Serializable

Serialized Fields

referenceOutcomes

predictedOutcomes

correctOutcomes

confusionMatrix

Package org.apache.ctakes.assertion.util

Class org.apache.ctakes.assertion.util.SemanticClasses extends HashMap<String,HashSet<String>> implements Serializable

Package org.apache.ctakes.core.fsm.condition

Class org.apache.ctakes.core.fsm.condition.CombineCondition extends net.openai.util.fsm.Condition implements Serializable

Serialized Fields

iv_condition1

iv_condition2

Class org.apache.ctakes.core.fsm.condition.DayNightWordCondition extends net.openai.util.fsm.Condition implements Serializable

Class org.apache.ctakes.core.fsm.condition.DecimalCondition extends net.openai.util.fsm.Condition implements Serializable

Class org.apache.ctakes.core.fsm.condition.DecimalRangeCondition extends net.openai.util.fsm.Condition implements Serializable

Serialized Fields

iv_lowNum

iv_highNum

Class org.apache.ctakes.core.fsm.condition.DecimalValueCondition extends net.openai.util.fsm.Condition implements Serializable

Serialized Fields

iv_num

Class org.apache.ctakes.core.fsm.condition.DisjoinCondition extends net.openai.util.fsm.Condition implements Serializable

Serialized Fields

iv_condition1

iv_condition2

Class org.apache.ctakes.core.fsm.condition.HourMinuteCondition extends net.openai.util.fsm.Condition implements Serializable

Serialized Fields

iv_minMinute

iv_maxMinute

iv_minHour

iv_maxHour

Class org.apache.ctakes.core.fsm.condition.IntegerCondition extends net.openai.util.fsm.Condition implements Serializable

Class org.apache.ctakes.core.fsm.condition.IntegerRangeCondition extends net.openai.util.fsm.Condition implements Serializable

Serialized Fields

iv_lowNum

iv_highNum

Class org.apache.ctakes.core.fsm.condition.IntegerValueCondition extends net.openai.util.fsm.Condition implements Serializable

Serialized Fields

iv_num

Class org.apache.ctakes.core.fsm.condition.NegateCondition extends net.openai.util.fsm.Condition implements Serializable

Serialized Fields

iv_originalCondition

Class org.apache.ctakes.core.fsm.condition.NumberCondition extends net.openai.util.fsm.Condition implements Serializable

Class org.apache.ctakes.core.fsm.condition.PunctuationValueCondition extends net.openai.util.fsm.Condition implements Serializable

Serialized Fields

iv_punctChar

Class org.apache.ctakes.core.fsm.condition.RangeCondition extends net.openai.util.fsm.Condition implements Serializable

Class org.apache.ctakes.core.fsm.condition.RomanNumeralCondition extends net.openai.util.fsm.Condition implements Serializable

Class org.apache.ctakes.core.fsm.condition.SymbolValueCondition extends net.openai.util.fsm.Condition implements Serializable

Serialized Fields

iv_symbolChar

Class org.apache.ctakes.core.fsm.condition.TextSetCondition extends net.openai.util.fsm.Condition implements Serializable

Serialized Fields

iv_textSet

iv_isCaseSensitive

Class org.apache.ctakes.core.fsm.condition.TextValueCondition extends net.openai.util.fsm.Condition implements Serializable

Serialized Fields

iv_word

iv_isCaseSensitive

Class org.apache.ctakes.core.fsm.condition.WordSetCondition extends net.openai.util.fsm.Condition implements Serializable

Serialized Fields

iv_wordSet

iv_isCaseSensitive

Class org.apache.ctakes.core.fsm.condition.WordValueCondition extends net.openai.util.fsm.Condition implements Serializable

Serialized Fields

iv_word

iv_isCaseSensitive

Package org.apache.ctakes.core.fsm.state

Class org.apache.ctakes.core.fsm.state.NamedState extends net.openai.util.fsm.State implements Serializable

Class org.apache.ctakes.core.fsm.state.NonTerminalEndState extends NamedState implements Serializable

Package org.apache.ctakes.dependency.parser.util

Class org.apache.ctakes.dependency.parser.util.DependencyPath extends LinkedList<ConllDependencyNode> implements Serializable

Serialized Fields

commonNode

Package org.apache.ctakes.dictionary.lookup

Class org.apache.ctakes.dictionary.lookup.DictionaryException extends Exception implements Serializable

Package org.apache.ctakes.dictionary.lookup.filter