textractor.datamodel.annotation
Class DoubleTermAnnotation

java.lang.Object
  textractor.datamodel.annotation.TextFragmentAnnotation
      textractor.datamodel.annotation.DoubleTermAnnotation

All Implemented Interfaces:

AnnotationSource

public final class DoubleTermAnnotation
extends TextFragmentAnnotation

Stores two annotations about a text fragment. Annotations are produced by humans and entered into the database. This class supports this _process. example: --- 1 --- A|B:interaction|bind < enter ...

Created by IntelliJ IDEA. User: lshi Date: Apr 6, 2004 Time: 11:20:13 AM To change this template use File | Settings | File Templates.

Field Summary

static String	ANNOTATION_BIND
static String	ANNOTATION_PHOSPHORYLATE
static int	INT_ANNOTATION_BIND
static int	INT_ANNOTATION_PHOSPHORYLATE
static Collection<String>	isOneDirection
static int	TERMA_NUMBER
static int	TERMB_NUMBER

Fields inherited from interface textractor.datamodel.annotation.AnnotationSource

FIRST_TERM, SECOND_TERM

Constructor Summary

DoubleTermAnnotation()
Creates a new Double Term Annotation.

DoubleTermAnnotation(int annotationBatch, int annotationNumber)

Method Summary

Object2IntMap<String>	getAnnotationMap()
int	getCenterPosition() Calculates and returns the center of the terms described in this annotation.
String	getStringType() Returns the type of this annotation as a String.
AnnotatedTerm	getTerm(int index) Returns one of the terms that are the focus of this annotation.
AnnotatedTerm	getTermA()
AnnotatedTerm	getTermB()
AnnotatedTerm	getTermByNumber(int termNumber)
int	getTermNumber() Returns the number of terms in this annotation.
void	switchTerms()

Methods inherited from class textractor.datamodel.annotation.TextFragmentAnnotation

createAnnotatedTerm, createIndexedTerms, getAnnotation, getAnnotationBatchNumber, getAnnotationNumber, getBooleanAnnotation, getBooleanAnnotation, getCurrentText, getIndexedTerms, getIsSingleTerm, getSentence, getSpaceDelimitedIndexFormatTerms, isAnnotationImported, isSet, isUseSentenceText, setAnnotation, setAnnotation, setAnnotationImported, setCurrentText, setIndexedTerms, setIsSingleTerm, setSentence, setUseSentenceText

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

TERMA_NUMBER

public static final int TERMA_NUMBER

See Also:

Constant Field Values

TERMB_NUMBER

public static final int TERMB_NUMBER

See Also:

Constant Field Values

ANNOTATION_BIND

public static final String ANNOTATION_BIND

See Also:

Constant Field Values

ANNOTATION_PHOSPHORYLATE

public static final String ANNOTATION_PHOSPHORYLATE

See Also:

Constant Field Values

INT_ANNOTATION_BIND

public static final int INT_ANNOTATION_BIND

See Also:

Constant Field Values

INT_ANNOTATION_PHOSPHORYLATE

public static final int INT_ANNOTATION_PHOSPHORYLATE

See Also:

Constant Field Values

isOneDirection

public static final Collection<String> isOneDirection

Constructor Detail

DoubleTermAnnotation

public DoubleTermAnnotation()

Creates a new Double Term Annotation.

DoubleTermAnnotation

public DoubleTermAnnotation(int annotationBatch,
                            int annotationNumber)

Method Detail

getStringType

public String getStringType()

Description copied from class: TextFragmentAnnotation

Returns the type of this annotation as a String. returns protein for SingleTermAnnotations when the term is annotated as a protein, mutation when the term is annotated as a mutation.

Specified by:

getStringType in class TextFragmentAnnotation

Returns:

The type of this annotation

getCenterPosition

public int getCenterPosition()

Calculates and returns the center of the terms described in this annotation. For double term annotations, the center is in the middle of the position of the two terms.

Returns:

The position of the "center" of this annotation.

getTerm

public AnnotatedTerm getTerm(int index)

Description copied from interface: AnnotationSource

Returns one of the terms that are the focus of this annotation.

Parameters:

index - Index of the term in this annotation.

Returns:

The term at this index in this annotation.

getTermNumber

public int getTermNumber()

Description copied from interface: AnnotationSource

Returns the number of terms in this annotation.

Returns:

the number of terms in this annotation.

getTermA

public AnnotatedTerm getTermA()

getTermB

public AnnotatedTerm getTermB()

getTermByNumber

public AnnotatedTerm getTermByNumber(int termNumber)

getAnnotationMap

public Object2IntMap<String> getAnnotationMap()

Specified by:

getAnnotationMap in class TextFragmentAnnotation

switchTerms

public void switchTerms()