Module org.monarchinitiative.hpotextmining.core

Package org.monarchinitiative.hpotextmining.core.miners.biolark

Class BiolarkResult

java.lang.Object

org.monarchinitiative.hpotextmining.core.miners.biolark.BiolarkResult

public final class BiolarkResult
extends Object

The server performing text-mining analysis returns results as a collection of JSON objects. This class serves as a model for those objects. Created by Daniel Danis on 6/19/17.

Constructor Summary

Constructors

Constructor	Description
BiolarkResult(int start, int end, int length, String original_text, String source, BiolarkToken term, boolean negated)	Create instance from single response object.

Method Summary

Modifier and Type	Method	Description
static Comparator<BiolarkResult>	compareByName()
static Comparator<BiolarkResult>	compareByStart()
boolean	equals(Object o)
int	getEnd()
int	getLength()
String	getOriginal_text()
String	getSource()
int	getStart()
BiolarkToken	getTerm()
int	hashCode()
boolean	isNegated()
String	toString()

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Constructor Details

BiolarkResult

public BiolarkResult(int start,
 int end,
 int length,
 String original_text,
 String source,
 BiolarkToken term,
 boolean negated)

Create instance from single response object. This instance contains coordinates of the "term-containing" substring within the analyzed text.

Parameters:

start - start offset of substring in the original (text-mined) text.

end - end offset of substring in the original (text-mined) text.

length - length of the substring.

original_text - substring text.

source - not sure what this is but it is always "HPO"

term - identified BiolarkToken

negated - indicates absence/non-presence of this label in the patient

Method Details

getStart

public int getStart()

getEnd

public int getEnd()

getLength

public int getLength()

getOriginal_text

public String getOriginal_text()

getSource

public String getSource()

getTerm

public BiolarkToken getTerm()

isNegated

public boolean isNegated()

hashCode

public int hashCode()

Overrides:

hashCode in class Object

equals

public boolean equals(Object o)

Overrides:

equals in class Object

toString

public String toString()

Overrides:

toString in class Object

compareByStart

public static Comparator<BiolarkResult> compareByStart()

Returns:

Comparator for sorting BiolarkResults by their start attribute in ascending order

compareByName

public static Comparator<BiolarkResult> compareByName()

Returns:

Comparator for sorting BiolarkResults by alphabetic sorting of the HPO label in ascending order