ssbind

Class FilterByValue

java.lang.Object

org.biojava.bio.search.SearchContentFilter

ssbind.SubHitFilter

ssbind.FilterByValue

All Implemented Interfaces:

org.biojava.bio.search.SearchContentHandler

public class FilterByValue
extends SubHitFilter

Filter complete sub hits by the numerical value of some property.

The range that the property should be within is defined by the minVal and maxVal properties. The property name to be checked is set by keyName. Any sub hit that has this property and has a value that falls outside minVal and maxVal will be silently dropped from the event stream, and not passed on to the next handler in the chain.

Example

 java ProcessBlast blast.out \
   "ssbind.FilterByValue(minVal=90 keyName=percentageIdentity)" \
    ssbind.Echoer
 

Author:

Matthew Pocock

Constructor Summary

Constructors

Constructor and Description
FilterByValue(org.biojava.bio.search.SearchContentHandler delegate)

Method Summary

Methods

Modifier and Type	Method and Description
protected boolean	accept(Object key, Object val)
String	getKeyName()
double	getMaxVal()
double	getMinVal()
void	setKeyName(String keyName)
void	setMaxVal(double maxVal)
void	setMinVal(double minVal)

Methods inherited from class ssbind.SubHitFilter

addSubHitProperty, endSubHit, startSubHit

Methods inherited from class org.biojava.bio.search.SearchContentFilter

addHitProperty, addSearchProperty, endHeader, endHit, endSearch, getMoreSearches, setDatabaseID, setMoreSearches, setQueryID, startHeader, startHit, startSearch

Methods inherited from class java.lang.Object

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

Constructor Detail

FilterByValue

public FilterByValue(org.biojava.bio.search.SearchContentHandler delegate)

Method Detail

setMinVal

public void setMinVal(double minVal)

getMinVal

public double getMinVal()

setMaxVal

public void setMaxVal(double maxVal)

getMaxVal

public double getMaxVal()

setKeyName

public void setKeyName(String keyName)

getKeyName

public String getKeyName()

accept

protected boolean accept(Object key,
             Object val)

Specified by:

accept in class SubHitFilter