org.biojava.spark.data

Class ChainDataRDD

java.lang.Object

org.biojava.spark.data.ChainDataRDD

public class ChainDataRDD
extends Object

The class to provide functions on chains using the JavaPairRDD of Chain.

Author:

Anthony Bradley

Constructor Summary

Constructors

Constructor and Description
ChainDataRDD(org.apache.spark.api.java.JavaPairRDD<String,org.biojava.nbio.structure.Chain> chainDataRDD) The constructore of the ChainDataRDD using a JavaPairRDD of type Chain.

Method Summary

Modifier and Type	Method and Description
GroupDataRDD	getGroups() Get the Group objects as an GroupDataRDD.
ChainDataRDD	getNonPolymerChains() Get only the non-polymer chains.
ChainDataRDD	getPolymerChains() Get only the polymer chains.
org.apache.spark.api.java.JavaPairRDD<String,org.biojava.nbio.structure.Chain>	getRDD() Get the JavaPairRDD of the Chain objects.
ChainDataRDD	getWaterChains() Get only the water chains.

Methods inherited from class java.lang.Object

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

Constructor Detail

ChainDataRDD

public ChainDataRDD(org.apache.spark.api.java.JavaPairRDD<String,org.biojava.nbio.structure.Chain> chainDataRDD)

The constructore of the ChainDataRDD using a JavaPairRDD of type Chain.

Parameters:

chainDataRDD - the input JavaPairRDD of Chain

Method Detail

getRDD

public org.apache.spark.api.java.JavaPairRDD<String,org.biojava.nbio.structure.Chain> getRDD()

Get the JavaPairRDD of the Chain objects.

Returns:

the JavaPairRDD of the Chain objects

getPolymerChains

public ChainDataRDD getPolymerChains()

Get only the polymer chains.

Returns:

a ChainDataRDD of Chain only of polymers

getNonPolymerChains

public ChainDataRDD getNonPolymerChains()

Get only the non-polymer chains.

Returns:

a ChainDataRDD of Chain only of non-polymers

getWaterChains

public ChainDataRDD getWaterChains()

Get only the water chains.

Returns:

a ChainDataRDD of Chain only of waters

getGroups

public GroupDataRDD getGroups()

Get the Group objects as an GroupDataRDD.

Returns:

a GroupDataRDD of Group objects.