edu.iastate.jtm.jmed
Class PubMedSampler

java.lang.Object
  edu.iastate.jtm.jmed.PubMedSampler

public class PubMedSampler
extends java.lang.Object

Randomly sample PubMed files.

Author:

Jing Ding

Constructor Summary

PubMedSampler()

Method Summary

void	copySampleGroup(java.lang.String[] sample, int group)
int	getGroupNum()
int	getGroupSize()
java.lang.String[][]	getSampledPmids()
long[]	getSamples()
int	getSampleSize()
void	randomSample(int groups, int size, long max)
void	samplePlainFromParser(MedlineParser parser, java.lang.String prefix)
void	samplePmidFromFile(java.io.File infile) Random sample PMIDs from a file containing a list of PMIDs: 1 PMID/line.
void	samplePmidFromParser(MedlineParser parser)
void	samplePmidFromQuerier(PubMedQuerier querier)
void	sampleXmlFromParser(MedlineParser parser, java.lang.String prefix, boolean compress)
void	setRandomize(boolean ran)
void	writeSampleToFile(java.lang.String prefix)

Methods inherited from class java.lang.Object

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

Constructor Detail

PubMedSampler

public PubMedSampler()

Method Detail

randomSample

public void randomSample(int groups,
                         int size,
                         long max)

getGroupNum

public int getGroupNum()

getGroupSize

public int getGroupSize()

getSampleSize

public int getSampleSize()

getSamples

public long[] getSamples()

setRandomize

public void setRandomize(boolean ran)

samplePmidFromFile

public void samplePmidFromFile(java.io.File infile)
                        throws java.io.IOException

Random sample PMIDs from a file containing a list of PMIDs: 1 PMID/line.

Throws:

java.io.IOException

samplePmidFromParser

public void samplePmidFromParser(MedlineParser parser)
                          throws org.dom4j.DocumentException,
                                 java.io.IOException

Throws:

org.dom4j.DocumentException

java.io.IOException

sampleXmlFromParser

public void sampleXmlFromParser(MedlineParser parser,
                                java.lang.String prefix,
                                boolean compress)
                         throws org.dom4j.DocumentException,
                                java.io.IOException

Throws:

org.dom4j.DocumentException

java.io.IOException

samplePlainFromParser

public void samplePlainFromParser(MedlineParser parser,
                                  java.lang.String prefix)
                           throws org.dom4j.DocumentException,
                                  java.io.IOException

Throws:

org.dom4j.DocumentException

java.io.IOException

samplePmidFromQuerier

public void samplePmidFromQuerier(PubMedQuerier querier)
                           throws org.dom4j.DocumentException,
                                  java.io.IOException

Throws:

org.dom4j.DocumentException

java.io.IOException

writeSampleToFile

public void writeSampleToFile(java.lang.String prefix)
                       throws java.io.IOException

Throws:

java.io.IOException

getSampledPmids

public java.lang.String[][] getSampledPmids()

copySampleGroup

public void copySampleGroup(java.lang.String[] sample,
                            int group)