org.apache.ctakes.ytex.kernel

Class KernelUtilImpl

java.lang.Object

org.apache.ctakes.ytex.kernel.KernelUtilImpl

All Implemented Interfaces:

KernelUtil

public class KernelUtilImpl
extends Object
implements KernelUtil

Constructor Summary

Constructors

Constructor and Description
KernelUtilImpl()

Method Summary

Modifier and Type	Method and Description
void	exportClassIds(String outdir, Map<String,Integer> classIdMap, String label) export the class id to class name map.
void	fillGramMatrix(KernelEvaluation kernelEvaluation, SortedSet<Long> trainInstanceLabelMap, double[][] trainGramMatrix)
void	fillLabelToClassToIndexMap(Map<String,SortedSet<String>> labelToClasMap, Map<String,com.google.common.collect.BiMap<String,Integer>> labelToClassIndexMap) assign numeric indices to string class names
void	generateFolds(InstanceData instanceLabel, Properties props) generate folds from the label to instance map.
ClassifierEvaluationDao	getClassifierEvaluationDao()
DataSource	getDataSource()
FoldGenerator	getFoldGenerator()
KernelEvaluationDao	getKernelEvaluationDao()
org.springframework.transaction.PlatformTransactionManager	getTransactionManager()
double[][]	loadGramMatrix(SortedSet<Long> instanceIds, String name, String splitName, String experiment, String label, int run, int fold, double param1, String param2)
InstanceData	loadInstances(String strQuery) this can be very large - avoid loading the entire jdbc ResultSet into memory
void	loadProperties(String propertyFile, Properties props)
void	setClassifierEvaluationDao(ClassifierEvaluationDao classifierEvaluationDao)
void	setDataSource(DataSource dataSource)
void	setFoldGenerator(FoldGenerator foldGenerator)
void	setKernelEvaluationDao(KernelEvaluationDao kernelEvaluationDao)
void	setTransactionManager(org.springframework.transaction.PlatformTransactionManager transactionManager)

Methods inherited from class java.lang.Object

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

Constructor Detail

KernelUtilImpl

public KernelUtilImpl()

Method Detail

getFoldGenerator

public FoldGenerator getFoldGenerator()

setFoldGenerator

public void setFoldGenerator(FoldGenerator foldGenerator)

fillGramMatrix

public void fillGramMatrix(KernelEvaluation kernelEvaluation,
                           SortedSet<Long> trainInstanceLabelMap,
                           double[][] trainGramMatrix)

Specified by:

fillGramMatrix in interface KernelUtil

getClassifierEvaluationDao

public ClassifierEvaluationDao getClassifierEvaluationDao()

getDataSource

public DataSource getDataSource()

getKernelEvaluationDao

public KernelEvaluationDao getKernelEvaluationDao()

getTransactionManager

public org.springframework.transaction.PlatformTransactionManager getTransactionManager()

loadGramMatrix

public double[][] loadGramMatrix(SortedSet<Long> instanceIds,
                                 String name,
                                 String splitName,
                                 String experiment,
                                 String label,
                                 int run,
                                 int fold,
                                 double param1,
                                 String param2)

Specified by:

loadGramMatrix in interface KernelUtil

loadInstances

public InstanceData loadInstances(String strQuery)

this can be very large - avoid loading the entire jdbc ResultSet into memory

Specified by:

loadInstances in interface KernelUtil

loadProperties

public void loadProperties(String propertyFile,
                           Properties props)
                    throws FileNotFoundException,
                           IOException,
                           InvalidPropertiesFormatException

Specified by:

loadProperties in interface KernelUtil

Throws:

FileNotFoundException

IOException

InvalidPropertiesFormatException

setClassifierEvaluationDao

public void setClassifierEvaluationDao(ClassifierEvaluationDao classifierEvaluationDao)

setDataSource

public void setDataSource(DataSource dataSource)

setKernelEvaluationDao

public void setKernelEvaluationDao(KernelEvaluationDao kernelEvaluationDao)

setTransactionManager

public void setTransactionManager(org.springframework.transaction.PlatformTransactionManager transactionManager)

generateFolds

public void generateFolds(InstanceData instanceLabel,
                          Properties props)

Description copied from interface: KernelUtil

generate folds from the label to instance map. use properties specified in props to generate folds.

Specified by:

generateFolds in interface KernelUtil

fillLabelToClassToIndexMap

public void fillLabelToClassToIndexMap(Map<String,SortedSet<String>> labelToClasMap,
                                       Map<String,com.google.common.collect.BiMap<String,Integer>> labelToClassIndexMap)

assign numeric indices to string class names

Specified by:

fillLabelToClassToIndexMap in interface KernelUtil

Parameters:

labelToClasMap -

labelToClassIndexMap -

exportClassIds

public void exportClassIds(String outdir,
                           Map<String,Integer> classIdMap,
                           String label)
                    throws IOException

export the class id to class name map.

Specified by:

exportClassIds in interface KernelUtil

Parameters:

classIdMap -

label -

run -

fold -

Throws:

IOException