org.apache.ctakes.ytex.sparsematrix

Class SparseMatrixFormatterFactory.SparseMatrixDataFormatter

java.lang.Object

org.apache.ctakes.ytex.kernel.BaseSparseDataFormatter

org.apache.ctakes.ytex.libsvm.LibSVMFormatterFactory.LibSVMFormatter

org.apache.ctakes.ytex.sparsematrix.SparseMatrixFormatterFactory.SparseMatrixDataFormatter

All Implemented Interfaces:

SparseDataFormatter

Enclosing class:

SparseMatrixFormatterFactory

public static class SparseMatrixFormatterFactory.SparseMatrixDataFormatter
extends LibSVMFormatterFactory.LibSVMFormatter

Field Summary

Fields inherited from class org.apache.ctakes.ytex.kernel.BaseSparseDataFormatter

exportProperties, kernelUtil, labelToClassIndexMap, maxAttributeIndex, nominalAttributeMap, numericAttributeMap, outdir

Fields inherited from interface org.apache.ctakes.ytex.kernel.SparseDataFormatter

ATTR_INSTANCE_ID, SCOPE, SCOPE_FOLD, SCOPE_LABEL

Constructor Summary

Constructors

Constructor and Description
SparseMatrixDataFormatter(InstanceDataExporter instanceDataExporter, KernelUtil kernelUtil)

Method Summary

Modifier and Type	Method and Description
protected int	exportAttributeNames(BufferedWriter w, SparseData sparseData) add instance_id as first in the map of numeric attribute
void	exportFold(SparseData sparseData, SortedMap<Long,String> instanceClassMap, boolean train, String label, Integer run, Integer fold) export the given train/test set
protected SortedMap<Integer,Double>	getSparseLineValues(SparseData bagOfWordsData, Map<String,Integer> numericAttributeMap, Map<String,Map<String,Integer>> nominalAttributeMap, long instanceId) add instance_id to sparse line values
void	initializeExport(InstanceData instanceLabel, Properties properties, SparseData sparseData) get needed properties out of outdir.
void	initializeFold(SparseData sparseData, String label, Integer run, Integer fold, SortedMap<Boolean,SortedMap<Long,String>> foldInstanceLabelMap) write a file with the attribute names corresponding to the indices in the libsvm data file
void	initializeLabel(String label, SortedMap<Integer,SortedMap<Integer,SortedMap<Boolean,SortedMap<Long,String>>>> labelInstances, Properties properties, SparseData sparseData)

Methods inherited from class org.apache.ctakes.ytex.libsvm.LibSVMFormatterFactory.LibSVMFormatter

clearFold, clearLabel, exportDataForInstances, exportDataForLabel, writeLibsvmLine

Methods inherited from class org.apache.ctakes.ytex.kernel.BaseSparseDataFormatter

addNumericAttribute, exportAttributeNames, exportSparseMatrix, exportSparseRow, updateLabelClassMapTransductive

Methods inherited from class java.lang.Object

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

Constructor Detail

SparseMatrixDataFormatter

public SparseMatrixDataFormatter(InstanceDataExporter instanceDataExporter,
                                 KernelUtil kernelUtil)

Method Detail

initializeExport

public void initializeExport(InstanceData instanceLabel,
                             Properties properties,
                             SparseData sparseData)
                      throws IOException

Description copied from class: BaseSparseDataFormatter

get needed properties out of outdir. convert class names into integers for libsvm. attempt to parse the class name into an integer. if this fails, use an index that we increment. index corresponds to class name's alphabetical order.

Specified by:

initializeExport in interface SparseDataFormatter

Overrides:

initializeExport in class LibSVMFormatterFactory.LibSVMFormatter

Throws:

IOException

initializeLabel

public void initializeLabel(String label,
                            SortedMap<Integer,SortedMap<Integer,SortedMap<Boolean,SortedMap<Long,String>>>> labelInstances,
                            Properties properties,
                            SparseData sparseData)
                     throws IOException

Specified by:

initializeLabel in interface SparseDataFormatter

Overrides:

initializeLabel in class LibSVMFormatterFactory.LibSVMFormatter

Throws:

IOException

initializeFold

public void initializeFold(SparseData sparseData,
                           String label,
                           Integer run,
                           Integer fold,
                           SortedMap<Boolean,SortedMap<Long,String>> foldInstanceLabelMap)
                    throws IOException

Description copied from class: LibSVMFormatterFactory.LibSVMFormatter

write a file with the attribute names corresponding to the indices in the libsvm data file

Specified by:

initializeFold in interface SparseDataFormatter

Overrides:

initializeFold in class LibSVMFormatterFactory.LibSVMFormatter

Throws:

IOException

exportFold

public void exportFold(SparseData sparseData,
                       SortedMap<Long,String> instanceClassMap,
                       boolean train,
                       String label,
                       Integer run,
                       Integer fold)
                throws IOException

Description copied from class: LibSVMFormatterFactory.LibSVMFormatter

export the given train/test set

Specified by:

exportFold in interface SparseDataFormatter

Overrides:

exportFold in class LibSVMFormatterFactory.LibSVMFormatter

Throws:

IOException

exportAttributeNames

protected int exportAttributeNames(BufferedWriter w,
                                   SparseData sparseData)
                            throws IOException

add instance_id as first in the map of numeric attribute

Overrides:

exportAttributeNames in class BaseSparseDataFormatter

Throws:

IOException

getSparseLineValues

protected SortedMap<Integer,Double> getSparseLineValues(SparseData bagOfWordsData,
                                                        Map<String,Integer> numericAttributeMap,
                                                        Map<String,Map<String,Integer>> nominalAttributeMap,
                                                        long instanceId)

add instance_id to sparse line values

Overrides:

getSparseLineValues in class BaseSparseDataFormatter

Returns: