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Package classifier.wekaSVM |
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Class classifier.wekaSVM.SMO extends weka.classifiers.Classifier implements Serializable |
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serialVersionUID: -6585883636378691736L
Serialized Fields |
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SMO.BinarySMO[][] m_classifiers
double m_C
double m_eps
double m_tol
int m_filterType
weka.filters.unsupervised.attribute.NominalToBinary m_NominalToBinary
weka.filters.Filter m_Filter
weka.filters.unsupervised.attribute.ReplaceMissingValues m_Missing
int m_classIndex
weka.core.Attribute m_classAttribute
boolean m_KernelIsLinear
boolean m_checksTurnedOff
boolean m_fitLogisticModels
int m_numFolds
int m_randomSeed
weka.classifiers.functions.supportVector.Kernel m_kernel
weka.core.Instances local_instances
double[] training_distances
Class classifier.wekaSVM.SMO.BinarySMO extends java.lang.Object implements Serializable |
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serialVersionUID: -8246163625699362456L
Serialized Fields |
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double[] m_alpha
double m_b
double m_bLow
double m_bUp
int m_iLow
int m_iUp
weka.core.Instances m_data
double[] m_weights
double[] m_sparseWeights
int[] m_sparseIndices
weka.classifiers.functions.supportVector.Kernel m_kernel
double[] m_class
double[] m_errors
weka.classifiers.functions.supportVector.SMOset m_I0
weka.classifiers.functions.supportVector.SMOset m_I1
weka.classifiers.functions.supportVector.SMOset m_I2
weka.classifiers.functions.supportVector.SMOset m_I3
weka.classifiers.functions.supportVector.SMOset m_I4
weka.classifiers.functions.supportVector.SMOset m_supportVectors
weka.classifiers.functions.Logistic m_logistic
double m_sumOfWeights
Package startup.gui |
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Class startup.gui.OptionsPanel extends javax.swing.JPanel implements Serializable |
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serialVersionUID: 112548455L
Serialized Fields |
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FunSiPGui fspg
javax.swing.JFrame parent
javax.swing.JTextField currentOutputDirectory
javax.swing.JButton findCurrentOutputDirectory
Class startup.gui.SprClassificationActionPanel extends javax.swing.JPanel implements Serializable |
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serialVersionUID: 1125485465L
Serialized Fields |
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javax.swing.JFileChooser fc
java.awt.Dimension minDimPanel
java.awt.Dimension minDimCheck
javax.swing.JPanel namePanel
javax.swing.JCheckBox nameCheck
javax.swing.JTextField nameField
javax.swing.JPanel classificationNamePanel
javax.swing.JCheckBox classificationNameCheck
javax.swing.JTextField classificationNameField
javax.swing.JPanel classifierTypePanel
javax.swing.JCheckBox classifierTypeCheck
javax.swing.JComboBox classifierTypeBox
javax.swing.JPanel classifierOptionsPanel
javax.swing.JCheckBox classifierOptionsCheck
javax.swing.JTextField classifierOptionsField
javax.swing.JPanel commandPanel
javax.swing.JCheckBox commandCheck
javax.swing.JComboBox commandBox
javax.swing.JPanel classificationFeaturePanel
javax.swing.JCheckBox classificationFeatureCheck
javax.swing.JButton classificationFeatureButton
SprClassificationFeaturePanel cfp
javax.swing.JPanel positiveTrainingFilePanel
javax.swing.JCheckBox positiveTrainingFileCheck
javax.swing.JTextField positiveTrainingFileField
javax.swing.JButton positiveTrainingFileButton
javax.swing.JPanel negativeTrainingFilePanel
javax.swing.JCheckBox negativeTrainingFileCheck
javax.swing.JTextField negativeTrainingFileField
javax.swing.JButton negativeTrainingFileButton
javax.swing.JPanel positiveTrainingSSFilePanel
javax.swing.JCheckBox positiveTrainingSSFileCheck
javax.swing.JTextField positiveTrainingSSFileField
javax.swing.JButton positiveTrainingSSFileButton
javax.swing.JPanel negativeTrainingSSFilePanel
javax.swing.JCheckBox negativeTrainingSSFileCheck
javax.swing.JTextField negativeTrainingSSFileField
javax.swing.JButton negativeTrainingSSFileButton
javax.swing.JPanel outputDirPanel
javax.swing.JCheckBox outputDirCheck
javax.swing.JTextField outputDirField
javax.swing.JButton outputDirButton
javax.swing.JPanel functionalSitePanel
javax.swing.JCheckBox functionalSiteCheck
javax.swing.JTextField functionalSiteField
javax.swing.JPanel modelFilePanel
javax.swing.JCheckBox modelFileCheck
javax.swing.JTextField modelFileField
javax.swing.JButton modelFileButton
javax.swing.JPanel featuresOutputPanel
javax.swing.JCheckBox featuresOutputCheck
javax.swing.JTextField featuresOutputField
javax.swing.JButton featuresOutputButton
javax.swing.JPanel testFilesPanel
javax.swing.JCheckBox testFilesCheck
javax.swing.JTextField testFilesField
javax.swing.JButton testFilesButton
javax.swing.JPanel outputPredictionPanel
javax.swing.JCheckBox outputPredictionCheck
javax.swing.JTextField outputPredictionField
javax.swing.JPanel fileTypePanel
javax.swing.JCheckBox fileTypeCheck
javax.swing.JComboBox fileTypeCombo
javax.swing.JPanel strandPanel
javax.swing.JCheckBox strandCheck
javax.swing.JComboBox strandCombo
javax.swing.JPanel crossvalidationPanel
javax.swing.JCheckBox crossvalidationCheck
javax.swing.JTextField crossvalidationField
javax.swing.JPanel crossvalidationComplexPanel
javax.swing.JCheckBox crossvalidationComplexCheck
javax.swing.JComboBox crossvalidationComplexCombo
javax.swing.JPanel positiveAmountPanel
javax.swing.JCheckBox positiveAmountCheck
javax.swing.JTextField positiveAmountField
javax.swing.JPanel negativeAmountPanel
javax.swing.JCheckBox negativeAmountCheck
javax.swing.JTextField negativeAmountField
javax.swing.JPanel classificationPatternPanel
javax.swing.JCheckBox classificationPatternCheck
javax.swing.JTextField classificationPatternField
javax.swing.JPanel classificationPatternLocPanel
javax.swing.JCheckBox classificationPatternLocCheck
javax.swing.JTextField classificationPatternLocField
javax.swing.JPanel classificationPatternOutPanel
javax.swing.JCheckBox classificationPatternOutCheck
javax.swing.JTextField classificationPatternOutField1
javax.swing.JTextField classificationPatternOutField2
javax.swing.JPanel featureSelectionTypePanel
javax.swing.JCheckBox featureSelectionTypeCheck
javax.swing.JComboBox featureSelectionTypeCombo
javax.swing.JPanel featureSelectionPurposePanel
javax.swing.JCheckBox featureSelectionPurposeCheck
javax.swing.JComboBox featureSelectionPurposeCombo
javax.swing.JPanel featureSelectionInputFilePanel
javax.swing.JCheckBox featureSelectionInputFileCheck
javax.swing.JTextField featureSelectionInputFileField
javax.swing.JButton featureSelectionInputFileButton
javax.swing.JPanel featureSelectionOutputFilePanel
javax.swing.JCheckBox featureSelectionOutputFileCheck
javax.swing.JTextField featureSelectionOutputFileField
javax.swing.JPanel featureSelectionMaxFeatPanel
javax.swing.JCheckBox featureSelectionMaxFeatCheck
javax.swing.JTextField featureSelectionMaxFeatField
ClassificationAction classifAction
Class startup.gui.SprClassificationFeaturePanel extends javax.swing.JPanel implements Serializable |
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serialVersionUID: 115648L
Serialized Fields |
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javax.swing.JList actionsList
javax.swing.JButton addActionButton
javax.swing.JButton removeActionButton
javax.swing.JButton editActionButton
ClassificationAction ca
Class startup.gui.SprOutputEditorWriter extends javax.swing.JPanel implements Serializable |
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serialVersionUID: 11254658L
Serialized Fields |
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javax.swing.JTextPane pane
java.io.Writer writer
FunSiPGui rt
Class startup.gui.SprOutputPanel extends javax.swing.JPanel implements Serializable |
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serialVersionUID: 1254486L
Serialized Fields |
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SprOutputPanel.OUTPUT output
SprOutputPanel.OUTPUT_FILTER of
javax.swing.JRadioButton debugButton
javax.swing.JRadioButton infoButton
javax.swing.JRadioButton warnButton
javax.swing.JRadioButton errorButton
javax.swing.JRadioButton fatalButton
javax.swing.JRadioButton standardButton
javax.swing.JRadioButton toFileButton
javax.swing.JRadioButton toFrameButton
javax.swing.JButton chooseFileButton
javax.swing.JTextField chooseFileField
Class startup.gui.SprSplashScreen extends javax.swing.JWindow implements Serializable |
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serialVersionUID: 4484868874896L
Serialized Fields |
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javax.swing.JProgressBar progressBar
int progress
startup.gui.SprSplashScreen.SplashPanel masterPanel
Class startup.gui.SprWorkflowPanel extends javax.swing.JPanel implements Serializable |
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serialVersionUID: 1125487996L
Serialized Fields |
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javax.swing.JCheckBox threadingCheck
javax.swing.JComboBox threadingList
javax.swing.JPanel threadingPanel
javax.swing.JPanel mergeOutputPanel
javax.swing.JCheckBox moCheck
javax.swing.JTextField moField
javax.swing.JPanel optimizerPanel
javax.swing.JCheckBox optimizerCheck
javax.swing.JTextField optField1
javax.swing.JTextField optField2
javax.swing.JTextField optField3
javax.swing.JPanel addFilePanel
javax.swing.JCheckBox addFileCheck
javax.swing.JButton addFileEditButton
java.util.List<E> files
FunSiPWorkflow flow
Class startup.gui.WizardFramework extends javax.swing.JFrame implements Serializable |
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serialVersionUID: 125448654L
Serialized Fields |
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WizardFramework.WIZARD_STATE state
java.util.List<E> modelData
javax.swing.JPanel mainPanel
java.lang.String finalConfigurationFileName
FunSiPGui fspParent
javax.swing.JPanel buttonPanel
javax.swing.JButton previousButton
javax.swing.JButton nextButton
javax.swing.JButton cancelButton
javax.swing.JButton finishButton
javax.swing.JPanel buildOrUsePanel
javax.swing.JRadioButton buildRadioButton
javax.swing.JRadioButton useRadioButton
java.lang.String[] speciesUse
javax.swing.JPanel speciesUsePanel
javax.swing.JList speciesUseList
java.lang.String selectedUseSpecies
java.lang.String[] actionsUse
javax.swing.JPanel actionsUsePanel
javax.swing.JList actionsUseList
java.lang.String[] selectedUseAction
javax.swing.JPanel finalUsePanel
javax.swing.JCheckBox finalUseMergeCheck
javax.swing.JList finalUseFileList
javax.swing.JButton finalUseAddFileButton
javax.swing.JButton finalUseRemoveFileButton
java.lang.String[] finalUseFiles
javax.swing.JTextField finalUseConfigFileNameField
javax.swing.JPanel speciesBuildPanel
javax.swing.JTextField speciesNameBuildField
javax.swing.JTextField speciesPosTrainBuildField
javax.swing.JTextField speciesNegTrainBuildField
javax.swing.JTextField locationTrainBuildField
javax.swing.JButton speciesPosTrainBuildButton
javax.swing.JButton speciesNegTrainBuildButton
boolean speciesBuildComplete
int trainLocation
javax.swing.JPanel actionsBuildPanel
javax.swing.JCheckBox actionsBuildOptimization
javax.swing.JTextField actionsBuildOptField1
javax.swing.JTextField actionsBuildOptField2
javax.swing.JTextField actionsBuildOptField3
javax.swing.JTextField actionsBuildName
javax.swing.JTextField actionsBuildClassifName
javax.swing.JButton editClassificationActions
ClassificationAction buildClassificationAction
boolean actionsBuildComplete
javax.swing.JPanel finishBuildPanel
javax.swing.JCheckBox createEvaluateFile
javax.swing.JCheckBox applyFeatureSelection
javax.swing.JCheckBox posAmountTrainingCheck
javax.swing.JCheckBox negAmountTrainingCheck
javax.swing.JTextField posAmountTrainingField
javax.swing.JTextField negAmountTrainingField
javax.swing.JTextField finishBuildConfigNameField
javax.swing.JCheckBox addToModelFileCheck
int posAmountTraining
int negAmountTraining
Package util |
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Class util.FeatureException extends java.lang.Exception implements Serializable |
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serialVersionUID: 5565876L
Package util.classificationFeatures |
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Class util.classificationFeatures.FeatureExtractionException extends java.lang.Exception implements Serializable |
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serialVersionUID: 551264L
Class util.classificationFeatures.IncorrectClassificationFeatureException extends java.lang.Exception implements Serializable |
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serialVersionUID: 55155789L
Package util.featureSelection.implementations |
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Class util.featureSelection.implementations.TestAttribEval extends weka.attributeSelection.AttributeEvaluator implements Serializable |
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serialVersionUID: 456876L
Serialized Fields |
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double[] evals
Package var |
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Class var.Experimenter extends javax.swing.JPanel implements Serializable |
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serialVersionUID: 44587L
Serialized Fields |
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java.lang.String configName
javax.swing.JMenuItem newAction
javax.swing.JMenuItem removeAction
javax.swing.JMenuItem saveItem
javax.swing.JMenuItem loadItem
javax.swing.JMenuItem exitItem
javax.swing.JMenuItem helpItem
javax.swing.JMenuItem aboutItem
javax.swing.JCheckBox autoDirectory
javax.swing.JCheckBox greedyScripts
javax.swing.JCheckBox groupScriptsBox
javax.swing.JRadioButton unixButton
javax.swing.JRadioButton win32Button
javax.swing.JTextField mappingField
javax.swing.JButton exitButton
javax.swing.JButton createButton
RangePanel rangePanel
Package var.experimenter |
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Class var.experimenter.ActionPanel extends javax.swing.JPanel implements Serializable |
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serialVersionUID: 11557558L
Serialized Fields |
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java.lang.String name
java.util.List<E> rangeOptions
javax.swing.JPanel content
Class var.experimenter.ActionsPanel extends javax.swing.JPanel implements Serializable |
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serialVersionUID: 5545584L
Class var.experimenter.ChoosePanel extends javax.swing.JPanel implements Serializable |
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serialVersionUID: 4456789L
Serialized Fields |
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ScriptOptionAbstractClass single_option
ScriptOptionAbstractClass fixed_range_option
ScriptOptionAbstractClass range_exp_option
ScriptOptionAbstractClass range_lin_option
ScriptOptionAbstractClass current
javax.swing.JRadioButton single_r_button
javax.swing.JRadioButton fixed_range_r_button
javax.swing.JRadioButton range_exp_r_button
javax.swing.JRadioButton range_lin_r_button
java.lang.String title
Class var.experimenter.FixedOption extends ScriptOptionAbstractClass implements Serializable |
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serialVersionUID: 55879546L
Serialized Fields |
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java.util.List<E> double_values
java.util.List<E> integer_values
javax.swing.JTextField fixed_field
Class var.experimenter.FixedRangeOption extends ScriptOptionAbstractClass implements Serializable |
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serialVersionUID: 55546894L
Serialized Fields |
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java.util.List<E> double_values
java.util.List<E> integer_values
javax.swing.JTextField rangeField
Class var.experimenter.OverridePanel extends javax.swing.JPanel implements Serializable |
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serialVersionUID: 555489645L
Serialized Fields |
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javax.swing.JTextField field1
javax.swing.JTextField field2
javax.swing.JTextField field3
javax.swing.JTextField field4
Class var.experimenter.RangeOption extends java.lang.Object implements Serializable |
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serialVersionUID: 11568944L
Serialized Fields |
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RangeOption.TYPE type
java.lang.String name
java.lang.String keyName
java.lang.String commandName
int identifier
java.lang.String string_arg_1
int integer_arg_1
int integer_arg_2
double double_arg_1
java.util.List<E> select_arg_1
java.util.List<E> select_arg_2
boolean isRange1
boolean isRange2
boolean isRange
boolean canBeRange
javax.swing.JTextField firstTextField
javax.swing.JTextField secondTextField
javax.swing.JCheckBox includeOption
java.awt.Component parent
ChoosePanel choosePanel1
ChoosePanel choosePanel2
javax.swing.JPanel panel
javax.swing.JLabel isRangedLabel
java.util.List<E> double_values
java.util.List<E> integer_values_1
java.util.List<E> integer_values_2
javax.swing.JComboBox combo_1
javax.swing.JComboBox combo_2
javax.swing.JButton editButton
Class var.experimenter.RangePanel extends javax.swing.JPanel implements Serializable |
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serialVersionUID: 44255665L
Serialized Fields |
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javax.swing.JTabbedPane pane
Class var.experimenter.ScriptOptionAbstractClass extends javax.swing.JPanel implements Serializable |
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serialVersionUID: 45678L
Class var.experimenter.VariableRangeExpOption extends ScriptOptionAbstractClass implements Serializable |
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serialVersionUID: 12354678L
Serialized Fields |
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java.util.List<E> double_values
java.util.List<E> integer_values
int minimum_exponent
int maximum_exponent
int base_exponent
javax.swing.JTextField min_exp_textfield
javax.swing.JTextField max_exp_textfield
javax.swing.JTextField base_exp_textfield
Class var.experimenter.VariableRangeLinearOption extends ScriptOptionAbstractClass implements Serializable |
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serialVersionUID: 4568L
Serialized Fields |
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java.util.List<E> double_values
java.util.List<E> integer_values
double minimum_value
double maximum_value
double step_value
javax.swing.JTextField min_val_textfield
javax.swing.JTextField max_val_textfield
javax.swing.JTextField step_val_textfield
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