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Packages that use NonParsableException | |
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de.jstacs.classifier | This package provides the framework for any classifier. |
de.jstacs.classifier.assessment | This package allows to assess classifiers. |
de.jstacs.classifier.modelBased | Provides the classes for Classifier s that are based on Model s |
de.jstacs.classifier.scoringFunctionBased | Provides the classes for Classifier s that are based on ScoringFunction s. |
de.jstacs.classifier.scoringFunctionBased.cll | Provides the implementation of the log conditional likelihood as an OptimizableFunction and a classifier that uses log conditional likelihood or supervised posterior
to learn the parameters of a set of ScoringFunctions |
de.jstacs.classifier.scoringFunctionBased.logPrior | Provides a general definition of a parameter log-prior and a number of implementations of Laplace and Gaussian priors |
de.jstacs.data | Provides classes for the representation of data. |
de.jstacs.data.alphabets | Provides classes for the representation of discrete and continuous alphabets, including a DNAAlphabet for the most common case of DNA-sequences |
de.jstacs.data.sequences.annotation | Provides the facilities to annotate Sequence s using a number of pre-defined annotation types, or additional
implementations of the SequenceAnnotation class |
de.jstacs.io | Provides classes for reading data from and writing to a file and storing a number of datatypes, including all primitives, arrays of primitives, and Storable s to an XML-representation |
de.jstacs.models | Provides the interface Model and its abstract implementation AbstractModel , which is the super class of all other models. |
de.jstacs.models.discrete | |
de.jstacs.models.discrete.inhomogeneous | This package contains various inhomogeneous models. |
de.jstacs.models.discrete.inhomogeneous.parameters | |
de.jstacs.models.discrete.inhomogeneous.shared | |
de.jstacs.models.mixture | This package is the super package for any mixture model. |
de.jstacs.models.mixture.gibbssampling | This package contains many classes that can be used while a Gibbs sampling. |
de.jstacs.parameters | This package provides classes for parameters that establish a general convention for the description of parameters
as defined in the Parameter -interface. |
de.jstacs.parameters.validation | Provides classes for the validation of Parameter values |
de.jstacs.results | This package provides classes for results and sets of results. |
de.jstacs.scoringFunctions | Provides ScoringFunction s that can be used in a ScoreClassifier . |
de.jstacs.scoringFunctions.directedGraphicalModels | Provides ScoringFunction s that are equivalent to directed graphical models. |
de.jstacs.scoringFunctions.directedGraphicalModels.structureLearning.measures | Provides the facilities to learn the structure of a BayesianNetworkScoringFunction . |
de.jstacs.scoringFunctions.directedGraphicalModels.structureLearning.measures.btMeasures | Provides the facilities to learn the structure of a BayesianNetworkScoringFunction as
a Bayesian tree using a number of measures to define a rating of structures |
de.jstacs.scoringFunctions.directedGraphicalModels.structureLearning.measures.pmmMeasures | Provides the facilities to learn the structure of a BayesianNetworkScoringFunction as
a permuted Markov model using a number of measures to define a rating of structures |
de.jstacs.scoringFunctions.homogeneous | Provides ScoringFunction s that are homogeneous, i.e. model probabilities or scores independent of the position within a sequence |
de.jstacs.scoringFunctions.mix | Provides ScoringFunction s that are mixtures of other ScoringFunction s. |
Uses of NonParsableException in de.jstacs.classifier |
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Methods in de.jstacs.classifier that throw NonParsableException | |
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protected void |
MappingClassifier.extractFurtherClassifierInfosFromXML(StringBuffer xml)
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protected void |
AbstractScoreBasedClassifier.extractFurtherClassifierInfosFromXML(StringBuffer xml)
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protected abstract void |
AbstractClassifier.extractFurtherClassifierInfosFromXML(StringBuffer xml)
Extracts further information of a classifier from an xml-representation. |
protected void |
AbstractScoreBasedClassifier.DoubleTableResult.fromXML(StringBuffer representation)
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Constructors in de.jstacs.classifier that throw NonParsableException | |
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AbstractClassifier(StringBuffer xml)
The constructor for the Storable interface. |
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AbstractScoreBasedClassifier.DoubleTableResult(StringBuffer representation)
This is the constructor for Storable . |
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AbstractScoreBasedClassifier(StringBuffer xml)
The constructor for the Storable interface. |
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ConfusionMatrix(StringBuffer representation)
This is the constructor for Storable . |
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MappingClassifier(StringBuffer representation)
This is the constructor for Storable . |
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MeasureParameters(StringBuffer representation)
Re-creates a MeasureParameters instance from its XML-representation as returned by MultiSelectionCollectionParameter.toXML() . |
Uses of NonParsableException in de.jstacs.classifier.assessment |
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Constructors in de.jstacs.classifier.assessment that throw NonParsableException | |
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ClassifierAssessmentAssessParameterSet(StringBuffer representation)
inherited from ParameterSet |
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KFoldCVAssessParameterSet(StringBuffer representation)
inherited from ClassifierAssessmentAssessParameterSet |
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RepeatedHoldOutAssessParameterSet(StringBuffer representation)
inherited from ClassifierAssessmentAssessParameterSet |
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RepeatedSubSamplingAssessParameterSet(StringBuffer representation)
inherited from ClassifierAssessmentAssessParameterSet |
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Sampled_RepeatedHoldOutAssessParameterSet(StringBuffer representation)
inherited from ClassifierAssessmentAssessParameterSet |
Uses of NonParsableException in de.jstacs.classifier.modelBased |
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Methods in de.jstacs.classifier.modelBased that throw NonParsableException | |
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protected void |
ModelBasedClassifier.extractFurtherClassifierInfosFromXML(StringBuffer xml)
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Constructors in de.jstacs.classifier.modelBased that throw NonParsableException | |
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ModelBasedClassifier(StringBuffer xml)
This is the constructor for Storable . |
Uses of NonParsableException in de.jstacs.classifier.scoringFunctionBased |
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Methods in de.jstacs.classifier.scoringFunctionBased that throw NonParsableException | |
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protected void |
ScoreClassifier.extractFurtherClassifierInfosFromXML(StringBuffer xml)
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Constructors in de.jstacs.classifier.scoringFunctionBased that throw NonParsableException | |
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ScoreClassifier(StringBuffer xml)
This is the constructor for Storable . |
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ScoreClassifierParameterSet(StringBuffer xml)
This is the constructor for Storable . |
Uses of NonParsableException in de.jstacs.classifier.scoringFunctionBased.cll |
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Methods in de.jstacs.classifier.scoringFunctionBased.cll that throw NonParsableException | |
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protected void |
CLLClassifier.extractFurtherClassifierInfosFromXML(StringBuffer xml)
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Constructors in de.jstacs.classifier.scoringFunctionBased.cll that throw NonParsableException | |
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CLLClassifier(StringBuffer xml)
This is the constructor for Storable . |
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CLLClassifierParameterSet(StringBuffer xml)
This is the constructor for Storable . |
Uses of NonParsableException in de.jstacs.classifier.scoringFunctionBased.logPrior |
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Constructors in de.jstacs.classifier.scoringFunctionBased.logPrior that throw NonParsableException | |
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SeparateGaussianLogPrior(StringBuffer xml)
Re-creates a SeparateGaussianLogPrior from its XML-representation as returned by SeparateLogPrior.toXML() . |
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SeparateLaplaceLogPrior(StringBuffer xml)
Re-creates a SeparateLaplaceLogPrior from its XML-representation as returned by SeparateLogPrior.toXML() . |
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SeparateLogPrior(StringBuffer xml)
Re-creates a SeparateLogPrior from its XML-representation as returned by SeparateLogPrior.toXML() . |
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SimpleGaussianSumLogPrior(StringBuffer xml)
Re-creates a SimpleGaussianSumLogPrior from its XML-representation as returned by SimpleGaussianSumLogPrior.toXML() . |
Uses of NonParsableException in de.jstacs.data |
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Methods in de.jstacs.data that throw NonParsableException | |
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protected void |
AlphabetContainerParameterSet.fromXML(StringBuffer representation)
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void |
AlphabetContainerParameterSet.SectionDefinedAlphabetParameterSet.fromXML(StringBuffer representation)
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void |
AlphabetContainerParameterSet.AlphabetArrayParameterSet.fromXML(StringBuffer representation)
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Constructors in de.jstacs.data that throw NonParsableException | |
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Alphabet.AlphabetParameterSet(StringBuffer representation)
Creates a new AlphabetParameterSet from its XML-representation. |
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AlphabetContainer(StringBuffer xml)
Extracts the AlphabetContainer from the StringBuffer. |
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AlphabetContainerParameterSet.AlphabetArrayParameterSet(StringBuffer representation)
Creates a new AlphabetArrayParameterSet from its XML-representation. |
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AlphabetContainerParameterSet.SectionDefinedAlphabetParameterSet(StringBuffer representation)
Creates a new SectionDefinedAlphabetParameterSet from its XML-representation. |
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AlphabetContainerParameterSet(StringBuffer representation)
Creates a new AlphabetContainerParameterSet from its XML-representation. |
Uses of NonParsableException in de.jstacs.data.alphabets |
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Constructors in de.jstacs.data.alphabets that throw NonParsableException | |
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ComplementableDiscreteAlphabet(StringBuffer representation)
The constructor for the Storable interface. |
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ContinuousAlphabet.ContinuousAlphabetParameterSet(StringBuffer representation)
Creates a new ContinousParameterSet from its XML-representation. |
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ContinuousAlphabet(StringBuffer xml)
Extracts the alphabet from the StringBuffer. |
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DiscreteAlphabet.DiscreteAlphabetParameterSet(StringBuffer representation)
Creates a new DiscreteAlphabetParameterSet from its XML-representation. |
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DiscreteAlphabet(StringBuffer representation)
Extracts the alphabet from the StringBuffer. |
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DNAAlphabet.DNAAlphabetParameterSet(StringBuffer representation)
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DNAAlphabet(StringBuffer representation)
The constructor for the Storable interface. |
Uses of NonParsableException in de.jstacs.data.sequences.annotation |
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Methods in de.jstacs.data.sequences.annotation that throw NonParsableException | |
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protected void |
StrandedLocatedSequenceAnnotationWithLength.fromXML(StringBuffer representation)
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protected void |
SequenceAnnotation.fromXML(StringBuffer source)
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protected void |
LocatedSequenceAnnotationWithLength.fromXML(StringBuffer representation)
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protected void |
LocatedSequenceAnnotation.fromXML(StringBuffer representation)
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Uses of NonParsableException in de.jstacs.io |
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Methods in de.jstacs.io that throw NonParsableException | ||
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static boolean[][] |
XMLParser.extractBoolean2ArrayForTag(StringBuffer source,
String tag)
Returns the value between equal start and end tags as a two dimensional boolean array. |
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static boolean[][] |
XMLParser.extractBoolean2ArrayForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as a two dimensional boolean array. |
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static boolean[] |
XMLParser.extractBooleanArrayForTag(StringBuffer source,
String tag)
Returns the value between equal start and end tags as a boolean array. |
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static boolean[] |
XMLParser.extractBooleanArrayForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as a boolean array. |
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static boolean |
XMLParser.extractBooleanForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as boolean. |
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static boolean |
XMLParser.extractBooleanForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as boolean. |
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static byte[][] |
XMLParser.extractByte2ArrayForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as a two dimensional byte array. |
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static byte[][] |
XMLParser.extractByte2ArrayForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as a two dimensional byte array. |
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static byte[] |
XMLParser.extractByteArrayForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as a byte array. |
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static byte[] |
XMLParser.extractByteArrayForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as a byte array. |
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static byte |
XMLParser.extractByteForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as byte. |
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static byte |
XMLParser.extractByteForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as byte. |
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static double[][] |
XMLParser.extractDouble2ArrayForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as a two dimensional double array. |
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static double[][] |
XMLParser.extractDouble2ArrayForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as a two dimensional double array. |
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static double[] |
XMLParser.extractDoubleArrayForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as a double array. |
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static double[] |
XMLParser.extractDoubleArrayForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as a double array. |
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static double |
XMLParser.extractDoubleForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as double. |
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static double |
XMLParser.extractDoubleForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as double. |
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static
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XMLParser.extractEnumForTag(StringBuffer source,
String tag)
Returns the enumeration between equal start and end tags as Enum. |
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static
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XMLParser.extractEnumForTag(StringBuffer source,
String startTag,
String endTag)
Returns the enumeration between start and end tag as Enum. |
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static StringBuffer |
XMLParser.extractForTag(StringBuffer source,
String tag)
Extracts the code between equal start and end tags and returns the substring between the tags as new StringBuffer. |
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static StringBuffer |
XMLParser.extractForTag(StringBuffer source,
String startTag,
String endTag)
Returns the substring between start and end tag as StringBuffer. |
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static int[][] |
XMLParser.extractInt2ArrayForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as a two dimensional int array. |
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static int[][] |
XMLParser.extractInt2ArrayForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as a two dimensional int array. |
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static int[] |
XMLParser.extractIntArrayForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as an int array. |
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static int[] |
XMLParser.extractIntArrayForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as an int array. |
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static int |
XMLParser.extractIntForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as int. |
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static int |
XMLParser.extractIntForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as int. |
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static long |
XMLParser.extractLongForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as long. |
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static long |
XMLParser.extractLongForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as long. |
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static Storable[][] |
XMLParser.extractStorable2ArrayForTag(StringBuffer source,
String tag)
Returns the value between equal start and end tags as a two dimensional Storable array. |
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static Storable[][] |
XMLParser.extractStorable2ArrayForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as a two dimensional Storable array. |
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static Storable[][][] |
XMLParser.extractStorable3ArrayForTag(StringBuffer source,
String tag)
Returns the value between equal start and end tags as a three dimensional Storable array. |
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static Storable[][][] |
XMLParser.extractStorable3ArrayForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as a three dimensional Storable array. |
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static Storable[] |
XMLParser.extractStorableArrayForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as a Storable array. |
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static Storable[] |
XMLParser.extractStorableArrayForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as a Storable array. |
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static Storable |
XMLParser.extractStorableForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as Storable . |
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static Storable |
XMLParser.extractStorableForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as Storable . |
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static Storable |
XMLParser.extractStorableOrNullForTag(StringBuffer source,
String tag)
Returns the value between equal start and end tags as Storable or null . |
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static Storable |
XMLParser.extractStorableOrNullForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as Storable or null . |
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static String[][] |
XMLParser.extractString2ArrayForTag(StringBuffer source,
String tag)
Returns the value between equal start and end tags as a two dimensional String array. |
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static String[][] |
XMLParser.extractString2ArrayForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as a two dimensional String array. |
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static String[] |
XMLParser.extractStringArrayForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as a String array. |
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static String[] |
XMLParser.extractStringArrayForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as a String array. |
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static String |
XMLParser.extractStringForTag(StringBuffer source,
String startTag)
Returns the value between equal start and end tags as a String. |
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static String |
XMLParser.extractStringForTag(StringBuffer source,
String startTag,
String endTag)
Returns the value between start and end tag as a String. |
Uses of NonParsableException in de.jstacs.models |
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Methods in de.jstacs.models that throw NonParsableException | |
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void |
UniformModel.fromXML(StringBuffer representation)
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void |
CompositeModel.fromXML(StringBuffer representation)
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protected abstract void |
AbstractModel.fromXML(StringBuffer xml)
This method should only be used by the constructor that works on StringBuffer. |
Constructors in de.jstacs.models that throw NonParsableException | |
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AbstractModel(StringBuffer stringBuff)
Constructor for parsing a AbstractModel out of a StringBuffer. |
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CompositeModel(StringBuffer stringBuff)
The constructor for the Storable interface. |
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UniformModel(StringBuffer stringBuff)
The constructor for the Storable interface. |
Uses of NonParsableException in de.jstacs.models.discrete |
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Methods in de.jstacs.models.discrete that throw NonParsableException | |
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protected abstract void |
Constraint.extractAdditionalInfo(StringBuffer xml)
This method parses additional information from the StringBuffer that are not parsed in the base class. |
protected void |
DiscreteGraphicalModel.fromXML(StringBuffer representation)
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protected void |
DiscreteGraphicalModel.set(DGMParameterSet params,
boolean trained)
Sets the parameters as internal parameters and does some essential computations. |
protected abstract void |
DiscreteGraphicalModel.setFurtherModelInfos(StringBuffer xml)
This method replaces the internal model infos with those from the StringBuffer. |
Constructors in de.jstacs.models.discrete that throw NonParsableException | |
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Constraint(StringBuffer xml)
The constructor for creating an object from an StringBuffer. |
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DGMParameterSet(StringBuffer s)
The constructor for the Storable interface. |
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DiscreteGraphicalModel(DGMParameterSet params)
The default constructor. |
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DiscreteGraphicalModel(StringBuffer representation)
The constructor for a model in xml format. |
Uses of NonParsableException in de.jstacs.models.discrete.inhomogeneous |
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Methods in de.jstacs.models.discrete.inhomogeneous that throw NonParsableException | |
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protected void |
MEMConstraint.extractAdditionalInfo(StringBuffer xml)
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protected void |
InhConstraint.extractAdditionalInfo(StringBuffer xml)
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protected void |
InhCondProb.extractAdditionalInfo(StringBuffer xml)
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protected void |
InhomogeneousDGM.set(DGMParameterSet parameter,
boolean trained)
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protected void |
FSDAGModel.set(DGMParameterSet params,
boolean trained)
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protected void |
BayesianNetworkModel.set(DGMParameterSet parameter,
boolean trained)
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protected void |
DAGModel.setFurtherModelInfos(StringBuffer xml)
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Constructors in de.jstacs.models.discrete.inhomogeneous that throw NonParsableException | |
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BayesianNetworkModel(BayesianNetworkModelParameterSet params)
The default constructor. |
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BayesianNetworkModel(StringBuffer representation)
The constructor for a model in xml format. |
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DAGModel(IDGMParameterSet params)
This is the main constructor. |
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DAGModel(StringBuffer xml)
This is the constructor for Storable . |
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FSDAGModel(FSDAGMParameterSet params)
This is the main constructor. |
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FSDAGModel(StringBuffer xml)
This is the constructor for Storable . |
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InhCondProb(StringBuffer xml)
The constructor for saved objects. |
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InhConstraint(StringBuffer xml)
The constructor for saved objects. |
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InhomogeneousDGM(IDGMParameterSet params)
The default constructor. |
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InhomogeneousDGM(StringBuffer representation)
This is the constructor for Storable . |
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MEMConstraint(StringBuffer xml)
Creates a MEMConstraint from a StringBuffer |
Uses of NonParsableException in de.jstacs.models.discrete.inhomogeneous.parameters |
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Constructors in de.jstacs.models.discrete.inhomogeneous.parameters that throw NonParsableException | |
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BayesianNetworkModelParameterSet(StringBuffer s)
The constructor for the Storable interface. |
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FSDAGMParameterSet(StringBuffer s)
The constructor for the Storable interface. |
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IDGMParameterSet(StringBuffer s)
The constructor for the Storable interface. |
Uses of NonParsableException in de.jstacs.models.discrete.inhomogeneous.shared |
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Methods in de.jstacs.models.discrete.inhomogeneous.shared that throw NonParsableException | |
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protected void |
SharedStructureClassifier.extractFurtherClassifierInfosFromXML(StringBuffer xml)
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protected void |
SharedStructureMixture.fromXML(StringBuffer representation)
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Constructors in de.jstacs.models.discrete.inhomogeneous.shared that throw NonParsableException | |
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SharedStructureClassifier(StringBuffer xml)
The constructor for the Storable interface. |
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SharedStructureMixture(StringBuffer xml)
The constructor for the Storable interface. |
Uses of NonParsableException in de.jstacs.models.mixture |
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Methods in de.jstacs.models.mixture that throw NonParsableException | |
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protected void |
AbstractMixtureModel.extractFurtherInformation(StringBuffer xml)
This method is used in the subclasses to extract further information from the xml representation and to set these as values of the instance. |
protected void |
AbstractMixtureModel.fromXML(StringBuffer representation)
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Constructors in de.jstacs.models.mixture that throw NonParsableException | |
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AbstractMixtureModel(StringBuffer xml)
The standard constructor for the interface Storable . |
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MixtureModel(StringBuffer xml)
The constructor for the interface Storable . |
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StrandModel(StringBuffer stringBuff)
This constructor can be used for loading a StrandModel form a StringBuffer ; |
Uses of NonParsableException in de.jstacs.models.mixture.gibbssampling |
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Methods in de.jstacs.models.mixture.gibbssampling that throw NonParsableException | |
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protected void |
FSDAGModelForGibbsSampling.setFurtherModelInfos(StringBuffer xml)
In this method the reader is set to null |
Constructors in de.jstacs.models.mixture.gibbssampling that throw NonParsableException | |
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FSDAGModelForGibbsSampling(FSDAGMParameterSet params)
The default constructor. |
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FSDAGModelForGibbsSampling(StringBuffer representation)
This is the constructor for Storable . |
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SimpleBurnInTest(StringBuffer xml)
The standard constructor for the interface Storable . |
Uses of NonParsableException in de.jstacs.parameters |
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Methods in de.jstacs.parameters that throw NonParsableException | |
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protected void |
EnumParameter.extractCollection(StringBuffer buf)
|
protected void |
CollectionParameter.extractCollection(StringBuffer buf)
Extracts the internal ParameterSet from its XML-representation (ParameterSet.toXML() ). |
protected void |
SimpleParameter.fromXML(StringBuffer representation)
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protected void |
RangeParameter.fromXML(StringBuffer representation)
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protected void |
ParameterSetContainer.fromXML(StringBuffer representation)
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protected void |
ParameterSet.fromXML(StringBuffer representation)
Parses the instance fields of a ParameterSet from the XML-representation
as returned by ParameterSet.toXML() . |
protected void |
Parameter.fromXML(StringBuffer source)
Parses a Parameter from an XML-representation as returned by Parameter.toXML() . |
protected void |
MultiSelectionCollectionParameter.fromXML(StringBuffer representation)
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protected void |
InstanceParameterSet.fromXML(StringBuffer representation)
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protected void |
FileParameter.fromXML(StringBuffer representation)
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protected void |
ExpandableParameterSet.fromXML(StringBuffer representation)
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protected void |
CollectionParameter.fromXML(StringBuffer representation)
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protected void |
ArrayParameterSet.fromXML(StringBuffer representation)
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Constructors in de.jstacs.parameters that throw NonParsableException | |
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ArrayParameterSet(StringBuffer representation)
Creates a new ArrayParameterSet from its XML-representation. |
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CollectionParameter(StringBuffer representation)
Restores an instance of CollectionParameter from a string representation |
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EnumParameter(StringBuffer representation)
Restores an instance of EnumParameter from a string representation |
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ExpandableParameterSet(StringBuffer representation)
Creates a new ExpandableParameterSet from its XML-representation. |
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FileParameter.FileRepresentation(StringBuffer buf)
Restores the file representation from an XML representation |
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FileParameter(StringBuffer buf)
Restores a file parameter from an XML representation. |
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InstanceParameterSet(StringBuffer representation)
Constructs a InstanceParameterSet from its XML-representation. |
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MultiSelectionCollectionParameter(StringBuffer representation)
Creates a new MultiSelectionCollectionParameter from its XML-representation |
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ParameterSet(StringBuffer representation)
Constructs a ParameterSet out of an XML representation |
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ParameterSetContainer(StringBuffer representation)
Creates a new ParameterSetContainer from its XML-representation. |
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RangeParameter(StringBuffer representation)
Restores a RangeParameter from its XML-representation. |
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SimpleParameter(StringBuffer representation)
Constructs a SimpleParameter out of an XML representation |
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SimpleParameterSet(StringBuffer representation)
Constructs a SimpleParameterSet from its XML-representation |
Uses of NonParsableException in de.jstacs.parameters.validation |
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Methods in de.jstacs.parameters.validation that throw NonParsableException | |
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void |
StorableValidator.fromXML(StringBuffer representation)
Parses a StorableValidator from the XML-representation
as returned by StorableValidator.toXML() . |
void |
SimpleStaticConstraint.fromXML(StringBuffer representation)
Parses a SimpleStaticConstraint from the XML-representation
as returned by SimpleStaticConstraint.toXML() . |
void |
SimpleReferenceConstraint.fromXML(StringBuffer representation)
|
void |
ReferenceConstraint.fromXML(StringBuffer representation)
Parses a ReferenceConstraint from the XML-representation
as returned by ReferenceConstraint.toXML() . |
void |
NumberValidator.fromXML(StringBuffer representation)
Parses a NumberValidator from the XML-representation
as returned by NumberValidator.toXML() . |
void |
ConstraintValidator.fromXML(StringBuffer representation)
Parses a ConstraintValidator from the XML-representation
as returned by ConstraintValidator.toXML() . |
Constructors in de.jstacs.parameters.validation that throw NonParsableException | |
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ConstraintValidator(StringBuffer representation)
Creates a new ConstraintValidator from its XML-representation. |
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NumberValidator(StringBuffer representation)
Constructs a NumberValidator out of a XML representation |
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ReferenceConstraint(StringBuffer representation)
Creates a new ReferenceConstraint from its XML-representation. |
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SimpleReferenceConstraint(StringBuffer representation)
Creates a new SimpleReferenceConstraint from its XML-representation. |
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SimpleStaticConstraint(StringBuffer representation)
Creates a new SimpleStaticConstraint from its XML-representation |
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StorableValidator(StringBuffer buf)
Constructs an ObjectValidator from its XML-representation |
Uses of NonParsableException in de.jstacs.results |
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Methods in de.jstacs.results that throw NonParsableException | |
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protected void |
Result.extractMainInfo(StringBuffer buf)
This method can be used in the fromXML-method to extract the main information (name, comment, datatype). |
protected void |
StorableResult.fromXML(StringBuffer representation)
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protected void |
SimpleResult.fromXML(StringBuffer representation)
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protected void |
SampleResult.fromXML(StringBuffer rep)
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protected void |
ResultSet.fromXML(StringBuffer representation)
Parses the contents of a ResultSet from its XML-representation as returned by ResultSet.toXML() . |
protected abstract void |
Result.fromXML(StringBuffer rep)
This method is used in Result.Result(StringBuffer) to extract the information. |
protected void |
NumericalResult.fromXML(StringBuffer representation)
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protected void |
MeanResultSet.fromXML(StringBuffer representation)
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protected void |
ListResult.fromXML(StringBuffer representation)
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protected void |
ImageResult.fromXML(StringBuffer representation)
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protected void |
CategoricalResult.fromXML(StringBuffer representation)
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Constructors in de.jstacs.results that throw NonParsableException | |
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CategoricalResult(StringBuffer representation)
Creates a new CategoricalResult from its XML-representation. |
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ListResult(StringBuffer representation)
Creates a new ListResult from the corresponding XML-representation. |
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MeanResultSet(StringBuffer representation)
The constructor for a model in xml format. |
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NumericalResult(StringBuffer representation)
Constructs a NumericalResult from its XML-representation. |
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NumericalResultSet(StringBuffer representation)
This is the constructor for Storable . |
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Result(StringBuffer rep)
The constructor for the Storable interface. |
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ResultSet(StringBuffer representation)
Constructs a ResultSet from its XML-representation. |
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SampleResult(StringBuffer source)
Re-creates a SampleResult from its XML-representation as returned by SampleResult.toXML() . |
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SimpleResult(StringBuffer rep)
This is the constructor for Storable . |
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StorableResult(StringBuffer buf)
Constructs a new ObjectResult from its XML-representation |
Uses of NonParsableException in de.jstacs.scoringFunctions |
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Methods in de.jstacs.scoringFunctions that throw NonParsableException | |
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protected void |
UniformScoringFunction.fromXML(StringBuffer xml)
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protected void |
MRFScoringFunction.fromXML(StringBuffer representation)
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protected void |
IndependentProductScoringFunction.fromXML(StringBuffer rep)
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protected abstract void |
AbstractNormalizableScoringFunction.fromXML(StringBuffer xml)
This method is called in the constructor to create a scoring function from a StringBuffer |
Constructors in de.jstacs.scoringFunctions that throw NonParsableException | |
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AbstractNormalizableScoringFunction(StringBuffer xml)
This is the constructor for Storable . |
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IndependentProductScoringFunction(StringBuffer source)
This is the constructor for Storable . |
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MRFScoringFunction(StringBuffer source)
This is the constructor for Storable . |
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UniformScoringFunction(StringBuffer xml)
This is the constructor for Storable . |
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VariableLengthScoringFunction(StringBuffer source)
This is the constructor for Storable . |
Uses of NonParsableException in de.jstacs.scoringFunctions.directedGraphicalModels |
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Methods in de.jstacs.scoringFunctions.directedGraphicalModels that throw NonParsableException | |
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static ParameterTree[] |
ParameterTree.fromStringArray(String[] strs,
AlphabetContainer alphabet)
Re-creates an array of ParameterTree s from their XML-representation as given in strs . |
protected void |
BayesianNetworkScoringFunction.fromXML(StringBuffer source)
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Constructors in de.jstacs.scoringFunctions.directedGraphicalModels that throw NonParsableException | |
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BayesianNetworkScoringFunction(StringBuffer xml)
Re-creates a BayesianNetworkScoringFunction from its XML-representation, as saved by the BayesianNetworkScoringFunction.toXML() } method. |
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Parameter(StringBuffer representation)
Re-creates a parameter from its XML-representation as returned by the Parameter.toXML() } method. |
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ParameterTree(StringBuffer source,
AlphabetContainer alphabet)
Re-creates a ParameterTree from its XML-representation as returned by ParameterTree.toXML() . |
Uses of NonParsableException in de.jstacs.scoringFunctions.directedGraphicalModels.structureLearning.measures |
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Constructors in de.jstacs.scoringFunctions.directedGraphicalModels.structureLearning.measures that throw NonParsableException | |
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InhomogeneousMarkov(StringBuffer buf)
Re-creates an InhomogeneousMarkov structure from its XML-representation as returned by InhomogeneousMarkov.toXML() . |
Uses of NonParsableException in de.jstacs.scoringFunctions.directedGraphicalModels.structureLearning.measures.btMeasures |
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Constructors in de.jstacs.scoringFunctions.directedGraphicalModels.structureLearning.measures.btMeasures that throw NonParsableException | |
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BTExplainingAwayResidual(StringBuffer buf)
Re-creates a BTExplainingAwayResidual from is XML-representation as returned by BTExplainingAwayResidual.toXML() . |
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BTMutualInformation(StringBuffer buf)
Re-creates a BTMutualInformation from is XML-representation as returned by BTMutualInformation.toXML() . |
Uses of NonParsableException in de.jstacs.scoringFunctions.directedGraphicalModels.structureLearning.measures.pmmMeasures |
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Constructors in de.jstacs.scoringFunctions.directedGraphicalModels.structureLearning.measures.pmmMeasures that throw NonParsableException | |
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PMMExplainingAwayResidual(StringBuffer buf)
Re-creates a PMMExplainingAwayResidual from its XML-representation as returned by PMMExplainingAwayResidual.toXML() . |
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PMMMutualInformation(StringBuffer buf)
Re-creates a PMMMutualInformation from its XML-representation as returned by PMMMutualInformation.toXML() . |
Uses of NonParsableException in de.jstacs.scoringFunctions.homogeneous |
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Methods in de.jstacs.scoringFunctions.homogeneous that throw NonParsableException | |
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protected void |
UniformHomogeneousScoringFunction.fromXML(StringBuffer xml)
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protected void |
HMMScoringFunction.fromXML(StringBuffer xml)
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protected void |
HMM0ScoringFunction.fromXML(StringBuffer xml)
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Constructors in de.jstacs.scoringFunctions.homogeneous that throw NonParsableException | |
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HMM0ScoringFunction(StringBuffer xml)
This is the constructor for Storable . |
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HMMScoringFunction(StringBuffer xml)
This is the constructor for Storable . |
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HomogeneousScoringFunction(StringBuffer source)
This is the constructor for Storable . |
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UniformHomogeneousScoringFunction(StringBuffer xml)
This is the constructor for Storable . |
Uses of NonParsableException in de.jstacs.scoringFunctions.mix |
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Methods in de.jstacs.scoringFunctions.mix that throw NonParsableException | |
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protected void |
AbstractMixtureScoringFunction.extractFurtherInformation(StringBuffer xml)
This method is the opposite of AbstractMixtureScoringFunction.getFurtherInformation() . |
protected void |
AbstractMixtureScoringFunction.fromXML(StringBuffer b)
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Constructors in de.jstacs.scoringFunctions.mix that throw NonParsableException | |
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AbstractMixtureScoringFunction(StringBuffer xml)
This is the constructor for Storable . |
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MixtureScoringFunction(StringBuffer xml)
This is the constructor for Storable . |
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