- category00 - Static variable in class javatools.parsers.PlingStemmer
-
Words that do not have a distinct plural form (like "atlas" etc.)
- categoryCHE_CHES - Static variable in class javatools.parsers.PlingStemmer
-
Words that change from "-che" to "-ches" (like "brioche" etc.), listed in their plural forms
- categoryEX_ICES - Static variable in class javatools.parsers.PlingStemmer
-
Words that change from "-ex" to "-ices" (like "index" etc.), listed in their plural forms
- categoryICS - Static variable in class javatools.parsers.PlingStemmer
-
Words that end with "-ics" and do not exist as nouns without the 's' (like "aerobics" etc.)
- categoryIE_IES - Static variable in class javatools.parsers.PlingStemmer
-
Words that change from "-ie" to "-ies" (like "auntie" etc.), listed in their plural forms
- categoryIS_ES - Static variable in class javatools.parsers.PlingStemmer
-
Words that change from "-is" to "-es" (like "axis" etc.), listed in their plural forms
- categoryIX_ICES - Static variable in class javatools.parsers.PlingStemmer
-
Words that change from "-ix" to "-ices" (like "appendix" etc.), listed in their plural forms
- categoryO_I - Static variable in class javatools.parsers.PlingStemmer
-
Words that change from "-o" to "-i" (like "libretto" etc.), listed in their plural forms
- categoryOE_OES - Static variable in class javatools.parsers.PlingStemmer
-
Words that change from "-oe" to "-oes" (like "toe" etc.), listed in their plural forms
- categoryON_A - Static variable in class javatools.parsers.PlingStemmer
-
Words that change from "-on" to "-a" (like "phenomenon" etc.), listed in their plural forms
- categorySE_SES - Static variable in class javatools.parsers.PlingStemmer
-
Words that end in "-se" in their plural forms (like "nurse" etc.)
- categorySSE_SSES - Static variable in class javatools.parsers.PlingStemmer
-
Words that change from "-sse" to "-sses" (like "finesse" etc.), listed in their plural forms
- categoryU_US - Static variable in class javatools.parsers.PlingStemmer
-
Words that change from "-u" to "-us" (like "emu" etc.), listed in their plural forms
- categoryUM_A - Static variable in class javatools.parsers.PlingStemmer
-
Words that change from "-um" to "-a" (like "curriculum" etc.), listed in their plural forms
- categoryUS_I - Static variable in class javatools.parsers.PlingStemmer
-
Words that change from "-us" to "-i" (like "fungus" etc.), listed in their plural forms
- ch.epfl.bbp.uima - package ch.epfl.bbp.uima
-
- ch.epfl.bbp.uima.ae - package ch.epfl.bbp.uima.ae
-
- ch.epfl.bbp.uima.ae.cleanup - package ch.epfl.bbp.uima.ae.cleanup
-
- ch.epfl.bbp.uima.ae.output - package ch.epfl.bbp.uima.ae.output
-
- ch.epfl.bbp.uima.ae.relations - package ch.epfl.bbp.uima.ae.relations
-
- ch.epfl.bbp.uima.ae.serialization - package ch.epfl.bbp.uima.ae.serialization
-
- ch.epfl.bbp.uima.annotationviewer - package ch.epfl.bbp.uima.annotationviewer
-
- ch.epfl.bbp.uima.cr - package ch.epfl.bbp.uima.cr
-
- ch.epfl.bbp.uima.filter - package ch.epfl.bbp.uima.filter
-
- ch.epfl.bbp.uima.io - package ch.epfl.bbp.uima.io
-
- ch.epfl.bbp.uima.testutils - package ch.epfl.bbp.uima.testutils
-
- ch.epfl.bbp.uima.uimafit - package ch.epfl.bbp.uima.uimafit
-
- ch.epfl.bbp.uima.utils - package ch.epfl.bbp.uima.utils
-
- ch.epfl.bbp.uima.validation - package ch.epfl.bbp.uima.validation
-
- ch.epfl.bbp.uima.word2vec - package ch.epfl.bbp.uima.word2vec
-
- checkEquals(T, T) - Static method in class ch.epfl.bbp.uima.utils.Preconditions
-
- checkEquals(T, T, String) - Static method in class ch.epfl.bbp.uima.utils.Preconditions
-
- checkFileExists(String) - Static method in class ch.epfl.bbp.uima.utils.Preconditions
-
- checkFileExists(String, String) - Static method in class ch.epfl.bbp.uima.utils.Preconditions
-
- checkFileExists(File) - Static method in class ch.epfl.bbp.uima.utils.Preconditions
-
- checkFileExists(File, String) - Static method in class ch.epfl.bbp.uima.utils.Preconditions
-
- cleanBlockText(String) - Static method in class ch.epfl.bbp.uima.filter.SectionAnnotator
-
Used to identify block "titles", like "Introduction","References"
- close() - Method in class ch.epfl.bbp.uima.ae.output.LdaCWriter.Writer
-
- close() - Method in class ch.epfl.bbp.uima.cr.AggregateCollectionReader
-
- closeAndPrint() - Static method in class ch.epfl.bbp.uima.utils.StopwatchUtils
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.EvaluationAnnotator
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.output.AnnotationHistogramAnnotator
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.output.AnnotationInstanceHistogramAnnotator
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.output.AnnotationTypeWriter
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.output.BartWriter
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.output.CountAnnotations
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.output.CountAnnotationsAnnotator
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.output.LdaCWriter
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.output.PrintAnnotationInSentenceWriter
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.output.SentenceDumpAnnotator
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.output.StatsTextAnnotator
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.relations.CooccurrencesEvaluationAnnotator
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.relations.CooccurrencesEvaluationAnnotator2
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.relations.WriteCoocurrencesToLoadfile
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.relations.WriteCoocurrencesToLoadfile2
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.ae.relations.WriteCoocurrencesToLoadfile3
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.filter.FrequencyFilterWriter
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.filter.KeepsWriter
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.filter.SectionAnnotator
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.uimafit.StatusCallbackListenerSlf4J
-
- collectionProcessComplete() - Method in class ch.epfl.bbp.uima.validation.CrossvalidationWriter
-
- COMBINAISON_INDEX - Static variable in class ch.epfl.bbp.uima.ae.GridSearchConfiguration
-
- comp() - Static method in class ch.epfl.bbp.uima.ae.relations.CooccurrencesEvaluationAnnotator
-
- Comparator<T,U> - Interface in ch.epfl.bbp.uima.validation
-
- compare() - Method in class ch.epfl.bbp.uima.validation.AlternateTestEvaluator
-
- compare() - Method in class ch.epfl.bbp.uima.validation.TestEvaluator
-
- compareTo(Word2Vec.WordEntry) - Method in class ch.epfl.bbp.uima.word2vec.Word2Vec.WordEntry
-
- complete(String) - Method in interface ds.tree.RadixTree
-
Complete the a prefix to the point where ambiguity starts.
- complete(String) - Method in class ds.tree.RadixTreeImpl
-
Complete the a prefix to the point where ambiguity starts.
- COMPONENT_ID - Static variable in class ch.epfl.bbp.uima.ae.WhitespaceTokenizerAnnotator
-
- COMPONENT_ID - Static variable in class ch.epfl.bbp.uima.cr.FileReader
-
- COMPONENT_ID - Static variable in class ch.epfl.bbp.uima.cr.TextArrayReader
-
- COMPONENT_ID - Static variable in class ch.epfl.bbp.uima.cr.TextLineReader
-
- COMPONENT_ID - Static variable in class ch.epfl.bbp.uima.cr.TextReader
-
- ConcatReader - Class in ch.epfl.bbp.uima.cr
-
TODO
- ConcatReader() - Constructor for class ch.epfl.bbp.uima.cr.ConcatReader
-
- ConceptFileWriter - Class in ch.epfl.bbp.uima.utils
-
- ConceptFileWriter.Concept - Class in ch.epfl.bbp.uima.utils
-
A bean representing a lexicon context
- ConceptFileWriter.Concept(String, String, Set<String>) - Constructor for class ch.epfl.bbp.uima.utils.ConceptFileWriter.Concept
-
- contains(Collection<Cooccurrence>, Cooccurrence) - Static method in class ch.epfl.bbp.uima.ae.relations.CooccurrencesEvaluationAnnotator
-
- contains(String) - Method in interface ds.tree.RadixTree
-
Check if the tree contains any entry corresponding to the given key.
- contains(String) - Method in class ds.tree.RadixTreeImpl
-
- contains(T) - Method in class javatools.parsers.FinalSet
-
Tells whether x is in the container
- cooccCnt - Variable in class ch.epfl.bbp.uima.ae.relations.WriteCoocurrencesToLoadfile
-
- cooccCnt - Variable in class ch.epfl.bbp.uima.ae.relations.WriteCoocurrencesToLoadfile2
-
- cooccCnt - Variable in class ch.epfl.bbp.uima.ae.relations.WriteCoocurrencesToLoadfile3
-
- CooccurrencesEvaluationAnnotator - Class in ch.epfl.bbp.uima.ae.relations
-
- CooccurrencesEvaluationAnnotator() - Constructor for class ch.epfl.bbp.uima.ae.relations.CooccurrencesEvaluationAnnotator
-
- CooccurrencesEvaluationAnnotator2 - Class in ch.epfl.bbp.uima.ae.relations
-
Evaluates
Cooccurrences for
projects/extract_brainregions/20140221_slurm_extraction
In particular, evaluates permutations of the 3 extractors
- CooccurrencesEvaluationAnnotator2() - Constructor for class ch.epfl.bbp.uima.ae.relations.CooccurrencesEvaluationAnnotator2
-
- cooccurrenceType - Variable in class ch.epfl.bbp.uima.ae.relations.ExtractCoocurrences
-
- cooccurrenceType - Variable in class ch.epfl.bbp.uima.ae.relations.WriteCoocurrencesToLoadfile2
-
- CopyAnnotationsAnnotator - Class in ch.epfl.bbp.uima.ae
-
Copies specified annotations into other specified annotations, then removes
the former.
- CopyAnnotationsAnnotator() - Constructor for class ch.epfl.bbp.uima.ae.CopyAnnotationsAnnotator
-
- CopyAnnotationsAnnotator2 - Class in ch.epfl.bbp.uima.ae
-
Copies specified annotations into other specified annotations, then removes
the former.
- CopyAnnotationsAnnotator2() - Constructor for class ch.epfl.bbp.uima.ae.CopyAnnotationsAnnotator2
-
- copyAnnotationToView(Annotation, JCas) - Static method in class ch.epfl.bbp.uima.ae.CopyAnnotationsAnnotator2
-
- CountAnnotations - Class in ch.epfl.bbp.uima.ae.output
-
Count specified annotationS, write
- CountAnnotations() - Constructor for class ch.epfl.bbp.uima.ae.output.CountAnnotations
-
- CountAnnotationsAnnotator - Class in ch.epfl.bbp.uima.ae.output
-
At the end of the whole pipeline, prints the count of occurrences of some
specified annotations
- CountAnnotationsAnnotator() - Constructor for class ch.epfl.bbp.uima.ae.output.CountAnnotationsAnnotator
-
- CpeBuilder - Class in ch.epfl.bbp.uima.uimafit
-
Build a Collection Processing Engine from a
CollectionReaderDescription and a AnalysisEngineDescription.
- CpeBuilder() - Constructor for class ch.epfl.bbp.uima.uimafit.CpeBuilder
-
- CpeBuilder(CollectionReaderDescription) - Constructor for class ch.epfl.bbp.uima.uimafit.CpeBuilder
-
- CpeBuilder(int, CollectionReaderDescription) - Constructor for class ch.epfl.bbp.uima.uimafit.CpeBuilder
-
Deprecated.
- createAnnot(JCas, Class<T>, int, int) - Static method in class ch.epfl.bbp.uima.testutils.UimaTests
-
- createAnnot(JCas, Class<T>, int, int, String) - Static method in class ch.epfl.bbp.uima.testutils.UimaTests
-
- createCpe(StatusCallbackListener) - Method in class ch.epfl.bbp.uima.uimafit.CpeBuilder
-
- createHtml(JCas, TypeSystem, File, File) - Method in class ch.epfl.bbp.uima.annotationviewer.BlueAnnotationViewer
-
Deprecated.
- cropToLength(String, int) - Static method in class ch.epfl.bbp.uima.uimafit.StatusCallbackListenerSlf4J
-
- CrossvalidationReader - Class in ch.epfl.bbp.uima.validation
-
Wraps any CollectionReader to perform cross validation.
- CrossvalidationReader() - Constructor for class ch.epfl.bbp.uima.validation.CrossvalidationReader
-
- CrossvalidationWriter - Class in ch.epfl.bbp.uima.validation
-
Used after the CollectionReader of an annotated corpus to persist it
for subsequent use (cross validation).
- CrossvalidationWriter() - Constructor for class ch.epfl.bbp.uima.validation.CrossvalidationWriter
-
- cut(String, String) - Static method in class javatools.parsers.PlingStemmer
-
Cuts a suffix from a string (that is the number of chars given by the suffix)
- featureName - Variable in class ch.epfl.bbp.uima.ae.output.AnnotationTypeWriter
-
- fieldMethod - Variable in class ch.epfl.bbp.uima.ae.output.AnnotationInstanceHistogramAnnotator
-
- fieldRaw - Variable in class ch.epfl.bbp.uima.ae.output.AnnotationInstanceHistogramAnnotator
-
- FIELDS - Static variable in class ch.epfl.bbp.uima.ae.relations.WriteCoocurrencesToLoadfile
-
- fileExtensionFilter - Variable in class ch.epfl.bbp.uima.cr.AbstractFileReader
-
- fileExtensionFilter - Variable in class ch.epfl.bbp.uima.cr.LdaCReader
-
- fileIterator - Variable in class ch.epfl.bbp.uima.cr.AbstractFileReader
-
- fileIterator - Variable in class ch.epfl.bbp.uima.cr.LdaCReader
-
- fileList - Variable in class ch.epfl.bbp.uima.cr.FromFilelistReader
-
- fileNamerClassName - Variable in class ch.epfl.bbp.uima.ae.output.XWriter
-
- fileNamerClassName - Variable in class ch.epfl.bbp.uima.ae.output.ZipXWriter
-
- FileReader - Class in ch.epfl.bbp.uima.cr
-
Simply iterates a directory, and delegates to an AnalysisEngine to
retrieve the actual file and process it.
NOTE: no JCas.documentText is set yet, the first
AnalysisEngine must do that
- FileReader() - Constructor for class ch.epfl.bbp.uima.cr.FileReader
-
- filterCooccurence(JCas, Annotation, Annotation, Annotation, String[], String[]) - Method in class ch.epfl.bbp.uima.ae.relations.ExtractCoocurrences
-
Adds all cooccurrences (no filtering).
- filterCooccurence(JCas, Annotation, Annotation, Annotation, String[], String[]) - Method in class ch.epfl.bbp.uima.ae.relations.ExtractCoocurrencesFilterDistance
-
Deprecated.
Adds all cooccurrences (no filtering).
- filterCooccurence(JCas, Annotation, Annotation, Annotation, String[], String[]) - Method in class ch.epfl.bbp.uima.ae.relations.ExtractSameCoocurrences
-
only add 1/2 the co-occurences, otherwise they would be counted 2 times.
- FilterCoocurrencesByDistance - Class in ch.epfl.bbp.uima.ae.relations
-
Filters cooccurrences whose two entities are separated by more that the
specified distance.
- FilterCoocurrencesByDistance() - Constructor for class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesByDistance
-
- FilterCoocurrencesByNot - Class in ch.epfl.bbp.uima.ae.relations
-
Filters cooccurrences whose sentence contains `not?`.
- FilterCoocurrencesByNot() - Constructor for class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesByNot
-
- FilterCoocurrencesByStopwords - Class in ch.epfl.bbp.uima.ae.relations
-
Deprecated.
- FilterCoocurrencesByStopwords() - Constructor for class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesByStopwords
-
Deprecated.
- FilterCoocurrencesByTriggerword - Class in ch.epfl.bbp.uima.ae.relations
-
Filters cooccurrences whose sentence contains keywords.
- FilterCoocurrencesByTriggerword() - Constructor for class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesByTriggerword
-
- FilterCoocurrencesIfTooManyEntities - Class in ch.epfl.bbp.uima.ae.relations
-
- FilterCoocurrencesIfTooManyEntities() - Constructor for class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesIfTooManyEntities
-
- FilterCoocurrencesInLongSentences - Class in ch.epfl.bbp.uima.ae.relations
-
- FilterCoocurrencesInLongSentences() - Constructor for class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesInLongSentences
-
- filterFeaturesWithValue - Variable in class ch.epfl.bbp.uima.ae.output.AnnotationTypeWriter
-
- FilterFrameworkUtils - Class in ch.epfl.bbp.uima.filter
-
Filtering framework.
- FilterFrameworkUtils() - Constructor for class ch.epfl.bbp.uima.filter.FilterFrameworkUtils
-
- FilterInactiveCooccurrencesAnnotator - Class in ch.epfl.bbp.uima.ae.relations
-
- FilterInactiveCooccurrencesAnnotator() - Constructor for class ch.epfl.bbp.uima.ae.relations.FilterInactiveCooccurrencesAnnotator
-
- filterStrict(Iterable<T>, Class<?>) - Static method in class ch.epfl.bbp.uima.BlueCasUtil
-
- FinalMap<T1 extends Comparable,T2> - Class in javatools.parsers
-
This class is part of the Java Tools (see http://mpii.de/yago-naga/javatools).
- FinalMap(Object...) - Constructor for class javatools.parsers.FinalMap
-
Constructs a FinalMap from an array that contains key/value sequences
- FinalSet<T extends Comparable> - Class in javatools.parsers
-
This class is part of the Java Tools (see http://mpii.de/yago-naga/javatools).
- FinalSet(boolean, T...) - Constructor for class javatools.parsers.FinalSet
-
Constructs a FinalSet from an array, clones and sorts the array if indicated.
- FinalSet(T...) - Constructor for class javatools.parsers.FinalSet
-
Constructs a FinalSet from an array that does not need to be cloned
- find(String) - Method in interface ds.tree.RadixTree
-
Find a value based on its corresponding key.
- find(String) - Method in class ds.tree.RadixTreeImpl
-
- findBestLongForm(String, String) - Method in class ch.epfl.bbp.uima.utils.ExtractAbbrev
-
- findOverlapping(JCas, Annotation) - Static method in class ch.epfl.bbp.uima.BlueCasUtil
-
- firstIdFields - Variable in class ch.epfl.bbp.uima.ae.relations.ExtractCoocurrences
-
- firstIdFieldsRaw - Variable in class ch.epfl.bbp.uima.ae.relations.ExtractCoocurrences
-
- firstIdMethods - Variable in class ch.epfl.bbp.uima.ae.relations.ExtractCoocurrences
-
- fixNoSentences(JCas) - Static method in class ch.epfl.bbp.uima.BlueCasUtil
-
If this cas has no Sentence annotation, creates one with the whole cas
text
- fixNoText(JCas) - Static method in class ch.epfl.bbp.uima.BlueCasUtil
-
If this cas has no text, set it to ""
- formatTo(Formatter, int, int, int) - Method in class ds.tree.RadixTreeImpl
-
Writes a textual representation of this tree to the given formatter.
- formatWithImplicitPmId - Variable in class ch.epfl.bbp.uima.cr.FromFilelistReader
-
- freeMemory() - Static method in class ch.epfl.bbp.uima.ae.GarbageCollectorAnnotator
-
- FrequencyFilterAnnotator - Class in ch.epfl.bbp.uima.filter
-
Removes
Keep annotations that are too frequent or not frequent enough
(aka "hapax"), based on a frequency list (that has been generated with
FrequencyFilterWriter.
- FrequencyFilterAnnotator() - Constructor for class ch.epfl.bbp.uima.filter.FrequencyFilterAnnotator
-
- FrequencyFilterWriter - Class in ch.epfl.bbp.uima.filter
-
- FrequencyFilterWriter() - Constructor for class ch.epfl.bbp.uima.filter.FrequencyFilterWriter
-
- FROM_ANNOTATION - Static variable in class ch.epfl.bbp.uima.ae.CopyAnnotationsAnnotator
-
- FROM_VIEW - Static variable in class ch.epfl.bbp.uima.ae.CopyAnnotationsAnnotator
-
- FROM_VIEW - Static variable in class ch.epfl.bbp.uima.ae.CopyAnnotationsAnnotator2
-
- FromFilelistReader - Class in ch.epfl.bbp.uima.cr
-
Simply iterates a file list (provided as txt file), and delegates to an
AnalysisEngine to retrieve the actual file and process it.
NOTE: NO JCas.documentText is set yet, the first
AnalysisEngine must do that
- FromFilelistReader() - Constructor for class ch.epfl.bbp.uima.cr.FromFilelistReader
-
- PARAM_ADD_BRAT_FILES - Static variable in class ch.epfl.bbp.uima.ae.output.BartWriter
-
- PARAM_AND_QUERY - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_ANNOTATION_CLASS - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_ANNOTATION_CLASSES - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_ANNOTATION_FIELD - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_ANNOTATION_FIELDS - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_BATCH_PREFIX - Static variable in class ch.epfl.bbp.uima.ae.output.BartWriter
-
- PARAM_BETWEEN - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_CASE_SENSITIVE - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_COOCCURRENCE_TYPE - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_CORPUS_ANNOTATIONS_PATH - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_CORPUS_NAME - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_CORPUS_PATH - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_CORPUS_ROOT - Static variable in class ch.epfl.bbp.uima.BlueUima
-
Root path of the corpus
- PARAM_DB_CONNECTION - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_DCA_FORMAT - Static variable in class ch.epfl.bbp.uima.ae.output.LdaCWriter
-
- PARAM_DEBUG - Static variable in class ch.epfl.bbp.uima.ae.output.BartWriter
-
- PARAM_DIRECTORY_ITERATOR - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_ENCLOSING_SCOPE - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_FEATURE_NAME - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_FIELD_NAME - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_FILE_EXTENSION_FILTER - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_FILE_NAMER_CLASS_NAME - Static variable in class ch.epfl.bbp.uima.ae.output.XWriter
-
The parameter name for the configuration parameter that specifies the name of the class that
implements the file namer
- PARAM_FILE_NAMER_CLASS_NAME - Static variable in class ch.epfl.bbp.uima.ae.output.ZipXWriter
-
The parameter name for the configuration parameter that specifies the
name of the class that implements the file namer
- PARAM_FILTER_FEATURES_WITH_VALUE - Static variable in class ch.epfl.bbp.uima.ae.output.AnnotationTypeWriter
-
- PARAM_FIRST_ANNOT - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_FIRST_ANNOT_ID_FIELD - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_FIRST_ANNOT_TYPE - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_FORMAT - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_GOLD_ANNOTATION - Static variable in class ch.epfl.bbp.uima.ae.EvaluationPreprocessorAnnotator
-
- PARAM_IDS_OUTPUT_FILE - Static variable in class ch.epfl.bbp.uima.ae.output.LdaCWriter
-
- PARAM_INDEX_NAME - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_INPUT - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_INPUT_DIRECTORY - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_INPUT_FILE - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_IS_RECURSIVE - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_KEEP_ONLY_NEAREST_NEIGHBORS - Static variable in class ch.epfl.bbp.uima.ae.relations.ExtractCoocurrences
-
- PARAM_MAX_NR_RESULTS - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_MAXIMUM_DISTANCE - Static variable in class ch.epfl.bbp.uima.ae.relations.ExtractCoocurrencesFilterDistance
-
Deprecated.
- PARAM_MAXIMUM_DISTANCE - Static variable in class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesByDistance
-
- PARAM_MAXIMUM_ENTITIES - Static variable in class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesIfTooManyEntities
-
- PARAM_MAXIMUM_SCOPE_LENGTH - Static variable in class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesInLongSentences
-
- PARAM_MODE - Static variable in class ch.epfl.bbp.uima.BlueUima
-
Corpus mode, either test or train or eval
- PARAM_MODE_EVAL - Static variable in class ch.epfl.bbp.uima.validation.CrossvalidationReader
-
- PARAM_MODEL - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_MODEL_FILE - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_OUTPUT_DIR - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_OUTPUT_FILE - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_PATH_PREFIX - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_PREFIX - Static variable in class org.apache.uima.fit.component.xwriter.IntegerFileNamer
-
The parameter name for the configuration parameter that specifies a fixed
prefix for all returned file names.
- PARAM_PRINT_EVERY - Static variable in class ch.epfl.bbp.uima.ae.StatsAnnotatorPlus
-
- PARAM_QUERY - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_REGEX - Static variable in class ch.epfl.bbp.uima.filter.SentenceFilterAnnotator
-
- PARAM_REMOVE_DATE_MEASURE - Static variable in class ch.epfl.bbp.uima.filter.MeasureNormalizerAnnotator
-
- PARAM_REMOVE_SIMPLE_MEASURE - Static variable in class ch.epfl.bbp.uima.filter.MeasureNormalizerAnnotator
-
- PARAM_SECOND_ANNOT - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_SECOND_ANNOT_ID_FIELD - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_SECOND_ANNOT_TYPE - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_SEED - Static variable in class ch.epfl.bbp.uima.validation.CrossvalidationReader
-
- PARAM_SKIP_EMPTY_DOCS - Static variable in class ch.epfl.bbp.uima.BlueUima
-
Skip (PubMed) docs that have no (abstract)/text
- PARAM_SLICE - Static variable in class ch.epfl.bbp.uima.validation.CrossvalidationReader
-
- PARAM_SPLIT_MODE - Static variable in class ch.epfl.bbp.uima.cr.TextLineReader
-
- PARAM_SPLITS - Static variable in class ch.epfl.bbp.uima.validation.CrossvalidationReader
-
- PARAM_START_AT - Static variable in class org.apache.uima.fit.component.xwriter.IntegerFileNamer
-
- PARAM_STRUCTURE_DIR - Static variable in class ch.epfl.bbp.uima.ae.output.ZipXWriter
-
The parameter name for the configuration parameter that specifies the
name of the class that implements the file namer
- PARAM_SYSTEM_ANNOTATION - Static variable in class ch.epfl.bbp.uima.ae.EvaluationPreprocessorAnnotator
-
- PARAM_TOKENIZATION_PATTERN - Static variable in class ch.epfl.bbp.uima.ae.RegexTokenizerAnnotator
-
- PARAM_VERBOSE - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_VIEW - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PARAM_VOCABULARY_INPUT_FILE - Static variable in class ch.epfl.bbp.uima.ae.output.LdaCWriter
-
- PARAM_VOCABULARY_INPUT_FILE - Static variable in class ch.epfl.bbp.uima.cr.OneDocPerLineIdsReader
-
- PARAM_VOCABULARY_OUTPUT_FILE - Static variable in class ch.epfl.bbp.uima.ae.output.LdaCWriter
-
- PARAM_WRITE_NOTES - Static variable in class ch.epfl.bbp.uima.ae.output.BartWriter
-
- PARAM_WRITE_SNIPPETS - Static variable in class ch.epfl.bbp.uima.ae.relations.WriteCoocurrencesToLoadfile
-
- PARAM_XML_SCHEME - Static variable in class ch.epfl.bbp.uima.cr.XCollectionReader
-
- PARAM_XML_SCHEME - Static variable in class ch.epfl.bbp.uima.cr.ZipXmiCollectionReader
-
- PARAM_XML_SCHEME_NAME - Static variable in class ch.epfl.bbp.uima.ae.output.XWriter
-
The parameter name for the configuration parameter that provides the name of the XML scheme
to use.
- PARAM_XML_SCHEME_NAME - Static variable in class ch.epfl.bbp.uima.ae.output.ZipXWriter
-
The parameter name for the configuration parameter that provides the name
of the XML scheme to use.
- parseConfiguration(List<String>) - Static method in class ch.epfl.bbp.uima.utils.StaticOption
-
- parseOptions(List<String>) - Static method in class ch.epfl.bbp.uima.utils.StaticOption
-
- PATH_NFS4_EXTRACTED_PDFS - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- PATH_NFS4_NLP - Static variable in class ch.epfl.bbp.uima.BlueUima
-
Path to NLP root folder on storage array
- pathPrefix - Variable in class ch.epfl.bbp.uima.cr.FromFilelistReader
-
- patterPunctDigitsCamelcase - Static variable in class ch.epfl.bbp.uima.ae.RegexTokenizerAnnotator
-
Splits on any punctuation character, digits and case change.
- patterPunctuation - Static variable in class ch.epfl.bbp.uima.ae.RegexTokenizerAnnotator
-
Splits on any punctuation character, @see tests
- patterPunctuationNoDash - Static variable in class ch.epfl.bbp.uima.ae.RegexTokenizerAnnotator
-
Splits on any punctuation character, except dashes, @see tests
- paused() - Method in class ch.epfl.bbp.uima.uimafit.StatusCallbackListenerSlf4J
-
- PipelineBuilder - Interface in ch.epfl.bbp.uima.uimafit
-
- PlingStemmer - Class in ch.epfl.bbp.uima.utils
-
- PlingStemmer() - Constructor for class ch.epfl.bbp.uima.utils.PlingStemmer
-
- PlingStemmer - Class in javatools.parsers
-
This class is part of the Java Tools (see http://mpii.de/yago-naga/javatools).
- PlingStemmer() - Constructor for class javatools.parsers.PlingStemmer
-
- pmId - Variable in class ch.epfl.bbp.uima.cr.OneDocPerLineReader
-
- POS_SKIP - Static variable in class ch.epfl.bbp.uima.ae.SkipSomePosAnnotator
-
- Preconditions - Class in ch.epfl.bbp.uima.utils
-
Extending Preconditions
- Preconditions() - Constructor for class ch.epfl.bbp.uima.utils.Preconditions
-
- print() - Static method in class ch.epfl.bbp.uima.utils.StaticOption
-
- PrintAnnotationInSentenceWriter - Class in ch.epfl.bbp.uima.ae.output
-
Writes out specified Annotations and its enclosing sentence to a specified
text file
- PrintAnnotationInSentenceWriter() - Constructor for class ch.epfl.bbp.uima.ae.output.PrintAnnotationInSentenceWriter
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.cleanup.SkipSomePosAnnotator2
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.cleanup.TooFewTokensFilterAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.cleanup.TooMuchOOVFilterAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.CopyAnnotationsAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.CopyAnnotationsAnnotator2
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.DeduplicatorAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.DotSentenceSplitterAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.EnsureDocHasHeader
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.EnsureDocHasOneSentence
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.EnsureDocTextNotNullAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.EnsureTokensHaveLemmaAndPOS
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.EntityNormalizerAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.EvaluationAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.EvaluationPreprocessorAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.GarbageCollectorAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.GeneralEnglishAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.GridSearchConfiguration
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.KeepLargestAnnotationAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.LucasHelperAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.MultipleProteinsAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.NaiveSentenceSplitterAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.NewlineSentenceSplitterAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.AnnotationHistogramAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.AnnotationInstanceHistogramAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.AnnotationTypeWriter
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.AnnotationTypeWriter2
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.BartWriter
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.CountAnnotations
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.CountAnnotationsAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.DocumentTextWriter
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.Dumper
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.DumpTokensWriter
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.DumpTopics
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.HtmlViewerWriter
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.LdaCWriter
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.PrintAnnotationInSentenceWriter
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.SentenceDumpAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.SplitInPages
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.StatsTextAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.SysoutDumper
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.XWriter
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.output.ZipXWriter
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.PunctuationAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.RegexTokenizerAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.relations.CooccurrencesEvaluationAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.relations.CooccurrencesEvaluationAnnotator2
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.relations.ExtractCoocurrences
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesByDistance
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesByNot
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesByStopwords
-
Deprecated.
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesByTriggerword
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesIfTooManyEntities
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.relations.FilterCoocurrencesInLongSentences
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.relations.FilterInactiveCooccurrencesAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.relations.WriteCoocurrencesToLoadfile
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.relations.WriteCoocurrencesToLoadfile2
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.relations.WriteCoocurrencesToLoadfile3
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.RemoveAnnotationsAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.serialization.BinaryCasWriter
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.SkipSomePosAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.SnowballAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.StaticConfiguration
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.StatsAnnotatorPlus
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.TestAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.ae.WhitespaceTokenizerAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.annotationviewer.BlueAnnotationViewerAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.AnnotationFilterAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.EtAlAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.FrequencyFilterAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.FrequencyFilterWriter
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.KeepsCleaner
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.KeepsDumper
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.KeepsWriter
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.LeaveOnlyKeepsEnclosedAnnotationsAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.MeasureNormalizerAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.PunctuationFilterAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.ReferencesFinderAnnotator
-
Deprecated.
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.SectionAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.SectionFilterAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.SectionRegexAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.SentenceFilterAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.SimpleNormalizerAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.SnowballStemmerNormalizerAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.StopwordFilterAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.Tokens2KeepAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.TooFewTokensFilterAnnotator
-
- process(JCas) - Method in class ch.epfl.bbp.uima.filter.TooMuchOOVFilterAnnotator
-
- process() - Method in class ch.epfl.bbp.uima.uimafit.CpeBuilder
-
- process() - Method in class ch.epfl.bbp.uima.uimafit.JcasPipelineBuilder
-
- process(boolean) - Method in class ch.epfl.bbp.uima.uimafit.JcasPipelineBuilder
-
- process(JCas) - Method in class ch.epfl.bbp.uima.uimafit.JcasPipelineBuilder
-
- process() - Method in interface ch.epfl.bbp.uima.uimafit.PipelineBuilder
-
- process() - Method in class ch.epfl.bbp.uima.uimafit.SimplePipelineBuilder
-
- process(JCas) - Method in class ch.epfl.bbp.uima.validation.CrossvalidationWriter
-
- processDocument(File) - Method in class ch.epfl.bbp.uima.annotationviewer.BlueAnnotationViewGenerator
-
- processStyleMap(File) - Method in class ch.epfl.bbp.uima.annotationviewer.BlueAnnotationViewGenerator
-
Processes a user-specified file map and produces three outputs:
annotations.css - A CSS stylesheet for the annotation viewer
legend.html - HTML document for legend (bottom pane of viewer)
docFrame.xsl - An XSL stylesheet to be applied to annotated documents
during calls to
BlueAnnotationViewGenerator.processDocument(File).
- PUNCT - Static variable in class ch.epfl.bbp.uima.ae.PunctuationAnnotator
-
- PunctuationAnnotator - Class in ch.epfl.bbp.uima.ae
-
Annotates Tokens consisting (exclusively) of punctuation chars.
- PunctuationAnnotator() - Constructor for class ch.epfl.bbp.uima.ae.PunctuationAnnotator
-
- PunctuationFilterAnnotator - Class in ch.epfl.bbp.uima.filter
-
- PunctuationFilterAnnotator() - Constructor for class ch.epfl.bbp.uima.filter.PunctuationFilterAnnotator
-
- SCharsStemmer - Class in ch.epfl.bbp.uima.utils
-
Removes ending s of words longer than 3 chars
- SCharsStemmer() - Constructor for class ch.epfl.bbp.uima.utils.SCharsStemmer
-
- score - Variable in class ch.epfl.bbp.uima.word2vec.Word2Vec.WordEntry
-
- ScriptingShortcut - Annotation Type in ch.epfl.bbp.uima
-
Documenting annotation.
- searchPrefix(String, int) - Method in interface ds.tree.RadixTree
-
Search for all the keys that start with given prefix.
- searchPrefix(String, int) - Method in class ds.tree.RadixTreeImpl
-
- secondIdFields - Variable in class ch.epfl.bbp.uima.ae.relations.ExtractCoocurrences
-
- secondIdFieldsRaw - Variable in class ch.epfl.bbp.uima.ae.relations.ExtractCoocurrences
-
- secondIdMethods - Variable in class ch.epfl.bbp.uima.ae.relations.ExtractCoocurrences
-
- SECTION_TYPE_ABSTRACT - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- SECTION_TYPE_COPYRIGHT - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- SECTION_TYPE_REFERENCES - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- SECTION_TYPE_TITLE - Static variable in class ch.epfl.bbp.uima.BlueUima
-
- SectionAnnotator - Class in ch.epfl.bbp.uima.filter
-
- SectionAnnotator() - Constructor for class ch.epfl.bbp.uima.filter.SectionAnnotator
-
- SectionFilterAnnotator - Class in ch.epfl.bbp.uima.filter
-
- SectionFilterAnnotator() - Constructor for class ch.epfl.bbp.uima.filter.SectionFilterAnnotator
-
- SectionRegexAnnotator - Class in ch.epfl.bbp.uima.filter
-
- SectionRegexAnnotator() - Constructor for class ch.epfl.bbp.uima.filter.SectionRegexAnnotator
-
- selectCovered(CAS, AnnotationFS) - Static method in class ch.epfl.bbp.uima.BlueCasUtil
-
REM: modified from CasUtils..
- selectStrict(JCas, Class<T>, Class<?>) - Static method in class ch.epfl.bbp.uima.BlueCasUtil
-
- SentenceDumpAnnotator - Class in ch.epfl.bbp.uima.ae.output
-
Format is:
pmId:sentId{tab}text
- SentenceDumpAnnotator() - Constructor for class ch.epfl.bbp.uima.ae.output.SentenceDumpAnnotator
-
- SentenceFilterAnnotator - Class in ch.epfl.bbp.uima.filter
-
Remove sentences that do not contain a given regex
- SentenceFilterAnnotator() - Constructor for class ch.epfl.bbp.uima.filter.SentenceFilterAnnotator
-
- serialize(JCas, File) - Static method in class ch.epfl.bbp.uima.ae.serialization.BinaryCasWriter
-
- setAnalysisEngineDescription(AnalysisEngineDescription) - Method in class ch.epfl.bbp.uima.uimafit.CpeBuilder
-
- setBoolean(String, boolean) - Static method in class ch.epfl.bbp.uima.utils.StaticOption
-
- setChoosenOption(int) - Static method in class ch.epfl.bbp.uima.utils.StaticOption
-
- setCpe(CollectionProcessingEngine) - Method in class ch.epfl.bbp.uima.uimafit.StatusCallbackListenerSlf4J
-
- setDirectory(File) - Method in class ch.epfl.bbp.uima.io.DirectoryIterator
-
- setDocId(JCas, int) - Static method in class ch.epfl.bbp.uima.BlueCasUtil
-
- setDouble(String, double) - Static method in class ch.epfl.bbp.uima.utils.StaticOption
-
- setExtensionFilter(String) - Method in class ch.epfl.bbp.uima.io.DirectoryIterator
-
- setInt(String, int) - Static method in class ch.epfl.bbp.uima.utils.StaticOption
-
- setLemma(Token, JCas, String) - Static method in class ch.epfl.bbp.uima.ae.EnsureTokensHaveLemmaAndPOS
-
Convenience method to set POS tag
- setMaxErrors(int) - Method in class ch.epfl.bbp.uima.uimafit.CpeBuilder
-
- setMaxProcessingUnitThreatCount(int) - Method in class ch.epfl.bbp.uima.uimafit.CpeBuilder
-
- setName(String) - Method in class ch.epfl.bbp.uima.uimafit.StatusCallbackListenerSlf4J
-
- setOutputDirectory(File) - Method in class ch.epfl.bbp.uima.annotationviewer.BlueAnnotationViewGenerator
-
- setPosTags(Token, JCas, String...) - Static method in class ch.epfl.bbp.uima.ae.EnsureTokensHaveLemmaAndPOS
-
Convenience method to set POS tag
- setReader(CollectionReaderDescription) - Method in class ch.epfl.bbp.uima.uimafit.CpeBuilder
-
- setReader(CollectionReaderDescription) - Method in class ch.epfl.bbp.uima.uimafit.JcasPipelineBuilder
-
- setReader(CollectionReaderDescription) - Method in interface ch.epfl.bbp.uima.uimafit.PipelineBuilder
-
- setReader(CollectionReaderDescription) - Method in class ch.epfl.bbp.uima.uimafit.SimplePipelineBuilder
-
- setRecursive(boolean) - Method in class ch.epfl.bbp.uima.io.DirectoryIterator
-
- setString(String, String) - Static method in class ch.epfl.bbp.uima.utils.StaticOption
-
- setTopNSize(int) - Method in class ch.epfl.bbp.uima.word2vec.Word2Vec
-
- shuffledMap(int, int) - Static method in class ch.epfl.bbp.uima.validation.ValidationUtils
-
- SilentMallet - Class in ch.epfl.bbp.uima.utils
-
overwrite Mallet default logs (tooo verbose)
- SilentMallet() - Constructor for class ch.epfl.bbp.uima.utils.SilentMallet
-
- SimpleNormalizerAnnotator - Class in ch.epfl.bbp.uima.filter
-
Lemmatizes every
Keep annotation and sets its
Keep#setNormalizedText(), by (just) trimming the annotation's text.
- SimpleNormalizerAnnotator() - Constructor for class ch.epfl.bbp.uima.filter.SimpleNormalizerAnnotator
-
- SimplePipelineBuilder - Class in ch.epfl.bbp.uima.uimafit
-
- SimplePipelineBuilder() - Constructor for class ch.epfl.bbp.uima.uimafit.SimplePipelineBuilder
-
- SimplePipelineBuilder(CollectionReaderDescription) - Constructor for class ch.epfl.bbp.uima.uimafit.SimplePipelineBuilder
-
- SimplePipelineBuilder(Class<? extends CollectionReader>, Object...) - Constructor for class ch.epfl.bbp.uima.uimafit.SimplePipelineBuilder
-
- singAndPlur - Static variable in class javatools.parsers.PlingStemmer
-
Contains word forms that can either be plural or singular
- SingleAbstractReader - Class in ch.epfl.bbp.uima.cr
-
Reads a single sample abstract, pmId 1957687.
- SingleAbstractReader() - Constructor for class ch.epfl.bbp.uima.cr.SingleAbstractReader
-
- SingleFileReader - Class in ch.epfl.bbp.uima.cr
-
Simply reads a single file, and delegates to an AnalysisEngine to
retrieve the actual file and process it.
NOTE: no JCas.documentText is set yet, the first
AnalysisEngine must do that
- SingleFileReader() - Constructor for class ch.epfl.bbp.uima.cr.SingleFileReader
-
- size - Variable in class ds.tree.RadixTreeImpl
-
- size() - Method in class javatools.parsers.FinalSet
-
Returns the number of elements in this FinalSet
- SKIP_ANNOTATIONS - Static variable in class ch.epfl.bbp.uima.ae.cleanup.DisambiguatorAnnotator
-
Deprecated.
- SKIP_POS - Static variable in class ch.epfl.bbp.uima.ae.cleanup.SkipSomePosAnnotator2
-
- SKIP_VERBS - Static variable in class ch.epfl.bbp.uima.ae.cleanup.DisambiguatorAnnotator
-
Deprecated.
- SkipSomePosAnnotator - Class in ch.epfl.bbp.uima.ae
-
Annotate (flags) tokens that have an "uninteresting" POS, like V.., W.., DT
or TO, IN, ...
- SkipSomePosAnnotator() - Constructor for class ch.epfl.bbp.uima.ae.SkipSomePosAnnotator
-
- SkipSomePosAnnotator2 - Class in ch.epfl.bbp.uima.ae.cleanup
-
Bluntly removes annotations that cover a word with an uninteresting POS, like
DT or TO, IN, ...
- SkipSomePosAnnotator2() - Constructor for class ch.epfl.bbp.uima.ae.cleanup.SkipSomePosAnnotator2
-
- snippet(JCas, int, int, Annotation, Annotation) - Static method in class ch.epfl.bbp.uima.ae.relations.WriteCoocurrencesToLoadfile2
-
- snippetWriter - Variable in class ch.epfl.bbp.uima.ae.relations.WriteCoocurrencesToLoadfile
-
- SnowballAnnotator - Class in ch.epfl.bbp.uima.ae
-
Snowball stemmer annotator for
Tokens
- SnowballAnnotator() - Constructor for class ch.epfl.bbp.uima.ae.SnowballAnnotator
-
- SnowballStemmer - Class in ch.epfl.bbp.uima.utils
-
Stems strings, using Snowball/Porter's algorithm.
- SnowballStemmer() - Constructor for class ch.epfl.bbp.uima.utils.SnowballStemmer
-
- SnowballStemmerNormalizerAnnotator - Class in ch.epfl.bbp.uima.filter
-
Stems every
Keep annotation and sets its
Keep#setNormalizedText(), using Snowball/Porter's algorithm.
- SnowballStemmerNormalizerAnnotator() - Constructor for class ch.epfl.bbp.uima.filter.SnowballStemmerNormalizerAnnotator
-
- SPLIT_PER_PAGE - Static variable in class ch.epfl.bbp.uima.ae.output.BartWriter
-
- SplitInPages - Class in ch.epfl.bbp.uima.ae.output
-
- SplitInPages() - Constructor for class ch.epfl.bbp.uima.ae.output.SplitInPages
-
- START(int) - Static method in class ch.epfl.bbp.uima.utils.StopwatchUtils
-
- StaticConfiguration - Class in ch.epfl.bbp.uima.ae
-
Utility to perform in-place (statically configured) parameter configuration
for optimization.
Parameters are set like this:
paramName{space}paramType{space}value1{space}value2...
Examples:
o1: myparam1 bool true
o2: myparam2 int 3
o3: myparam2 dble 3.14
o4: myparam3 string asdf
Then, in your java code you can retreive the vales using the
StaticOption.getXXX methods
- StaticConfiguration() - Constructor for class ch.epfl.bbp.uima.ae.StaticConfiguration
-
- StaticOption - Class in ch.epfl.bbp.uima.utils
-
- StaticOption() - Constructor for class ch.epfl.bbp.uima.utils.StaticOption
-
- StaticOption.Type - Enum in ch.epfl.bbp.uima.utils
-
- StatsAnnotatorPlus - Class in ch.epfl.bbp.uima.ae
-
Logs statistics about the progress of the pipeline to the console.
- StatsAnnotatorPlus() - Constructor for class ch.epfl.bbp.uima.ae.StatsAnnotatorPlus
-
- StatsTextAnnotator - Class in ch.epfl.bbp.uima.ae.output
-
Statistics (histogram) of document text length.
- StatsTextAnnotator() - Constructor for class ch.epfl.bbp.uima.ae.output.StatsTextAnnotator
-
- StatusCallbackListenerSlf4J - Class in ch.epfl.bbp.uima.uimafit
-
Callback Listener using Slf4J.
- StatusCallbackListenerSlf4J() - Constructor for class ch.epfl.bbp.uima.uimafit.StatusCallbackListenerSlf4J
-
- stem(String) - Method in class ch.epfl.bbp.uima.utils.PlingStemmer
-
- stem(String) - Method in class ch.epfl.bbp.uima.utils.SCharsStemmer
-
Removes ending s of words longer than 3 chars
- stem(String) - Method in class ch.epfl.bbp.uima.utils.SnowballStemmer
-
- stem(String) - Static method in class javatools.parsers.PlingStemmer
-
Stems an English noun
- STOP(int) - Static method in class ch.epfl.bbp.uima.utils.StopwatchUtils
-
- StopwatchUtils - Class in ch.epfl.bbp.uima.utils
-
- StopwatchUtils() - Constructor for class ch.epfl.bbp.uima.utils.StopwatchUtils
-
- StopwordFilterAnnotator - Class in ch.epfl.bbp.uima.filter
-
- StopwordFilterAnnotator() - Constructor for class ch.epfl.bbp.uima.filter.StopwordFilterAnnotator
-
- storeFile(File, File) - Static method in class ch.epfl.bbp.uima.utils.StructuredDirectory
-
- StructuredDirectory - Class in ch.epfl.bbp.uima.utils
-
Util to get and create paths for storing millions of files in an organized,
structured folder structure.
- StructuredDirectory() - Constructor for class ch.epfl.bbp.uima.utils.StructuredDirectory
-
- STYLE_MAP - Static variable in class ch.epfl.bbp.uima.annotationviewer.BlueAnnotationViewerAnnotator
-
- SysoutDumper - Class in ch.epfl.bbp.uima.ae.output
-
Dumps document text to sysout
- SysoutDumper() - Constructor for class ch.epfl.bbp.uima.ae.output.SysoutDumper
-