Textractor API textractor-738 (20110316124242)
A B C D E F G H I J K L M N O P Q R S T U V W X Y Z _

A

AAMC - Static variable in class textractor.xml.pubmed.xml.types.OtherAbstractTypeType
The instance of the AAMC type
AAMC - Static variable in class textractor.xml.pubmedabstracts.xml.types.OtherAbstractTypeType
The instance of the AAMC type
AAMC_TYPE - Static variable in class textractor.xml.pubmed.xml.types.OtherAbstractTypeType
The AAMC type
AAMC_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.OtherAbstractTypeType
The AAMC type
Abbreviation - Class in textractor.abbreviation
Finds possible abbreviations when given a long form search term, and returns a result ranked by relevance.
Abbreviation(DocumentIndexManager) - Constructor for class textractor.abbreviation.Abbreviation
Constructor for Abbreviation searcher.
Abbreviation(DocumentIndexManager, DocumentStoreReader) - Constructor for class textractor.abbreviation.Abbreviation
Constructore for Abbreviation searcher.
ABBREVIATION - Static variable in class textractor.xml.uniprot.xml.types.OrganismNameTypeTypeType
The instance of the abbreviation type
ABBREVIATION_TYPE - Static variable in class textractor.xml.uniprot.xml.types.OrganismNameTypeTypeType
The abbreviation type
AbnerSentenceTransformer - Class in textractor.chain.transformer
A SentenceTransformer which will replace sentence named entities text and positions with their more generic type names (i.e., protein, dna, etc.)
AbnerSentenceTransformer() - Constructor for class textractor.chain.transformer.AbnerSentenceTransformer
Create a new SentenceTransformer that that replaces named entities in a sentence.
abortTxn() - Method in class textractor.database.DbManager
Abort a transaction.
abortTxn() - Method in interface textractor.database.TransactionManager
Abort a transaction.
Absorption - Class in textractor.xml.uniprot.xml
Class Absorption.
Absorption() - Constructor for class textractor.xml.uniprot.xml.Absorption
 
AbsorptionDescriptor - Class in textractor.xml.uniprot.xml
Class AbsorptionDescriptor.
AbsorptionDescriptor() - Constructor for class textractor.xml.uniprot.xml.AbsorptionDescriptor
 
Abstract - Class in textractor.xml.pubmed.xml
Class Abstract.
Abstract() - Constructor for class textractor.xml.pubmed.xml.Abstract
 
Abstract - Class in textractor.xml.pubmedabstracts.xml
Class Abstract.
Abstract() - Constructor for class textractor.xml.pubmedabstracts.xml.Abstract
 
Abstract - Class in textractor.xml.yapex.xml
Class Abstract.
Abstract() - Constructor for class textractor.xml.yapex.xml.Abstract
 
ABSTRACT_SECTION - Static variable in class textractor.datamodel.TextractorDocument
 
AbstractDescriptor - Class in textractor.xml.pubmed.xml
Class AbstractDescriptor.
AbstractDescriptor() - Constructor for class textractor.xml.pubmed.xml.AbstractDescriptor
 
AbstractDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AbstractDescriptor.
AbstractDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AbstractDescriptor
 
AbstractDescriptor - Class in textractor.xml.yapex.xml
Class AbstractDescriptor.
AbstractDescriptor() - Constructor for class textractor.xml.yapex.xml.AbstractDescriptor
 
AbstractFileLoader - Class in textractor.chain.loader
Abstract base class that can be used to load articles from files and process them into sentences that can be then further processed, indexed or stored into a database via an appropriate SentenceConsumer or SentenceProcessor.
AbstractFileLoader() - Constructor for class textractor.chain.loader.AbstractFileLoader
Create a new SentenceProducer that loads sentences from files.
AbstractHtml2Text - Class in textractor.html
Converts HTML to Text.
AbstractHtml2Text(String[]) - Constructor for class textractor.html.AbstractHtml2Text
 
AbstractLookupProteinname - Class in textractor.tools.lookup
Provides basic functionality for looking up protein names.
AbstractLookupProteinname() - Constructor for class textractor.tools.lookup.AbstractLookupProteinname
 
AbstractLookupProteinname(String[]) - Constructor for class textractor.tools.lookup.AbstractLookupProteinname
 
Abstracts - Class in textractor.xml.yapex.xml
Class Abstracts.
Abstracts() - Constructor for class textractor.xml.yapex.xml.Abstracts
 
AbstractsDescriptor - Class in textractor.xml.yapex.xml
Class AbstractsDescriptor.
AbstractsDescriptor() - Constructor for class textractor.xml.yapex.xml.AbstractsDescriptor
 
AbstractSentenceConsumer - Class in textractor.chain
Command implementation that executes a SentenceConsumer.
AbstractSentenceConsumer() - Constructor for class textractor.chain.AbstractSentenceConsumer
Create a new Command to consume sentences.
AbstractSentenceProcessor - Class in textractor.sentence
Convenience base class for SentenceProcessor implementations.
AbstractSentenceProcessor() - Constructor for class textractor.sentence.AbstractSentenceProcessor
Create a new SentenceProcessor.
AbstractSentenceProducer - Class in textractor.chain
Base class for Chain implementations that contain one or more SentenceProcessor commands.
AbstractSentenceProducer() - Constructor for class textractor.chain.AbstractSentenceProducer
Create a new Chain.
AbstractSentenceProducer(Command) - Constructor for class textractor.chain.AbstractSentenceProducer
Construct a Chain configured with the specified Command.
AbstractSentenceProducer(Command[]) - Constructor for class textractor.chain.AbstractSentenceProducer
Construct a Chain configured with the specified Commands.
AbstractSentenceProducer(Collection<Command>) - Constructor for class textractor.chain.AbstractSentenceProducer
Construct a Chain configured with the specified Commands.
AbstractSentenceTransformer - Class in textractor.chain
Base class for Chain implementations that contain one or more SentenceProcessor commands.
AbstractSentenceTransformer() - Constructor for class textractor.chain.AbstractSentenceTransformer
Create a new Chain.
AbstractSentenceTransformer(Command) - Constructor for class textractor.chain.AbstractSentenceTransformer
Construct a Chain configured with the specified Command.
AbstractSentenceTransformer(Command[]) - Constructor for class textractor.chain.AbstractSentenceTransformer
Construct a Chain configured with the specified Commands.
AbstractSentenceTransformer(Collection<Command>) - Constructor for class textractor.chain.AbstractSentenceTransformer
Construct a Chain configured with the specified Commands.
AbstractText - Class in textractor.xml.pubmed.xml
Class AbstractText.
AbstractText() - Constructor for class textractor.xml.pubmed.xml.AbstractText
 
AbstractText - Class in textractor.xml.pubmedabstracts.xml
Class AbstractText.
AbstractText() - Constructor for class textractor.xml.pubmedabstracts.xml.AbstractText
 
AbstractTextDescriptor - Class in textractor.xml.pubmed.xml
Class AbstractTextDescriptor.
AbstractTextDescriptor() - Constructor for class textractor.xml.pubmed.xml.AbstractTextDescriptor
 
AbstractTextDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AbstractTextDescriptor.
AbstractTextDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AbstractTextDescriptor
 
AbstractTextItem - Class in textractor.xml.pubmed.xml
Class AbstractTextItem.
AbstractTextItem() - Constructor for class textractor.xml.pubmed.xml.AbstractTextItem
 
AbstractTextItem - Class in textractor.xml.pubmedabstracts.xml
Class AbstractTextItem.
AbstractTextItem() - Constructor for class textractor.xml.pubmedabstracts.xml.AbstractTextItem
 
AbstractTextItemDescriptor - Class in textractor.xml.pubmed.xml
Class AbstractTextItemDescriptor.
AbstractTextItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.AbstractTextItemDescriptor
 
AbstractTextItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AbstractTextItemDescriptor.
AbstractTextItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AbstractTextItemDescriptor
 
AbstractTextractorDocumentFactory - Class in textractor.mg4j.document
A factory that can produce MG4J documents from Textractor sentences.
AbstractTextractorDocumentFactory() - Constructor for class textractor.mg4j.document.AbstractTextractorDocumentFactory
Construct a new DocumentFactory.
AbstractTextractorDocumentFactory(Reference2ObjectMap<Enum<?>, Object>) - Constructor for class textractor.mg4j.document.AbstractTextractorDocumentFactory
Construct a new DocumentFactory.
AbstractTextractorDocumentFactory(Properties) - Constructor for class textractor.mg4j.document.AbstractTextractorDocumentFactory
Construct a new DocumentFactory.
AbstractTextractorDocumentFactory(String[]) - Constructor for class textractor.mg4j.document.AbstractTextractorDocumentFactory
Construct a new DocumentFactory.
AbstractTextractorDocumentFactory.MetadataKeys - Enum in textractor.mg4j.document
Case-insensitive keys for metadata passed to DocumentFactory.getDocument(java.io.InputStream, it.unimi.dsi.fastutil.objects.Reference2ObjectMap).
AbstractTextractorDocumentIterator - Class in textractor.mg4j.document
An iterator over textractor documents.
AbstractTextractorDocumentIterator(DocumentFactory, SentenceFilter) - Constructor for class textractor.mg4j.document.AbstractTextractorDocumentIterator
 
accept(DocumentIteratorVisitor) - Method in class textractor.tools.QueryResultDocumentIterator
 
accept(String) - Method in class textractor.util.ProcessDirectory
 
ACCEPTED - Static variable in class textractor.xml.pubmedabstracts.xml.types.PubMedPubDatePubStatusType
The instance of the accepted type
ACCEPTED_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.PubMedPubDatePubStatusType
The accepted type
acceptOnTruePaths(DocumentIteratorVisitor) - Method in class textractor.tools.QueryResultDocumentIterator
 
AccessionNumber - Class in textractor.xml.pubmed.xml
Class AccessionNumber.
AccessionNumber() - Constructor for class textractor.xml.pubmed.xml.AccessionNumber
 
AccessionNumber - Class in textractor.xml.pubmedabstracts.xml
Class AccessionNumber.
AccessionNumber() - Constructor for class textractor.xml.pubmedabstracts.xml.AccessionNumber
 
AccessionNumberDescriptor - Class in textractor.xml.pubmed.xml
Class AccessionNumberDescriptor.
AccessionNumberDescriptor() - Constructor for class textractor.xml.pubmed.xml.AccessionNumberDescriptor
 
AccessionNumberDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AccessionNumberDescriptor.
AccessionNumberDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AccessionNumberDescriptor
 
AccessionNumberItem - Class in textractor.xml.pubmed.xml
Class AccessionNumberItem.
AccessionNumberItem() - Constructor for class textractor.xml.pubmed.xml.AccessionNumberItem
 
AccessionNumberItem - Class in textractor.xml.pubmedabstracts.xml
Class AccessionNumberItem.
AccessionNumberItem() - Constructor for class textractor.xml.pubmedabstracts.xml.AccessionNumberItem
 
AccessionNumberItemDescriptor - Class in textractor.xml.pubmed.xml
Class AccessionNumberItemDescriptor.
AccessionNumberItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.AccessionNumberItemDescriptor
 
AccessionNumberItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AccessionNumberItemDescriptor.
AccessionNumberItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AccessionNumberItemDescriptor
 
AccessionNumberList - Class in textractor.xml.pubmed.xml
Class AccessionNumberList.
AccessionNumberList() - Constructor for class textractor.xml.pubmed.xml.AccessionNumberList
 
AccessionNumberList - Class in textractor.xml.pubmedabstracts.xml
Class AccessionNumberList.
AccessionNumberList() - Constructor for class textractor.xml.pubmedabstracts.xml.AccessionNumberList
 
AccessionNumberListDescriptor - Class in textractor.xml.pubmed.xml
Class AccessionNumberListDescriptor.
AccessionNumberListDescriptor() - Constructor for class textractor.xml.pubmed.xml.AccessionNumberListDescriptor
 
AccessionNumberListDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AccessionNumberListDescriptor.
AccessionNumberListDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AccessionNumberListDescriptor
 
accumulate(String) - Static method in class textractor.util.ParseOutput
 
Acronym - Class in textractor.acronyms.xml
Class Acronym.
Acronym() - Constructor for class textractor.acronyms.xml.Acronym
 
Acronym - Class in textractor.xml.pubmed.xml
Class Acronym.
Acronym() - Constructor for class textractor.xml.pubmed.xml.Acronym
 
Acronym - Class in textractor.xml.pubmedabstracts.xml
Class Acronym.
Acronym() - Constructor for class textractor.xml.pubmedabstracts.xml.Acronym
 
AcronymDescriptor - Class in textractor.acronyms.xml
Class AcronymDescriptor.
AcronymDescriptor() - Constructor for class textractor.acronyms.xml.AcronymDescriptor
 
AcronymDescriptor - Class in textractor.xml.pubmed.xml
Class AcronymDescriptor.
AcronymDescriptor() - Constructor for class textractor.xml.pubmed.xml.AcronymDescriptor
 
AcronymDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AcronymDescriptor.
AcronymDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AcronymDescriptor
 
AcronymItem - Class in textractor.xml.pubmed.xml
Class AcronymItem.
AcronymItem() - Constructor for class textractor.xml.pubmed.xml.AcronymItem
 
AcronymItem - Class in textractor.xml.pubmedabstracts.xml
Class AcronymItem.
AcronymItem() - Constructor for class textractor.xml.pubmedabstracts.xml.AcronymItem
 
AcronymItemDescriptor - Class in textractor.xml.pubmed.xml
Class AcronymItemDescriptor.
AcronymItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.AcronymItemDescriptor
 
AcronymItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AcronymItemDescriptor.
AcronymItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AcronymItemDescriptor
 
Acronyms - Class in textractor.acronyms.xml
List of acronym/expansion pairs
Acronyms() - Constructor for class textractor.acronyms.xml.Acronyms
 
AcronymsDescriptor - Class in textractor.acronyms.xml
Class AcronymsDescriptor.
AcronymsDescriptor() - Constructor for class textractor.acronyms.xml.AcronymsDescriptor
 
AcronymsItem - Class in textractor.acronyms.xml
Class AcronymsItem.
AcronymsItem() - Constructor for class textractor.acronyms.xml.AcronymsItem
 
AcronymsItemDescriptor - Class in textractor.acronyms.xml
Class AcronymsItemDescriptor.
AcronymsItemDescriptor() - Constructor for class textractor.acronyms.xml.AcronymsItemDescriptor
 
ACTIVE_SITE - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The instance of the active site type
ACTIVE_SITE_TYPE - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The active site type
add(String) - Method in class textractor.tools.expansion.CandidateExpansion
 
add_abstract(Abstract) - Method in class textractor.xml.yapex.xml.Abstracts
Method add_abstract
add_abstract(int, Abstract) - Method in class textractor.xml.yapex.xml.Abstracts
Method add_abstract
add_escapes(String) - Method in exception textractor.parsers.extractor.ParseException
Used to convert raw characters to their escaped version when these raw version cannot be used as part of an ASCII string literal.
addAbstractTextItem(AbstractTextItem) - Method in class textractor.xml.pubmed.xml.AbstractText
 
addAbstractTextItem(int, AbstractTextItem) - Method in class textractor.xml.pubmed.xml.AbstractText
 
addAbstractTextItem(AbstractTextItem) - Method in class textractor.xml.pubmedabstracts.xml.AbstractText
 
addAbstractTextItem(int, AbstractTextItem) - Method in class textractor.xml.pubmedabstracts.xml.AbstractText
 
addAccession(String) - Method in class textractor.xml.uniprot.xml.EntryType
 
addAccession(int, String) - Method in class textractor.xml.uniprot.xml.EntryType
 
addAccessionNumber(AccessionNumber) - Method in class textractor.xml.pubmed.xml.AccessionNumberList
 
addAccessionNumber(int, AccessionNumber) - Method in class textractor.xml.pubmed.xml.AccessionNumberList
 
addAccessionNumber(AccessionNumber) - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumberList
 
addAccessionNumber(int, AccessionNumber) - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumberList
 
addAccessionNumberItem(AccessionNumberItem) - Method in class textractor.xml.pubmed.xml.AccessionNumber
 
addAccessionNumberItem(int, AccessionNumberItem) - Method in class textractor.xml.pubmed.xml.AccessionNumber
 
addAccessionNumberItem(AccessionNumberItem) - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumber
 
addAccessionNumberItem(int, AccessionNumberItem) - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumber
 
addAcronymItem(AcronymItem) - Method in class textractor.xml.pubmed.xml.Acronym
 
addAcronymItem(int, AcronymItem) - Method in class textractor.xml.pubmed.xml.Acronym
 
addAcronymItem(AcronymItem) - Method in class textractor.xml.pubmedabstracts.xml.Acronym
 
addAcronymItem(int, AcronymItem) - Method in class textractor.xml.pubmedabstracts.xml.Acronym
 
addAcronymsItem(AcronymsItem) - Method in class textractor.acronyms.xml.Acronyms
 
addAcronymsItem(int, AcronymsItem) - Method in class textractor.acronyms.xml.Acronyms
 
addAffiliationItem(AffiliationItem) - Method in class textractor.xml.pubmed.xml.Affiliation
 
addAffiliationItem(int, AffiliationItem) - Method in class textractor.xml.pubmed.xml.Affiliation
 
addAffiliationItem(AffiliationItem) - Method in class textractor.xml.pubmedabstracts.xml.Affiliation
 
addAffiliationItem(int, AffiliationItem) - Method in class textractor.xml.pubmedabstracts.xml.Affiliation
 
addAgencyItem(AgencyItem) - Method in class textractor.xml.pubmed.xml.Agency
 
addAgencyItem(int, AgencyItem) - Method in class textractor.xml.pubmed.xml.Agency
 
addAgencyItem(AgencyItem) - Method in class textractor.xml.pubmedabstracts.xml.Agency
 
addAgencyItem(int, AgencyItem) - Method in class textractor.xml.pubmedabstracts.xml.Agency
 
addAll(CandidateExpansion) - Method in class textractor.tools.expansion.CandidateExpansion
 
addArticleDate(ArticleDate) - Method in class textractor.xml.pubmed.xml.Article
 
addArticleDate(int, ArticleDate) - Method in class textractor.xml.pubmed.xml.Article
 
addArticleDate(ArticleDate) - Method in class textractor.xml.pubmedabstracts.xml.Article
 
addArticleDate(int, ArticleDate) - Method in class textractor.xml.pubmedabstracts.xml.Article
 
addArticleId(ArticleId) - Method in class textractor.xml.pubmedabstracts.xml.ArticleIdList
 
addArticleId(int, ArticleId) - Method in class textractor.xml.pubmedabstracts.xml.ArticleIdList
 
addArticleIdItem(ArticleIdItem) - Method in class textractor.xml.pubmedabstracts.xml.ArticleId
 
addArticleIdItem(int, ArticleIdItem) - Method in class textractor.xml.pubmedabstracts.xml.ArticleId
 
addArticleTitleItem(ArticleTitleItem) - Method in class textractor.xml.pubmed.xml.ArticleTitle
 
addArticleTitleItem(int, ArticleTitleItem) - Method in class textractor.xml.pubmed.xml.ArticleTitle
 
addArticleTitleItem(ArticleTitleItem) - Method in class textractor.xml.pubmedabstracts.xml.ArticleTitle
 
addArticleTitleItem(int, ArticleTitleItem) - Method in class textractor.xml.pubmedabstracts.xml.ArticleTitle
 
addAuthor(Author) - Method in class textractor.xml.pubmed.xml.AuthorList
 
addAuthor(int, Author) - Method in class textractor.xml.pubmed.xml.AuthorList
 
addAuthor(Author) - Method in class textractor.xml.pubmedabstracts.xml.AuthorList
 
addAuthor(int, Author) - Method in class textractor.xml.pubmedabstracts.xml.AuthorList
 
addBroadJournalHeading(BroadJournalHeading) - Method in class textractor.xml.pubmed.xml.BroadJournalHeadingList
 
addBroadJournalHeading(int, BroadJournalHeading) - Method in class textractor.xml.pubmed.xml.BroadJournalHeadingList
 
addBroadJournalHeading(BroadJournalHeading) - Method in class textractor.xml.pubmedabstracts.xml.BroadJournalHeadingList
 
addBroadJournalHeading(int, BroadJournalHeading) - Method in class textractor.xml.pubmedabstracts.xml.BroadJournalHeadingList
 
addBroadJournalHeadingItem(BroadJournalHeadingItem) - Method in class textractor.xml.pubmed.xml.BroadJournalHeading
 
addBroadJournalHeadingItem(int, BroadJournalHeadingItem) - Method in class textractor.xml.pubmed.xml.BroadJournalHeading
 
addBroadJournalHeadingItem(BroadJournalHeadingItem) - Method in class textractor.xml.pubmedabstracts.xml.BroadJournalHeading
 
addBroadJournalHeadingItem(int, BroadJournalHeadingItem) - Method in class textractor.xml.pubmedabstracts.xml.BroadJournalHeading
 
addChemical(Chemical) - Method in class textractor.xml.pubmed.xml.ChemicalList
 
addChemical(int, Chemical) - Method in class textractor.xml.pubmed.xml.ChemicalList
 
addChemical(Chemical) - Method in class textractor.xml.pubmedabstracts.xml.ChemicalList
 
addChemical(int, Chemical) - Method in class textractor.xml.pubmedabstracts.xml.ChemicalList
 
addCitationSubset(CitationSubset) - Method in class textractor.xml.pubmed.xml.MedlineCitation
 
addCitationSubset(int, CitationSubset) - Method in class textractor.xml.pubmed.xml.MedlineCitation
 
addCitationSubset(CitationSubset) - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
 
addCitationSubset(int, CitationSubset) - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
 
addCitationSubsetItem(CitationSubsetItem) - Method in class textractor.xml.pubmed.xml.CitationSubset
 
addCitationSubsetItem(int, CitationSubsetItem) - Method in class textractor.xml.pubmed.xml.CitationSubset
 
addCitationSubsetItem(CitationSubsetItem) - Method in class textractor.xml.pubmedabstracts.xml.CitationSubset
 
addCitationSubsetItem(int, CitationSubsetItem) - Method in class textractor.xml.pubmedabstracts.xml.CitationSubset
 
addCodenItem(CodenItem) - Method in class textractor.xml.pubmed.xml.Coden
 
addCodenItem(int, CodenItem) - Method in class textractor.xml.pubmed.xml.Coden
 
addCodenItem(CodenItem) - Method in class textractor.xml.pubmedabstracts.xml.Coden
 
addCodenItem(int, CodenItem) - Method in class textractor.xml.pubmedabstracts.xml.Coden
 
addCollectionTitleItem(CollectionTitleItem) - Method in class textractor.xml.pubmed.xml.CollectionTitle
 
addCollectionTitleItem(int, CollectionTitleItem) - Method in class textractor.xml.pubmed.xml.CollectionTitle
 
addCollectionTitleItem(CollectionTitleItem) - Method in class textractor.xml.pubmedabstracts.xml.CollectionTitle
 
addCollectionTitleItem(int, CollectionTitleItem) - Method in class textractor.xml.pubmedabstracts.xml.CollectionTitle
 
addCollectiveNameItem(CollectiveNameItem) - Method in class textractor.xml.pubmed.xml.CollectiveName
 
addCollectiveNameItem(int, CollectiveNameItem) - Method in class textractor.xml.pubmed.xml.CollectiveName
 
addCollectiveNameItem(CollectiveNameItem) - Method in class textractor.xml.pubmedabstracts.xml.CollectiveName
 
addCollectiveNameItem(int, CollectiveNameItem) - Method in class textractor.xml.pubmedabstracts.xml.CollectiveName
 
addCommand(Command) - Method in class textractor.chain.AbstractSentenceProducer
See the Chain JavaDoc.
addCommand(Command) - Method in class textractor.chain.AbstractSentenceTransformer
See the Chain JavaDoc.
addComment(Comment) - Method in class textractor.xml.uniprot.xml.EntryType
 
addComment(int, Comment) - Method in class textractor.xml.uniprot.xml.EntryType
 
addCommentIn(CommentIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addCommentIn(int, CommentIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addCommentIn(CommentIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addCommentIn(int, CommentIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addCommentOn(CommentOn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addCommentOn(int, CommentOn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addCommentOn(CommentOn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addCommentOn(int, CommentOn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addComponent(Component) - Method in class textractor.xml.uniprot.xml.ProteinType
 
addComponent(int, Component) - Method in class textractor.xml.uniprot.xml.ProteinType
 
addCopyrightInformationItem(CopyrightInformationItem) - Method in class textractor.xml.pubmed.xml.CopyrightInformation
 
addCopyrightInformationItem(int, CopyrightInformationItem) - Method in class textractor.xml.pubmed.xml.CopyrightInformation
 
addCopyrightInformationItem(CopyrightInformationItem) - Method in class textractor.xml.pubmedabstracts.xml.CopyrightInformation
 
addCopyrightInformationItem(int, CopyrightInformationItem) - Method in class textractor.xml.pubmedabstracts.xml.CopyrightInformation
 
addCountryItem(CountryItem) - Method in class textractor.xml.pubmed.xml.Country
 
addCountryItem(int, CountryItem) - Method in class textractor.xml.pubmed.xml.Country
 
addCountryItem(CountryItem) - Method in class textractor.xml.pubmedabstracts.xml.Country
 
addCountryItem(int, CountryItem) - Method in class textractor.xml.pubmedabstracts.xml.Country
 
addCoverageItem(CoverageItem) - Method in class textractor.xml.pubmed.xml.Coverage
 
addCoverageItem(int, CoverageItem) - Method in class textractor.xml.pubmed.xml.Coverage
 
addCoverageItem(CoverageItem) - Method in class textractor.xml.pubmedabstracts.xml.Coverage
 
addCoverageItem(int, CoverageItem) - Method in class textractor.xml.pubmedabstracts.xml.Coverage
 
addDataBank(DataBank) - Method in class textractor.xml.pubmed.xml.DataBankList
 
addDataBank(int, DataBank) - Method in class textractor.xml.pubmed.xml.DataBankList
 
addDataBank(DataBank) - Method in class textractor.xml.pubmedabstracts.xml.DataBankList
 
addDataBank(int, DataBank) - Method in class textractor.xml.pubmedabstracts.xml.DataBankList
 
addDataBankNameItem(DataBankNameItem) - Method in class textractor.xml.pubmed.xml.DataBankName
 
addDataBankNameItem(int, DataBankNameItem) - Method in class textractor.xml.pubmed.xml.DataBankName
 
addDataBankNameItem(DataBankNameItem) - Method in class textractor.xml.pubmedabstracts.xml.DataBankName
 
addDataBankNameItem(int, DataBankNameItem) - Method in class textractor.xml.pubmedabstracts.xml.DataBankName
 
addDateIssued(DateIssued) - Method in class textractor.xml.pubmed.xml.PublicationInfo
 
addDateIssued(int, DateIssued) - Method in class textractor.xml.pubmed.xml.PublicationInfo
 
addDateIssued(DateIssued) - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
 
addDateIssued(int, DateIssued) - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
 
addDateIssuedItem(DateIssuedItem) - Method in class textractor.xml.pubmed.xml.DateIssued
 
addDateIssuedItem(int, DateIssuedItem) - Method in class textractor.xml.pubmed.xml.DateIssued
 
addDateIssuedItem(DateIssuedItem) - Method in class textractor.xml.pubmedabstracts.xml.DateIssued
 
addDateIssuedItem(int, DateIssuedItem) - Method in class textractor.xml.pubmedabstracts.xml.DateIssued
 
addDatesAssociatedWithNameItem(DatesAssociatedWithNameItem) - Method in class textractor.xml.pubmed.xml.DatesAssociatedWithName
 
addDatesAssociatedWithNameItem(int, DatesAssociatedWithNameItem) - Method in class textractor.xml.pubmed.xml.DatesAssociatedWithName
 
addDatesAssociatedWithNameItem(DatesAssociatedWithNameItem) - Method in class textractor.xml.pubmedabstracts.xml.DatesAssociatedWithName
 
addDatesAssociatedWithNameItem(int, DatesAssociatedWithNameItem) - Method in class textractor.xml.pubmedabstracts.xml.DatesAssociatedWithName
 
addDatesOfSerialPublication(DatesOfSerialPublication) - Method in class textractor.xml.pubmed.xml.PublicationInfo
 
addDatesOfSerialPublication(int, DatesOfSerialPublication) - Method in class textractor.xml.pubmed.xml.PublicationInfo
 
addDatesOfSerialPublication(DatesOfSerialPublication) - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
 
addDatesOfSerialPublication(int, DatesOfSerialPublication) - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
 
addDatesOfSerialPublicationItem(DatesOfSerialPublicationItem) - Method in class textractor.xml.pubmed.xml.DatesOfSerialPublication
 
addDatesOfSerialPublicationItem(int, DatesOfSerialPublicationItem) - Method in class textractor.xml.pubmed.xml.DatesOfSerialPublication
 
addDatesOfSerialPublicationItem(DatesOfSerialPublicationItem) - Method in class textractor.xml.pubmedabstracts.xml.DatesOfSerialPublication
 
addDatesOfSerialPublicationItem(int, DatesOfSerialPublicationItem) - Method in class textractor.xml.pubmedabstracts.xml.DatesOfSerialPublication
 
addDayItem(DayItem) - Method in class textractor.xml.pubmed.xml.Day
 
addDayItem(int, DayItem) - Method in class textractor.xml.pubmed.xml.Day
 
addDayItem(DayItem) - Method in class textractor.xml.pubmedabstracts.xml.Day
 
addDayItem(int, DayItem) - Method in class textractor.xml.pubmedabstracts.xml.Day
 
addDbReference(DbReference) - Method in class textractor.xml.uniprot.xml.CitationType
 
addDbReference(int, DbReference) - Method in class textractor.xml.uniprot.xml.CitationType
 
addDbReference(DbReference) - Method in class textractor.xml.uniprot.xml.EntryType
 
addDbReference(int, DbReference) - Method in class textractor.xml.uniprot.xml.EntryType
 
addDbReference(DbReference) - Method in class textractor.xml.uniprot.xml.Organism
 
addDbReference(int, DbReference) - Method in class textractor.xml.uniprot.xml.Organism
 
addDescriptorNameItem(DescriptorNameItem) - Method in class textractor.xml.pubmed.xml.DescriptorName
 
addDescriptorNameItem(int, DescriptorNameItem) - Method in class textractor.xml.pubmed.xml.DescriptorName
 
addDescriptorNameItem(DescriptorNameItem) - Method in class textractor.xml.pubmedabstracts.xml.DescriptorName
 
addDescriptorNameItem(int, DescriptorNameItem) - Method in class textractor.xml.pubmedabstracts.xml.DescriptorName
 
addDistance(double) - Method in class textractor.datamodel.TermPredictionStatistics
 
addDocumentPMID(long, long) - Method in class textractor.mg4j.docstore.DocumentStoreWriter
Add a pmid for a document number.
addDomain(Domain) - Method in class textractor.xml.uniprot.xml.ProteinType
 
addDomain(int, Domain) - Method in class textractor.xml.uniprot.xml.ProteinType
 
addEditionItem(EditionItem) - Method in class textractor.xml.pubmed.xml.Edition
 
addEditionItem(int, EditionItem) - Method in class textractor.xml.pubmed.xml.Edition
 
addEditionItem(EditionItem) - Method in class textractor.xml.pubmedabstracts.xml.Edition
 
addEditionItem(int, EditionItem) - Method in class textractor.xml.pubmedabstracts.xml.Edition
 
addEndPageItem(EndPageItem) - Method in class textractor.xml.pubmed.xml.EndPage
 
addEndPageItem(int, EndPageItem) - Method in class textractor.xml.pubmed.xml.EndPage
 
addEndPageItem(EndPageItem) - Method in class textractor.xml.pubmedabstracts.xml.EndPage
 
addEndPageItem(int, EndPageItem) - Method in class textractor.xml.pubmedabstracts.xml.EndPage
 
addEntry(Entry) - Method in class textractor.xml.uniprot.xml.Uniprot
 
addEntry(int, Entry) - Method in class textractor.xml.uniprot.xml.Uniprot
 
addErratumFor(ErratumFor) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addErratumFor(int, ErratumFor) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addErratumFor(ErratumFor) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addErratumFor(int, ErratumFor) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addErratumIn(ErratumIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addErratumIn(int, ErratumIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addErratumIn(ErratumIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addErratumIn(int, ErratumIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addEscapes(String) - Static method in error textractor.parsers.extractor.TokenMgrError
Replaces unprintable characters by their espaced (or unicode escaped) equivalents in the given string
addEvent(Event) - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence3
 
addEvent(int, Event) - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence3
 
addEvidence(Evidence) - Method in class textractor.xml.uniprot.xml.EntryType
 
addEvidence(int, Evidence) - Method in class textractor.xml.uniprot.xml.EntryType
 
addExpansionsItem(ExpansionsItem) - Method in class textractor.acronyms.xml.Expansions
 
addExpansionsItem(int, ExpansionsItem) - Method in class textractor.acronyms.xml.Expansions
 
addFeature(Feature) - Method in class textractor.xml.uniprot.xml.EntryType
 
addFeature(int, Feature) - Method in class textractor.xml.uniprot.xml.EntryType
 
addFirstNameItem(FirstNameItem) - Method in class textractor.xml.pubmed.xml.FirstName
 
addFirstNameItem(int, FirstNameItem) - Method in class textractor.xml.pubmed.xml.FirstName
 
addFirstNameItem(FirstNameItem) - Method in class textractor.xml.pubmedabstracts.xml.FirstName
 
addFirstNameItem(int, FirstNameItem) - Method in class textractor.xml.pubmedabstracts.xml.FirstName
 
addForeNameItem(ForeNameItem) - Method in class textractor.xml.pubmed.xml.ForeName
 
addForeNameItem(int, ForeNameItem) - Method in class textractor.xml.pubmed.xml.ForeName
 
addForeNameItem(ForeNameItem) - Method in class textractor.xml.pubmedabstracts.xml.ForeName
 
addForeNameItem(int, ForeNameItem) - Method in class textractor.xml.pubmedabstracts.xml.ForeName
 
addFrequency(Frequency) - Method in class textractor.xml.pubmed.xml.PublicationInfo
 
addFrequency(int, Frequency) - Method in class textractor.xml.pubmed.xml.PublicationInfo
 
addFrequency(Frequency) - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
 
addFrequency(int, Frequency) - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
 
addFrequencyItem(FrequencyItem) - Method in class textractor.xml.pubmed.xml.Frequency
 
addFrequencyItem(int, FrequencyItem) - Method in class textractor.xml.pubmed.xml.Frequency
 
addFrequencyItem(FrequencyItem) - Method in class textractor.xml.pubmedabstracts.xml.Frequency
 
addFrequencyItem(int, FrequencyItem) - Method in class textractor.xml.pubmedabstracts.xml.Frequency
 
addGene(Gene) - Method in class textractor.xml.uniprot.xml.EntryType
 
addGene(int, Gene) - Method in class textractor.xml.uniprot.xml.EntryType
 
addGeneLocation(GeneLocation) - Method in class textractor.xml.uniprot.xml.EntryType
 
addGeneLocation(int, GeneLocation) - Method in class textractor.xml.uniprot.xml.EntryType
 
addGeneralNote(GeneralNote) - Method in class textractor.xml.pubmed.xml.MedlineCitation
 
addGeneralNote(int, GeneralNote) - Method in class textractor.xml.pubmed.xml.MedlineCitation
 
addGeneralNote(GeneralNote) - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
 
addGeneralNote(int, GeneralNote) - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
 
addGeneralNoteItem(GeneralNoteItem) - Method in class textractor.xml.pubmed.xml.GeneralNote
 
addGeneralNoteItem(int, GeneralNoteItem) - Method in class textractor.xml.pubmed.xml.GeneralNote
 
addGeneralNoteItem(GeneralNoteItem) - Method in class textractor.xml.pubmedabstracts.xml.GeneralNote
 
addGeneralNoteItem(int, GeneralNoteItem) - Method in class textractor.xml.pubmedabstracts.xml.GeneralNote
 
addGeneSymbol(GeneSymbol) - Method in class textractor.xml.pubmed.xml.GeneSymbolList
 
addGeneSymbol(int, GeneSymbol) - Method in class textractor.xml.pubmed.xml.GeneSymbolList
 
addGeneSymbol(GeneSymbol) - Method in class textractor.xml.pubmedabstracts.xml.GeneSymbolList
 
addGeneSymbol(int, GeneSymbol) - Method in class textractor.xml.pubmedabstracts.xml.GeneSymbolList
 
addGeneSymbolItem(GeneSymbolItem) - Method in class textractor.xml.pubmed.xml.GeneSymbol
 
addGeneSymbolItem(int, GeneSymbolItem) - Method in class textractor.xml.pubmed.xml.GeneSymbol
 
addGeneSymbolItem(GeneSymbolItem) - Method in class textractor.xml.pubmedabstracts.xml.GeneSymbol
 
addGeneSymbolItem(int, GeneSymbolItem) - Method in class textractor.xml.pubmedabstracts.xml.GeneSymbol
 
addGrant(Grant) - Method in class textractor.xml.pubmed.xml.GrantList
 
addGrant(int, Grant) - Method in class textractor.xml.pubmed.xml.GrantList
 
addGrant(Grant) - Method in class textractor.xml.pubmedabstracts.xml.GrantList
 
addGrant(int, Grant) - Method in class textractor.xml.pubmedabstracts.xml.GrantList
 
addGrantIDItem(GrantIDItem) - Method in class textractor.xml.pubmed.xml.GrantID
 
addGrantIDItem(int, GrantIDItem) - Method in class textractor.xml.pubmed.xml.GrantID
 
addGrantIDItem(GrantIDItem) - Method in class textractor.xml.pubmedabstracts.xml.GrantID
 
addGrantIDItem(int, GrantIDItem) - Method in class textractor.xml.pubmedabstracts.xml.GrantID
 
addHistory(History) - Method in class textractor.xml.pubmedabstracts.xml.PubmedData
 
addHistory(int, History) - Method in class textractor.xml.pubmedabstracts.xml.PubmedData
 
addHourItem(HourItem) - Method in class textractor.xml.pubmed.xml.Hour
 
addHourItem(int, HourItem) - Method in class textractor.xml.pubmed.xml.Hour
 
addHourItem(HourItem) - Method in class textractor.xml.pubmedabstracts.xml.Hour
 
addHourItem(int, HourItem) - Method in class textractor.xml.pubmedabstracts.xml.Hour
 
addId(String) - Method in class textractor.xml.uniprot.xml.IsoformType
 
addId(int, String) - Method in class textractor.xml.uniprot.xml.IsoformType
 
addImprint(Imprint) - Method in class textractor.xml.pubmed.xml.PublicationInfo
 
addImprint(int, Imprint) - Method in class textractor.xml.pubmed.xml.PublicationInfo
 
addImprint(Imprint) - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
 
addImprint(int, Imprint) - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
 
addImprintItem(ImprintItem) - Method in class textractor.xml.pubmed.xml.Imprint
 
addImprintItem(int, ImprintItem) - Method in class textractor.xml.pubmed.xml.Imprint
 
addImprintItem(ImprintItem) - Method in class textractor.xml.pubmedabstracts.xml.Imprint
 
addImprintItem(int, ImprintItem) - Method in class textractor.xml.pubmedabstracts.xml.Imprint
 
addInitialsItem(InitialsItem) - Method in class textractor.xml.pubmed.xml.Initials
 
addInitialsItem(int, InitialsItem) - Method in class textractor.xml.pubmed.xml.Initials
 
addInitialsItem(InitialsItem) - Method in class textractor.xml.pubmedabstracts.xml.Initials
 
addInitialsItem(int, InitialsItem) - Method in class textractor.xml.pubmedabstracts.xml.Initials
 
addInteractant(Interactant) - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence4
 
addInteractant(int, Interactant) - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence4
 
addInterval(int, Interval) - Method in class textractor.tools.DocumentQueryResult
 
addInvestigator(Investigator) - Method in class textractor.xml.pubmed.xml.InvestigatorList
 
addInvestigator(int, Investigator) - Method in class textractor.xml.pubmed.xml.InvestigatorList
 
addInvestigator(Investigator) - Method in class textractor.xml.pubmedabstracts.xml.InvestigatorList
 
addInvestigator(int, Investigator) - Method in class textractor.xml.pubmedabstracts.xml.InvestigatorList
 
addISOAbbreviationItem(ISOAbbreviationItem) - Method in class textractor.xml.pubmed.xml.ISOAbbreviation
 
addISOAbbreviationItem(int, ISOAbbreviationItem) - Method in class textractor.xml.pubmed.xml.ISOAbbreviation
 
addISOAbbreviationItem(ISOAbbreviationItem) - Method in class textractor.xml.pubmedabstracts.xml.ISOAbbreviation
 
addISOAbbreviationItem(int, ISOAbbreviationItem) - Method in class textractor.xml.pubmedabstracts.xml.ISOAbbreviation
 
addIsoform(Isoform) - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence3
 
addIsoform(int, Isoform) - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence3
 
addISSNItem(ISSNItem) - Method in class textractor.xml.pubmed.xml.ISSN
 
addISSNItem(int, ISSNItem) - Method in class textractor.xml.pubmed.xml.ISSN
 
addISSNItem(ISSNItem) - Method in class textractor.xml.pubmedabstracts.xml.ISSN
 
addISSNItem(int, ISSNItem) - Method in class textractor.xml.pubmedabstracts.xml.ISSN
 
addIssueItem(IssueItem) - Method in class textractor.xml.pubmed.xml.Issue
 
addIssueItem(int, IssueItem) - Method in class textractor.xml.pubmed.xml.Issue
 
addIssueItem(IssueItem) - Method in class textractor.xml.pubmedabstracts.xml.Issue
 
addIssueItem(int, IssueItem) - Method in class textractor.xml.pubmedabstracts.xml.Issue
 
addKeyword(Keyword) - Method in class textractor.xml.pubmed.xml.KeywordList
 
addKeyword(int, Keyword) - Method in class textractor.xml.pubmed.xml.KeywordList
 
addKeyword(Keyword) - Method in class textractor.xml.pubmedabstracts.xml.KeywordList
 
addKeyword(int, Keyword) - Method in class textractor.xml.pubmedabstracts.xml.KeywordList
 
addKeyword(Keyword) - Method in class textractor.xml.uniprot.xml.EntryType
 
addKeyword(int, Keyword) - Method in class textractor.xml.uniprot.xml.EntryType
 
addKeywordItem(KeywordItem) - Method in class textractor.xml.pubmed.xml.Keyword
 
addKeywordItem(int, KeywordItem) - Method in class textractor.xml.pubmed.xml.Keyword
 
addKeywordItem(KeywordItem) - Method in class textractor.xml.pubmedabstracts.xml.Keyword
 
addKeywordItem(int, KeywordItem) - Method in class textractor.xml.pubmedabstracts.xml.Keyword
 
addKeywordList(KeywordList) - Method in class textractor.xml.pubmed.xml.MedlineCitation
 
addKeywordList(int, KeywordList) - Method in class textractor.xml.pubmed.xml.MedlineCitation
 
addKeywordList(KeywordList) - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
 
addKeywordList(int, KeywordList) - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
 
addKM(String) - Method in class textractor.xml.uniprot.xml.Kinetics
 
addKM(int, String) - Method in class textractor.xml.uniprot.xml.Kinetics
 
addLanguage(Language) - Method in class textractor.xml.pubmed.xml.Article
 
addLanguage(int, Language) - Method in class textractor.xml.pubmed.xml.Article
 
addLanguage(Language) - Method in class textractor.xml.pubmedabstracts.xml.Article
 
addLanguage(int, Language) - Method in class textractor.xml.pubmedabstracts.xml.Article
 
addLanguageItem(LanguageItem) - Method in class textractor.xml.pubmed.xml.Language
 
addLanguageItem(int, LanguageItem) - Method in class textractor.xml.pubmed.xml.Language
 
addLanguageItem(LanguageItem) - Method in class textractor.xml.pubmedabstracts.xml.Language
 
addLanguageItem(int, LanguageItem) - Method in class textractor.xml.pubmedabstracts.xml.Language
 
addLastNameItem(LastNameItem) - Method in class textractor.xml.pubmed.xml.LastName
 
addLastNameItem(int, LastNameItem) - Method in class textractor.xml.pubmed.xml.LastName
 
addLastNameItem(LastNameItem) - Method in class textractor.xml.pubmedabstracts.xml.LastName
 
addLastNameItem(int, LastNameItem) - Method in class textractor.xml.pubmedabstracts.xml.LastName
 
addLink(Link) - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence
 
addLink(int, Link) - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence
 
addLocation(Location) - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence2
 
addLocation(int, Location) - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence2
 
addMatch(int) - Method in class textractor.tools.DocumentQueryResult
Add a match for this expansion.
addMedlineCitation(MedlineCitation) - Method in class textractor.xml.pubmed.xml.MedlineCitationSet
 
addMedlineCitation(int, MedlineCitation) - Method in class textractor.xml.pubmed.xml.MedlineCitationSet
 
addMedlineCitation(MedlineCitation) - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitationSet
 
addMedlineCitation(int, MedlineCitation) - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitationSet
 
addMedlineDateItem(MedlineDateItem) - Method in class textractor.xml.pubmed.xml.MedlineDate
 
addMedlineDateItem(int, MedlineDateItem) - Method in class textractor.xml.pubmed.xml.MedlineDate
 
addMedlineDateItem(MedlineDateItem) - Method in class textractor.xml.pubmedabstracts.xml.MedlineDate
 
addMedlineDateItem(int, MedlineDateItem) - Method in class textractor.xml.pubmedabstracts.xml.MedlineDate
 
addMedlinePgnItem(MedlinePgnItem) - Method in class textractor.xml.pubmed.xml.MedlinePgn
 
addMedlinePgnItem(int, MedlinePgnItem) - Method in class textractor.xml.pubmed.xml.MedlinePgn
 
addMedlinePgnItem(MedlinePgnItem) - Method in class textractor.xml.pubmedabstracts.xml.MedlinePgn
 
addMedlinePgnItem(int, MedlinePgnItem) - Method in class textractor.xml.pubmedabstracts.xml.MedlinePgn
 
addMedlineTAItem(MedlineTAItem) - Method in class textractor.xml.pubmed.xml.MedlineTA
 
addMedlineTAItem(int, MedlineTAItem) - Method in class textractor.xml.pubmed.xml.MedlineTA
 
addMedlineTAItem(MedlineTAItem) - Method in class textractor.xml.pubmedabstracts.xml.MedlineTA
 
addMedlineTAItem(int, MedlineTAItem) - Method in class textractor.xml.pubmedabstracts.xml.MedlineTA
 
addMeshHeading(MeshHeading) - Method in class textractor.xml.pubmed.xml.MeshHeadingList
 
addMeshHeading(int, MeshHeading) - Method in class textractor.xml.pubmed.xml.MeshHeadingList
 
addMeshHeading(MeshHeading) - Method in class textractor.xml.pubmedabstracts.xml.MeshHeadingList
 
addMeshHeading(int, MeshHeading) - Method in class textractor.xml.pubmedabstracts.xml.MeshHeadingList
 
addMiddleNameItem(MiddleNameItem) - Method in class textractor.xml.pubmed.xml.MiddleName
 
addMiddleNameItem(int, MiddleNameItem) - Method in class textractor.xml.pubmed.xml.MiddleName
 
addMiddleNameItem(MiddleNameItem) - Method in class textractor.xml.pubmedabstracts.xml.MiddleName
 
addMiddleNameItem(int, MiddleNameItem) - Method in class textractor.xml.pubmedabstracts.xml.MiddleName
 
addMinuteItem(MinuteItem) - Method in class textractor.xml.pubmed.xml.Minute
 
addMinuteItem(int, MinuteItem) - Method in class textractor.xml.pubmed.xml.Minute
 
addMinuteItem(MinuteItem) - Method in class textractor.xml.pubmedabstracts.xml.Minute
 
addMinuteItem(int, MinuteItem) - Method in class textractor.xml.pubmedabstracts.xml.Minute
 
addMonthItem(MonthItem) - Method in class textractor.xml.pubmed.xml.Month
 
addMonthItem(int, MonthItem) - Method in class textractor.xml.pubmed.xml.Month
 
addMonthItem(MonthItem) - Method in class textractor.xml.pubmedabstracts.xml.Month
 
addMonthItem(int, MonthItem) - Method in class textractor.xml.pubmedabstracts.xml.Month
 
addName(Name) - Method in class textractor.xml.uniprot.xml.Component
 
addName(int, Name) - Method in class textractor.xml.uniprot.xml.Component
 
addName(Name) - Method in class textractor.xml.uniprot.xml.Domain
 
addName(int, Name) - Method in class textractor.xml.uniprot.xml.Domain
 
addName(String) - Method in class textractor.xml.uniprot.xml.EntryType
 
addName(int, String) - Method in class textractor.xml.uniprot.xml.EntryType
 
addName(Name) - Method in class textractor.xml.uniprot.xml.Gene
 
addName(int, Name) - Method in class textractor.xml.uniprot.xml.Gene
 
addName(Name) - Method in class textractor.xml.uniprot.xml.IsoformType
 
addName(int, Name) - Method in class textractor.xml.uniprot.xml.IsoformType
 
addName(Name) - Method in class textractor.xml.uniprot.xml.Organism
 
addName(int, Name) - Method in class textractor.xml.uniprot.xml.Organism
 
addName(Name) - Method in class textractor.xml.uniprot.xml.ProteinType
 
addName(int, Name) - Method in class textractor.xml.uniprot.xml.ProteinType
 
addName(String) - Method in class textractor.xml.uniprot.xml.Strain
 
addName(int, String) - Method in class textractor.xml.uniprot.xml.Strain
 
addName(String) - Method in class textractor.xml.yapex.xml.ProteinNames
Method addName
addName(int, String) - Method in class textractor.xml.yapex.xml.ProteinNames
Method addName
addNameListTypeItem(NameListTypeItem) - Method in class textractor.xml.uniprot.xml.NameListType
 
addNameListTypeItem(int, NameListTypeItem) - Method in class textractor.xml.uniprot.xml.NameListType
 
addNameOfSubstanceItem(NameOfSubstanceItem) - Method in class textractor.xml.pubmed.xml.NameOfSubstance
 
addNameOfSubstanceItem(int, NameOfSubstanceItem) - Method in class textractor.xml.pubmed.xml.NameOfSubstance
 
addNameOfSubstanceItem(NameOfSubstanceItem) - Method in class textractor.xml.pubmedabstracts.xml.NameOfSubstance
 
addNameOfSubstanceItem(int, NameOfSubstanceItem) - Method in class textractor.xml.pubmedabstracts.xml.NameOfSubstance
 
addNameQualifierItem(NameQualifierItem) - Method in class textractor.xml.pubmed.xml.NameQualifier
 
addNameQualifierItem(int, NameQualifierItem) - Method in class textractor.xml.pubmed.xml.NameQualifier
 
addNameQualifierItem(NameQualifierItem) - Method in class textractor.xml.pubmedabstracts.xml.NameQualifier
 
addNameQualifierItem(int, NameQualifierItem) - Method in class textractor.xml.pubmedabstracts.xml.NameQualifier
 
addNlmDcmsIDItem(NlmDcmsIDItem) - Method in class textractor.xml.pubmed.xml.NlmDcmsID
 
addNlmDcmsIDItem(int, NlmDcmsIDItem) - Method in class textractor.xml.pubmed.xml.NlmDcmsID
 
addNlmDcmsIDItem(NlmDcmsIDItem) - Method in class textractor.xml.pubmedabstracts.xml.NlmDcmsID
 
addNlmDcmsIDItem(int, NlmDcmsIDItem) - Method in class textractor.xml.pubmedabstracts.xml.NlmDcmsID
 
addNlmUniqueIDItem(NlmUniqueIDItem) - Method in class textractor.xml.pubmed.xml.NlmUniqueID
 
addNlmUniqueIDItem(int, NlmUniqueIDItem) - Method in class textractor.xml.pubmed.xml.NlmUniqueID
 
addNlmUniqueIDItem(NlmUniqueIDItem) - Method in class textractor.xml.pubmedabstracts.xml.NlmUniqueID
 
addNlmUniqueIDItem(int, NlmUniqueIDItem) - Method in class textractor.xml.pubmedabstracts.xml.NlmUniqueID
 
addNoteItem(NoteItem) - Method in class textractor.xml.pubmed.xml.Note
 
addNoteItem(int, NoteItem) - Method in class textractor.xml.pubmed.xml.Note
 
addNoteItem(NoteItem) - Method in class textractor.xml.pubmedabstracts.xml.Note
 
addNoteItem(int, NoteItem) - Method in class textractor.xml.pubmedabstracts.xml.Note
 
addNumberOfReferencesItem(NumberOfReferencesItem) - Method in class textractor.xml.pubmed.xml.NumberOfReferences
 
addNumberOfReferencesItem(int, NumberOfReferencesItem) - Method in class textractor.xml.pubmed.xml.NumberOfReferences
 
addNumberOfReferencesItem(NumberOfReferencesItem) - Method in class textractor.xml.pubmedabstracts.xml.NumberOfReferences
 
addNumberOfReferencesItem(int, NumberOfReferencesItem) - Method in class textractor.xml.pubmedabstracts.xml.NumberOfReferences
 
addOrganism(Organism) - Method in class textractor.xml.uniprot.xml.EntryType
 
addOrganism(int, Organism) - Method in class textractor.xml.uniprot.xml.EntryType
 
addOriginalReportIn(OriginalReportIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addOriginalReportIn(int, OriginalReportIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addOriginalReportIn(OriginalReportIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addOriginalReportIn(int, OriginalReportIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addOtherAbstract(OtherAbstract) - Method in class textractor.xml.pubmed.xml.MedlineCitation
 
addOtherAbstract(int, OtherAbstract) - Method in class textractor.xml.pubmed.xml.MedlineCitation
 
addOtherAbstract(OtherAbstract) - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
 
addOtherAbstract(int, OtherAbstract) - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
 
addOtherID(OtherID) - Method in class textractor.xml.pubmed.xml.MedlineCitation
 
addOtherID(int, OtherID) - Method in class textractor.xml.pubmed.xml.MedlineCitation
 
addOtherID(OtherID) - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
 
addOtherID(int, OtherID) - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
 
addOtherIDItem(OtherIDItem) - Method in class textractor.xml.pubmed.xml.OtherID
 
addOtherIDItem(int, OtherIDItem) - Method in class textractor.xml.pubmed.xml.OtherID
 
addOtherIDItem(OtherIDItem) - Method in class textractor.xml.pubmedabstracts.xml.OtherID
 
addOtherIDItem(int, OtherIDItem) - Method in class textractor.xml.pubmedabstracts.xml.OtherID
 
addOtherInformationItem(OtherInformationItem) - Method in class textractor.xml.pubmed.xml.OtherInformation
 
addOtherInformationItem(int, OtherInformationItem) - Method in class textractor.xml.pubmed.xml.OtherInformation
 
addOtherInformationItem(OtherInformationItem) - Method in class textractor.xml.pubmedabstracts.xml.OtherInformation
 
addOtherInformationItem(int, OtherInformationItem) - Method in class textractor.xml.pubmedabstracts.xml.OtherInformation
 
addPersonalNameSubject(PersonalNameSubject) - Method in class textractor.xml.pubmed.xml.PersonalNameSubjectList
 
addPersonalNameSubject(int, PersonalNameSubject) - Method in class textractor.xml.pubmed.xml.PersonalNameSubjectList
 
addPersonalNameSubject(PersonalNameSubject) - Method in class textractor.xml.pubmedabstracts.xml.PersonalNameSubjectList
 
addPersonalNameSubject(int, PersonalNameSubject) - Method in class textractor.xml.pubmedabstracts.xml.PersonalNameSubjectList
 
addPlace(Place) - Method in class textractor.xml.pubmed.xml.PublicationInfo
 
addPlace(int, Place) - Method in class textractor.xml.pubmed.xml.PublicationInfo
 
addPlace(Place) - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
 
addPlace(int, Place) - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
 
addPlaceCodeItem(PlaceCodeItem) - Method in class textractor.xml.pubmed.xml.PlaceCode
 
addPlaceCodeItem(int, PlaceCodeItem) - Method in class textractor.xml.pubmed.xml.PlaceCode
 
addPlaceCodeItem(PlaceCodeItem) - Method in class textractor.xml.pubmedabstracts.xml.PlaceCode
 
addPlaceCodeItem(int, PlaceCodeItem) - Method in class textractor.xml.pubmedabstracts.xml.PlaceCode
 
addPlaceItem(PlaceItem) - Method in class textractor.xml.pubmed.xml.Place
 
addPlaceItem(int, PlaceItem) - Method in class textractor.xml.pubmed.xml.Place
 
addPlaceItem(PlaceItem) - Method in class textractor.xml.pubmedabstracts.xml.Place
 
addPlaceItem(int, PlaceItem) - Method in class textractor.xml.pubmedabstracts.xml.Place
 
addPMID(PMID) - Method in class textractor.xml.pubmed.xml.DeleteCitation
 
addPMID(int, PMID) - Method in class textractor.xml.pubmed.xml.DeleteCitation
 
addPMID(PMID) - Method in class textractor.xml.pubmedabstracts.xml.DeleteCitation
 
addPMID(int, PMID) - Method in class textractor.xml.pubmedabstracts.xml.DeleteCitation
 
addPMIDItem(PMIDItem) - Method in class textractor.xml.pubmed.xml.PMID
 
addPMIDItem(int, PMIDItem) - Method in class textractor.xml.pubmed.xml.PMID
 
addPMIDItem(PMIDItem) - Method in class textractor.xml.pubmedabstracts.xml.PMID
 
addPMIDItem(int, PMIDItem) - Method in class textractor.xml.pubmedabstracts.xml.PMID
 
addProjectedPublicationDateItem(ProjectedPublicationDateItem) - Method in class textractor.xml.pubmed.xml.ProjectedPublicationDate
 
addProjectedPublicationDateItem(int, ProjectedPublicationDateItem) - Method in class textractor.xml.pubmed.xml.ProjectedPublicationDate
 
addProjectedPublicationDateItem(ProjectedPublicationDateItem) - Method in class textractor.xml.pubmedabstracts.xml.ProjectedPublicationDate
 
addProjectedPublicationDateItem(int, ProjectedPublicationDateItem) - Method in class textractor.xml.pubmedabstracts.xml.ProjectedPublicationDate
 
addProperty(Property) - Method in class textractor.xml.uniprot.xml.DbReferenceType
 
addProperty(int, Property) - Method in class textractor.xml.uniprot.xml.DbReferenceType
 
addPublicationEndYearItem(PublicationEndYearItem) - Method in class textractor.xml.pubmed.xml.PublicationEndYear
 
addPublicationEndYearItem(int, PublicationEndYearItem) - Method in class textractor.xml.pubmed.xml.PublicationEndYear
 
addPublicationEndYearItem(PublicationEndYearItem) - Method in class textractor.xml.pubmedabstracts.xml.PublicationEndYear
 
addPublicationEndYearItem(int, PublicationEndYearItem) - Method in class textractor.xml.pubmedabstracts.xml.PublicationEndYear
 
addPublicationFirstYearItem(PublicationFirstYearItem) - Method in class textractor.xml.pubmed.xml.PublicationFirstYear
 
addPublicationFirstYearItem(int, PublicationFirstYearItem) - Method in class textractor.xml.pubmed.xml.PublicationFirstYear
 
addPublicationFirstYearItem(PublicationFirstYearItem) - Method in class textractor.xml.pubmedabstracts.xml.PublicationFirstYear
 
addPublicationFirstYearItem(int, PublicationFirstYearItem) - Method in class textractor.xml.pubmedabstracts.xml.PublicationFirstYear
 
addPublicationStatusItem(PublicationStatusItem) - Method in class textractor.xml.pubmedabstracts.xml.PublicationStatus
 
addPublicationStatusItem(int, PublicationStatusItem) - Method in class textractor.xml.pubmedabstracts.xml.PublicationStatus
 
addPublicationType(PublicationType) - Method in class textractor.xml.pubmed.xml.PublicationTypeList
 
addPublicationType(int, PublicationType) - Method in class textractor.xml.pubmed.xml.PublicationTypeList
 
addPublicationType(PublicationType) - Method in class textractor.xml.pubmedabstracts.xml.PublicationTypeList
 
addPublicationType(int, PublicationType) - Method in class textractor.xml.pubmedabstracts.xml.PublicationTypeList
 
addPublicationTypeItem(PublicationTypeItem) - Method in class textractor.xml.pubmed.xml.PublicationType
 
addPublicationTypeItem(int, PublicationTypeItem) - Method in class textractor.xml.pubmed.xml.PublicationType
 
addPublicationTypeItem(PublicationTypeItem) - Method in class textractor.xml.pubmedabstracts.xml.PublicationType
 
addPublicationTypeItem(int, PublicationTypeItem) - Method in class textractor.xml.pubmedabstracts.xml.PublicationType
 
addPublisher(Publisher) - Method in class textractor.xml.pubmed.xml.PublicationInfo
 
addPublisher(int, Publisher) - Method in class textractor.xml.pubmed.xml.PublicationInfo
 
addPublisher(Publisher) - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
 
addPublisher(int, Publisher) - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
 
addPublisherItem(PublisherItem) - Method in class textractor.xml.pubmed.xml.Publisher
 
addPublisherItem(int, PublisherItem) - Method in class textractor.xml.pubmed.xml.Publisher
 
addPublisherItem(PublisherItem) - Method in class textractor.xml.pubmedabstracts.xml.Publisher
 
addPublisherItem(int, PublisherItem) - Method in class textractor.xml.pubmedabstracts.xml.Publisher
 
addPubmedArticleSetItem(PubmedArticleSetItem) - Method in class textractor.xml.pubmedabstracts.xml.PubmedArticleSet
 
addPubmedArticleSetItem(int, PubmedArticleSetItem) - Method in class textractor.xml.pubmedabstracts.xml.PubmedArticleSet
 
addPubMedPubDate(PubMedPubDate) - Method in class textractor.xml.pubmedabstracts.xml.History
 
addPubMedPubDate(int, PubMedPubDate) - Method in class textractor.xml.pubmedabstracts.xml.History
 
addQualifierName(QualifierName) - Method in class textractor.xml.pubmed.xml.MeshHeading
 
addQualifierName(int, QualifierName) - Method in class textractor.xml.pubmed.xml.MeshHeading
 
addQualifierName(QualifierName) - Method in class textractor.xml.pubmedabstracts.xml.MeshHeading
 
addQualifierName(int, QualifierName) - Method in class textractor.xml.pubmedabstracts.xml.MeshHeading
 
addQualifierNameItem(QualifierNameItem) - Method in class textractor.xml.pubmed.xml.QualifierName
 
addQualifierNameItem(int, QualifierNameItem) - Method in class textractor.xml.pubmed.xml.QualifierName
 
addQualifierNameItem(QualifierNameItem) - Method in class textractor.xml.pubmedabstracts.xml.QualifierName
 
addQualifierNameItem(int, QualifierNameItem) - Method in class textractor.xml.pubmedabstracts.xml.QualifierName
 
addReference(Reference) - Method in class textractor.xml.uniprot.xml.EntryType
 
addReference(int, Reference) - Method in class textractor.xml.uniprot.xml.EntryType
 
addRefSourceItem(RefSourceItem) - Method in class textractor.xml.pubmed.xml.RefSource
 
addRefSourceItem(int, RefSourceItem) - Method in class textractor.xml.pubmed.xml.RefSource
 
addRefSourceItem(RefSourceItem) - Method in class textractor.xml.pubmedabstracts.xml.RefSource
 
addRefSourceItem(int, RefSourceItem) - Method in class textractor.xml.pubmedabstracts.xml.RefSource
 
addRegistryNumberItem(RegistryNumberItem) - Method in class textractor.xml.pubmed.xml.RegistryNumber
 
addRegistryNumberItem(int, RegistryNumberItem) - Method in class textractor.xml.pubmed.xml.RegistryNumber
 
addRegistryNumberItem(RegistryNumberItem) - Method in class textractor.xml.pubmedabstracts.xml.RegistryNumber
 
addRegistryNumberItem(int, RegistryNumberItem) - Method in class textractor.xml.pubmedabstracts.xml.RegistryNumber
 
addReprintIn(ReprintIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addReprintIn(int, ReprintIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addReprintIn(ReprintIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addReprintIn(int, ReprintIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addReprintOf(ReprintOf) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addReprintOf(int, ReprintOf) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addReprintOf(ReprintOf) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addReprintOf(int, ReprintOf) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addRepublishedFrom(RepublishedFrom) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addRepublishedFrom(int, RepublishedFrom) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addRepublishedFrom(RepublishedFrom) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addRepublishedFrom(int, RepublishedFrom) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addRepublishedIn(RepublishedIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addRepublishedIn(int, RepublishedIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addRepublishedIn(RepublishedIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addRepublishedIn(int, RepublishedIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addRetractionIn(RetractionIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addRetractionIn(int, RetractionIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addRetractionIn(RetractionIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addRetractionIn(int, RetractionIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addRetractionOf(RetractionOf) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addRetractionOf(int, RetractionOf) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addRetractionOf(RetractionOf) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addRetractionOf(int, RetractionOf) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addScope(String) - Method in class textractor.xml.uniprot.xml.SptrCitationGroup
 
addScope(int, String) - Method in class textractor.xml.uniprot.xml.SptrCitationGroup
 
addSeasonItem(SeasonItem) - Method in class textractor.xml.pubmed.xml.Season
 
addSeasonItem(int, SeasonItem) - Method in class textractor.xml.pubmed.xml.Season
 
addSeasonItem(SeasonItem) - Method in class textractor.xml.pubmedabstracts.xml.Season
 
addSeasonItem(int, SeasonItem) - Method in class textractor.xml.pubmedabstracts.xml.Season
 
addSecondItem(SecondItem) - Method in class textractor.xml.pubmed.xml.Second
 
addSecondItem(int, SecondItem) - Method in class textractor.xml.pubmed.xml.Second
 
addSecondItem(SecondItem) - Method in class textractor.xml.pubmedabstracts.xml.Second
 
addSecondItem(int, SecondItem) - Method in class textractor.xml.pubmedabstracts.xml.Second
 
addSentenceProcessedListener(SentenceProcessedListener) - Method in class textractor.sentence.AbstractSentenceProcessor
Add a SentenceProcessedListener to the listener list.
addSentenceProcessedListener(SentenceProcessedListener) - Method in interface textractor.sentence.SentenceProcessor
Adds an event listener to be invoked whenever a sentence is processed.
addSentenceProcessingCompleteListener(SentenceProcessingCompleteListener) - Method in class textractor.sentence.AbstractSentenceProcessor
Add a SentenceProcessingCompleteListener to the listener list.
addSentenceProcessingCompleteListener(SentenceProcessingCompleteListener) - Method in interface textractor.sentence.SentenceProcessor
Adds an event listener to be invoked when sentence processing is complete.
addSourceDataTypeItem(SourceDataTypeItem) - Method in class textractor.xml.uniprot.xml.SourceDataType
 
addSourceDataTypeItem(int, SourceDataTypeItem) - Method in class textractor.xml.uniprot.xml.SourceDataType
 
addSpaceFlightMission(SpaceFlightMission) - Method in class textractor.xml.pubmed.xml.MedlineCitation
 
addSpaceFlightMission(int, SpaceFlightMission) - Method in class textractor.xml.pubmed.xml.MedlineCitation
 
addSpaceFlightMission(SpaceFlightMission) - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
 
addSpaceFlightMission(int, SpaceFlightMission) - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
 
addSpaceFlightMissionItem(SpaceFlightMissionItem) - Method in class textractor.xml.pubmed.xml.SpaceFlightMission
 
addSpaceFlightMissionItem(int, SpaceFlightMissionItem) - Method in class textractor.xml.pubmed.xml.SpaceFlightMission
 
addSpaceFlightMissionItem(SpaceFlightMissionItem) - Method in class textractor.xml.pubmedabstracts.xml.SpaceFlightMission
 
addSpaceFlightMissionItem(int, SpaceFlightMissionItem) - Method in class textractor.xml.pubmedabstracts.xml.SpaceFlightMission
 
addStartPageItem(StartPageItem) - Method in class textractor.xml.pubmed.xml.StartPage
 
addStartPageItem(int, StartPageItem) - Method in class textractor.xml.pubmed.xml.StartPage
 
addStartPageItem(StartPageItem) - Method in class textractor.xml.pubmedabstracts.xml.StartPage
 
addStartPageItem(int, StartPageItem) - Method in class textractor.xml.pubmedabstracts.xml.StartPage
 
addSuffixItem(SuffixItem) - Method in class textractor.xml.pubmed.xml.Suffix
 
addSuffixItem(int, SuffixItem) - Method in class textractor.xml.pubmed.xml.Suffix
 
addSuffixItem(SuffixItem) - Method in class textractor.xml.pubmedabstracts.xml.Suffix
 
addSuffixItem(int, SuffixItem) - Method in class textractor.xml.pubmedabstracts.xml.Suffix
 
addSummaryForPatientsIn(SummaryForPatientsIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addSummaryForPatientsIn(int, SummaryForPatientsIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addSummaryForPatientsIn(SummaryForPatientsIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addSummaryForPatientsIn(int, SummaryForPatientsIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addSupportToWord(int, int) - Method in class textractor.tools.expansion.CandidateExpansion
 
addTaxon(String) - Method in class textractor.xml.uniprot.xml.Lineage
 
addTaxon(int, String) - Method in class textractor.xml.uniprot.xml.Lineage
 
addTerm(String) - Method in class textractor.caseInsensitive.CaseInsensitiveStore
Try to add a term to the CaseInsensitiveStore.
addTermOccurrence(TermOccurrence) - Method in class textractor.datamodel.Article
 
addTermPredictionStatistic(TermPredictionStatistics) - Method in class textractor.datamodel.Article
 
addTerms(Collection<String>) - Method in class textractor.tools.lookup.Dictionary
Add additional term list to existing dictionary.
addTitleAssociatedWithNameItem(TitleAssociatedWithNameItem) - Method in class textractor.xml.pubmed.xml.TitleAssociatedWithName
 
addTitleAssociatedWithNameItem(int, TitleAssociatedWithNameItem) - Method in class textractor.xml.pubmed.xml.TitleAssociatedWithName
 
addTitleAssociatedWithNameItem(TitleAssociatedWithNameItem) - Method in class textractor.xml.pubmedabstracts.xml.TitleAssociatedWithName
 
addTitleAssociatedWithNameItem(int, TitleAssociatedWithNameItem) - Method in class textractor.xml.pubmedabstracts.xml.TitleAssociatedWithName
 
addTitleItem(TitleItem) - Method in class textractor.xml.pubmed.xml.Title
 
addTitleItem(int, TitleItem) - Method in class textractor.xml.pubmed.xml.Title
 
addTitleItem(TitleItem) - Method in class textractor.xml.pubmedabstracts.xml.Title
 
addTitleItem(int, TitleItem) - Method in class textractor.xml.pubmedabstracts.xml.Title
 
addToTermPredictionCount(int) - Method in class textractor.datamodel.TermPredictionStatistics
 
addUpdateIn(UpdateIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addUpdateIn(int, UpdateIn) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addUpdateIn(UpdateIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addUpdateIn(int, UpdateIn) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addUpdateOf(UpdateOf) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addUpdateOf(int, UpdateOf) - Method in class textractor.xml.pubmed.xml.CommentsCorrections
 
addUpdateOf(UpdateOf) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addUpdateOf(int, UpdateOf) - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
addURLItem(URLItem) - Method in class textractor.xml.pubmedabstracts.xml.URL
 
addURLItem(int, URLItem) - Method in class textractor.xml.pubmedabstracts.xml.URL
 
addVariation(String) - Method in class textractor.xml.uniprot.xml.FeatureType
 
addVariation(int, String) - Method in class textractor.xml.uniprot.xml.FeatureType
 
addVernacularTitleItem(VernacularTitleItem) - Method in class textractor.xml.pubmed.xml.VernacularTitle
 
addVernacularTitleItem(int, VernacularTitleItem) - Method in class textractor.xml.pubmed.xml.VernacularTitle
 
addVernacularTitleItem(VernacularTitleItem) - Method in class textractor.xml.pubmedabstracts.xml.VernacularTitle
 
addVernacularTitleItem(int, VernacularTitleItem) - Method in class textractor.xml.pubmedabstracts.xml.VernacularTitle
 
addVmax(String) - Method in class textractor.xml.uniprot.xml.Kinetics
 
addVmax(int, String) - Method in class textractor.xml.uniprot.xml.Kinetics
 
addVolumeItem(VolumeItem) - Method in class textractor.xml.pubmed.xml.Volume
 
addVolumeItem(int, VolumeItem) - Method in class textractor.xml.pubmed.xml.Volume
 
addVolumeItem(VolumeItem) - Method in class textractor.xml.pubmedabstracts.xml.Volume
 
addVolumeItem(int, VolumeItem) - Method in class textractor.xml.pubmedabstracts.xml.Volume
 
addWordsToTerms(int[], int, int, int[]) - Method in class textractor.datamodel.SingleBagOfWordFeatureCreationParameters
To find out what terms are in the window and add them to the non-redundant termsInWindows.
addYearItem(YearItem) - Method in class textractor.xml.pubmed.xml.Year
 
addYearItem(int, YearItem) - Method in class textractor.xml.pubmed.xml.Year
 
addYearItem(YearItem) - Method in class textractor.xml.pubmedabstracts.xml.Year
 
addYearItem(int, YearItem) - Method in class textractor.xml.pubmedabstracts.xml.Year
 
adjust(int, float, int) - Method in class textractor.tools.expansion.CandidateExpansion
 
AF - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The instance of the AF type
AF_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The AF type
Affiliation - Class in textractor.xml.pubmed.xml
Class Affiliation.
Affiliation() - Constructor for class textractor.xml.pubmed.xml.Affiliation
 
Affiliation - Class in textractor.xml.pubmedabstracts.xml
Class Affiliation.
Affiliation() - Constructor for class textractor.xml.pubmedabstracts.xml.Affiliation
 
AffiliationDescriptor - Class in textractor.xml.pubmed.xml
Class AffiliationDescriptor.
AffiliationDescriptor() - Constructor for class textractor.xml.pubmed.xml.AffiliationDescriptor
 
AffiliationDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AffiliationDescriptor.
AffiliationDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AffiliationDescriptor
 
AffiliationItem - Class in textractor.xml.pubmed.xml
Class AffiliationItem.
AffiliationItem() - Constructor for class textractor.xml.pubmed.xml.AffiliationItem
 
AffiliationItem - Class in textractor.xml.pubmedabstracts.xml
Class AffiliationItem.
AffiliationItem() - Constructor for class textractor.xml.pubmedabstracts.xml.AffiliationItem
 
AffiliationItemDescriptor - Class in textractor.xml.pubmed.xml
Class AffiliationItemDescriptor.
AffiliationItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.AffiliationItemDescriptor
 
AffiliationItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AffiliationItemDescriptor.
AffiliationItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AffiliationItemDescriptor
 
Agency - Class in textractor.xml.pubmed.xml
Class Agency.
Agency() - Constructor for class textractor.xml.pubmed.xml.Agency
 
Agency - Class in textractor.xml.pubmedabstracts.xml
Class Agency.
Agency() - Constructor for class textractor.xml.pubmedabstracts.xml.Agency
 
AgencyDescriptor - Class in textractor.xml.pubmed.xml
Class AgencyDescriptor.
AgencyDescriptor() - Constructor for class textractor.xml.pubmed.xml.AgencyDescriptor
 
AgencyDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AgencyDescriptor.
AgencyDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AgencyDescriptor
 
AgencyItem - Class in textractor.xml.pubmed.xml
Class AgencyItem.
AgencyItem() - Constructor for class textractor.xml.pubmed.xml.AgencyItem
 
AgencyItem - Class in textractor.xml.pubmedabstracts.xml
Class AgencyItem.
AgencyItem() - Constructor for class textractor.xml.pubmedabstracts.xml.AgencyItem
 
AgencyItemDescriptor - Class in textractor.xml.pubmed.xml
Class AgencyItemDescriptor.
AgencyItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.AgencyItemDescriptor
 
AgencyItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AgencyItemDescriptor.
AgencyItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AgencyItemDescriptor
 
AHEADOFPRINT - Static variable in class textractor.xml.pubmedabstracts.xml.types.PubMedPubDatePubStatusType
The instance of the aheadofprint type
AHEADOFPRINT_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.PubMedPubDatePubStatusType
The aheadofprint type
AIDS - Static variable in class textractor.xml.pubmed.xml.types.OtherAbstractTypeType
The instance of the AIDS type
AIDS - Static variable in class textractor.xml.pubmedabstracts.xml.types.OtherAbstractTypeType
The instance of the AIDS type
AIDS_TYPE - Static variable in class textractor.xml.pubmed.xml.types.OtherAbstractTypeType
The AIDS type
AIDS_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.OtherAbstractTypeType
The AIDS type
ALLERGEN - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The instance of the allergen type
ALLERGEN_TYPE - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The allergen type
allocate(int) - Method in class textractor.database.TermDocumentPositions
Allocate storage for a given number of documents.
allocateNumDocForTerm() - Method in class textractor.tfidf.TfIdfCalculator
Return the NumDocForTerm array.
ALTERNATIVE_INITIATION - Static variable in class textractor.xml.uniprot.xml.types.EventTypeTypeType
The instance of the alternative initiation type
ALTERNATIVE_INITIATION_TYPE - Static variable in class textractor.xml.uniprot.xml.types.EventTypeTypeType
The alternative initiation type
ALTERNATIVE_PRODUCTS - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The instance of the alternative products type
ALTERNATIVE_PRODUCTS_TYPE - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The alternative products type
ALTERNATIVE_PROMOTER - Static variable in class textractor.xml.uniprot.xml.types.EventTypeTypeType
The instance of the alternative promoter type
ALTERNATIVE_PROMOTER_TYPE - Static variable in class textractor.xml.uniprot.xml.types.EventTypeTypeType
The alternative promoter type
ALTERNATIVE_SPLICING - Static variable in class textractor.xml.uniprot.xml.types.EventTypeTypeType
The instance of the alternative splicing type
ALTERNATIVE_SPLICING_TYPE - Static variable in class textractor.xml.uniprot.xml.types.EventTypeTypeType
The alternative splicing type
AmbiguityDocumentIterator - Class in textractor.mg4j.document
Document iterator for ambiguity documents.
AmbiguityDocumentIterator(DbManager, SentenceFilter, DocumentFactory, int) - Constructor for class textractor.mg4j.document.AmbiguityDocumentIterator
 
AmbiguityDocumentIterator(DbManager, DocumentFactory, int) - Constructor for class textractor.mg4j.document.AmbiguityDocumentIterator
 
AmbiguityDocumentSequence - Class in textractor.mg4j.document
Created by IntelliJ IDEA.
AmbiguityDocumentSequence(DbManager, TextractorDocumentFactory, int, SentenceFilter) - Constructor for class textractor.mg4j.document.AmbiguityDocumentSequence
 
AmbiguityDocumentSequence(DbManager, TextractorDocumentFactory, int) - Constructor for class textractor.mg4j.document.AmbiguityDocumentSequence
 
AmbiguityDocumentSequence(TextractorDocumentFactory, int) - Constructor for class textractor.mg4j.document.AmbiguityDocumentSequence
 
AnalyzeQueries - Class in textractor.tools
User: Fabien Campagne Date: Jul 30, 2005 Time: 5:02:01 PM
AnalyzeQueries() - Constructor for class textractor.tools.AnalyzeQueries
 
AND - Static variable in interface textractor.parsers.extractor.ExtractionEngineConstants
 
AnnotatedTerm - Class in textractor.datamodel.annotation
Created by IntelliJ IDEA.
AnnotatedTerm() - Constructor for class textractor.datamodel.annotation.AnnotatedTerm
 
ANNOTATION_BIND - Static variable in class textractor.datamodel.annotation.DoubleTermAnnotation
 
ANNOTATION_MULTICLASS - Static variable in class textractor.datamodel.annotation.SingleTermAnnotation
 
ANNOTATION_MUTATION - Static variable in class textractor.datamodel.annotation.SingleTermAnnotation
 
ANNOTATION_PHOSPHORYLATE - Static variable in class textractor.datamodel.annotation.DoubleTermAnnotation
 
ANNOTATION_PROTEIN - Static variable in class textractor.datamodel.annotation.SingleTermAnnotation
 
AnnotationFormatReader - Class in textractor.learning
Reads text in a format suitable for human annotation and machine parsing.
AnnotationFormatReader(TextractorManager, Reader) - Constructor for class textractor.learning.AnnotationFormatReader
Constructs an instance to write the format to the given reader.
AnnotationFormatWriter - Class in textractor.learning
Writes text in a format suitable for human annotation and machine parsing.
AnnotationFormatWriter(DocumentIndexManager, Writer, boolean) - Constructor for class textractor.learning.AnnotationFormatWriter
Constructs an instance to write the format to the given writer.
annotationLabel(AnnotationSource) - Method in class textractor.learning.BagOfWordExporter
 
annotationLabel(AnnotationSource) - Method in class textractor.learning.MultiClassBagOfWordExporter
for multiclass input into SVM Light
annotationLabel(AnnotationSource) - Method in class textractor.learning.MutationBagOfWordExporter
 
annotationLabel(AnnotationSource) - Method in class textractor.learning.PhosphorylateBagOfWordExporter
 
annotationLabel(AnnotationSource) - Method in class textractor.learning.ProteinNameBagOfWordExporter
 
AnnotationSource - Interface in textractor.datamodel.annotation
A source of annotation information.
appendDocument(int, int[]) - Method in class textractor.mg4j.docstore.DocumentStoreWriter
Append a document to this docstore at the given document number.
appendDocument(int, int[]) - Method in class textractor.mg4j.docstore.TermDocumentFrequencyWriter
 
appendDocumentString(int, String) - Method in class textractor.mg4j.docstore.StringPerDocumentWriter
Append the string to external storage.
appendPositions(List<IntRange>) - Method in class textractor.mg4j.docstore.DocumentStoreWriter
Append position information to the document store.
appendSentencesInOneDocument - Variable in class textractor.chain.loader.AbstractFileLoader
Indicates that each article should produce a single sentence with all the article text.
appendSentencesInOneDocument - Variable in class textractor.html.AbstractHtml2Text
 
appendWithoutDuplication(String, String, String) - Static method in class textractor.chain.loader.SfnArticleLoader
 
AQuery - Class in textractor.tools.ambiguity
User: Fabien Campagne Date: Jul 31, 2005 Time: 5:42:50 PM
AQuery(String[]) - Constructor for class textractor.tools.ambiguity.AQuery
 
AR - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The instance of the AR type
AR_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The AR type
args - Variable in class textractor.tools.BuildDocumentIndexFromHTMLArticles
 
ARPL - Static variable in class textractor.xml.pubmed.xml.types.OtherIDItemSourceType
The instance of the ARPL type
ARPL - Static variable in class textractor.xml.pubmedabstracts.xml.types.OtherIDItemSourceType
The instance of the ARPL type
ARPL_TYPE - Static variable in class textractor.xml.pubmed.xml.types.OtherIDItemSourceType
The ARPL type
ARPL_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.OtherIDItemSourceType
The ARPL type
article - Variable in class textractor.chain.ArticleSentencesPair
 
Article - Class in textractor.datamodel
 
Article() - Constructor for class textractor.datamodel.Article
Create a new article.
Article - Class in textractor.xml.pubmed.xml
Class Article.
Article() - Constructor for class textractor.xml.pubmed.xml.Article
 
Article - Class in textractor.xml.pubmedabstracts.xml
Class Article.
Article() - Constructor for class textractor.xml.pubmedabstracts.xml.Article
 
ArticleChoice - Class in textractor.xml.pubmed.xml
Class ArticleChoice.
ArticleChoice() - Constructor for class textractor.xml.pubmed.xml.ArticleChoice
 
ArticleChoice - Class in textractor.xml.pubmedabstracts.xml
Class ArticleChoice.
ArticleChoice() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleChoice
 
ArticleChoiceDescriptor - Class in textractor.xml.pubmed.xml
Class ArticleChoiceDescriptor.
ArticleChoiceDescriptor() - Constructor for class textractor.xml.pubmed.xml.ArticleChoiceDescriptor
 
ArticleChoiceDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ArticleChoiceDescriptor.
ArticleChoiceDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleChoiceDescriptor
 
articleChunkSize - Variable in class textractor.html.AbstractHtml2Text
 
ArticleDate - Class in textractor.xml.pubmed.xml
Class ArticleDate.
ArticleDate() - Constructor for class textractor.xml.pubmed.xml.ArticleDate
 
ArticleDate - Class in textractor.xml.pubmedabstracts.xml
Class ArticleDate.
ArticleDate() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleDate
 
ArticleDateDescriptor - Class in textractor.xml.pubmed.xml
Class ArticleDateDescriptor.
ArticleDateDescriptor() - Constructor for class textractor.xml.pubmed.xml.ArticleDateDescriptor
 
ArticleDateDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ArticleDateDescriptor.
ArticleDateDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleDateDescriptor
 
ArticleDateSequenceSequence - Class in textractor.xml.pubmed.xml
Class ArticleDateSequenceSequence.
ArticleDateSequenceSequence() - Constructor for class textractor.xml.pubmed.xml.ArticleDateSequenceSequence
 
ArticleDateSequenceSequence - Class in textractor.xml.pubmedabstracts.xml
Class ArticleDateSequenceSequence.
ArticleDateSequenceSequence() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleDateSequenceSequence
 
ArticleDateSequenceSequenceDescriptor - Class in textractor.xml.pubmed.xml
Class ArticleDateSequenceSequenceDescriptor.
ArticleDateSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmed.xml.ArticleDateSequenceSequenceDescriptor
 
ArticleDateSequenceSequenceDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ArticleDateSequenceSequenceDescriptor.
ArticleDateSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleDateSequenceSequenceDescriptor
 
ArticleDateSequenceSequenceSequence - Class in textractor.xml.pubmed.xml
Class ArticleDateSequenceSequenceSequence.
ArticleDateSequenceSequenceSequence() - Constructor for class textractor.xml.pubmed.xml.ArticleDateSequenceSequenceSequence
 
ArticleDateSequenceSequenceSequence - Class in textractor.xml.pubmedabstracts.xml
Class ArticleDateSequenceSequenceSequence.
ArticleDateSequenceSequenceSequence() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleDateSequenceSequenceSequence
 
ArticleDateSequenceSequenceSequenceDescriptor - Class in textractor.xml.pubmed.xml
Class ArticleDateSequenceSequenceSequenceDescriptor.
ArticleDateSequenceSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmed.xml.ArticleDateSequenceSequenceSequenceDescriptor
 
ArticleDateSequenceSequenceSequenceDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ArticleDateSequenceSequenceSequenceDescriptor.
ArticleDateSequenceSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleDateSequenceSequenceSequenceDescriptor
 
ArticleDescriptor - Class in textractor.xml.pubmed.xml
Class ArticleDescriptor.
ArticleDescriptor() - Constructor for class textractor.xml.pubmed.xml.ArticleDescriptor
 
ArticleDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ArticleDescriptor.
ArticleDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleDescriptor
 
ArticleId - Class in textractor.xml.pubmedabstracts.xml
Class ArticleId.
ArticleId() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleId
 
ArticleIdDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ArticleIdDescriptor.
ArticleIdDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleIdDescriptor
 
ArticleIdItem - Class in textractor.xml.pubmedabstracts.xml
Class ArticleIdItem.
ArticleIdItem() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleIdItem
 
ArticleIdItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ArticleIdItemDescriptor.
ArticleIdItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleIdItemDescriptor
 
ArticleIdItemIdTypeType - Class in textractor.xml.pubmedabstracts.xml.types
Class ArticleIdItemIdTypeType.
ArticleIdItemIdTypeTypeDescriptor - Class in textractor.xml.pubmedabstracts.xml.types
Class ArticleIdItemIdTypeTypeDescriptor.
ArticleIdItemIdTypeTypeDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.types.ArticleIdItemIdTypeTypeDescriptor
 
ArticleIdList - Class in textractor.xml.pubmedabstracts.xml
Class ArticleIdList.
ArticleIdList() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleIdList
 
ArticleIdListDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ArticleIdListDescriptor.
ArticleIdListDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleIdListDescriptor
 
ArticleInfo - Class in textractor.datamodel
 
ArticleInfo() - Constructor for class textractor.datamodel.ArticleInfo
 
articleParsed(Article, MutableString) - Method in class textractor.chain.loader.OmimArticleLoader
 
articleParsed(Article, MutableString) - Method in interface textractor.chain.loader.ParsedArticleHandler
 
ArticlePool - Class in textractor.datamodel
Created by IntelliJ IDEA.
ArticlePool() - Constructor for class textractor.datamodel.ArticlePool
 
articlePool - Variable in class textractor.tools.BuildDocumentIndexFromHTMLArticles
 
articleProcessed(ProcessingEvent<ArticleProcessor, Article>) - Method in interface textractor.event.article.ArticleProcessedListener
This method gets called when a sentence is processed.
ArticleProcessedListener - Interface in textractor.event.article
A "SentenceProcessed" event gets fired whenever a SentenceProcessor processes a Sentence.
ArticleProcessingCompleteEvent - Class in textractor.event.article
Events associated with sentence processing.
ArticleProcessingCompleteEvent(SentenceProcessor) - Constructor for class textractor.event.article.ArticleProcessingCompleteEvent
Creates a new event object.
ArticleProcessingCompleteListener - Interface in textractor.event.article
A "SentenceProcessingComplete" event gets fired whenever a SentenceProcessor has finished processing Sentences.
ArticleProcessor - Interface in textractor.article
Implementations of this class perform operations on Articles.
ArticleProducer - Interface in textractor.article
Classes that implement this interface are capable of creating new Article objects on demand.
ArticlePubModelType - Class in textractor.xml.pubmed.xml.types
Class ArticlePubModelType.
ArticlePubModelType - Class in textractor.xml.pubmedabstracts.xml.types
Class ArticlePubModelType.
ArticlePubModelTypeDescriptor - Class in textractor.xml.pubmed.xml.types
Class ArticlePubModelTypeDescriptor.
ArticlePubModelTypeDescriptor() - Constructor for class textractor.xml.pubmed.xml.types.ArticlePubModelTypeDescriptor
 
ArticlePubModelTypeDescriptor - Class in textractor.xml.pubmedabstracts.xml.types
Class ArticlePubModelTypeDescriptor.
ArticlePubModelTypeDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.types.ArticlePubModelTypeDescriptor
 
ArticleSentencesPair - Class in textractor.chain
A container used to group sentences together with the article they relate to.
ArticleSentencesPair(Article, Collection<Sentence>) - Constructor for class textractor.chain.ArticleSentencesPair
 
ArticleSingleTermAnnotationIterator - Class in textractor.datamodel.annotation
Created by IntelliJ IDEA.
ArticleSingleTermAnnotationIterator(TextractorManager, DocumentIndexManager, Article, int[]) - Constructor for class textractor.datamodel.annotation.ArticleSingleTermAnnotationIterator
Creates an iterator to iterate through annotations that would be produced from an article and a term.
ArticleSingleTermAnnotationSource - Class in textractor.datamodel.annotation
This implementation acts like an annotation without storing one persistently.
ArticleSingleTermAnnotationSource(Sentence, int[], String, int) - Constructor for class textractor.datamodel.annotation.ArticleSingleTermAnnotationSource
 
ArticleTermCount - Class in textractor.tools
This class determines the frequency of all terms in an Article, and adds the most common terms as an array of TermOccurrence to the relevant Article.
ArticleTermCount() - Constructor for class textractor.tools.ArticleTermCount
Create a new ArticleTermCount object.
ArticleTermCount(String[]) - Constructor for class textractor.tools.ArticleTermCount
 
ArticleTitle - Class in textractor.xml.pubmed.xml
Class ArticleTitle.
ArticleTitle() - Constructor for class textractor.xml.pubmed.xml.ArticleTitle
 
ArticleTitle - Class in textractor.xml.pubmedabstracts.xml
Class ArticleTitle.
ArticleTitle() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleTitle
 
ArticleTitleDescriptor - Class in textractor.xml.pubmed.xml
Class ArticleTitleDescriptor.
ArticleTitleDescriptor() - Constructor for class textractor.xml.pubmed.xml.ArticleTitleDescriptor
 
ArticleTitleDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ArticleTitleDescriptor.
ArticleTitleDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleTitleDescriptor
 
ArticleTitleItem - Class in textractor.xml.pubmed.xml
Class ArticleTitleItem.
ArticleTitleItem() - Constructor for class textractor.xml.pubmed.xml.ArticleTitleItem
 
ArticleTitleItem - Class in textractor.xml.pubmedabstracts.xml
Class ArticleTitleItem.
ArticleTitleItem() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleTitleItem
 
ArticleTitleItemDescriptor - Class in textractor.xml.pubmed.xml
Class ArticleTitleItemDescriptor.
ArticleTitleItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.ArticleTitleItemDescriptor
 
ArticleTitleItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ArticleTitleItemDescriptor.
ArticleTitleItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ArticleTitleItemDescriptor
 
AS - Static variable in interface textractor.parsers.extractor.ExtractionEngineConstants
 
asCharSequence(Object) - Static method in class textractor.chain.docstore.DocumentStoreBuilder
Of obj is a CharSequence, this will return obj casted to a CharSequence.
assureFieldType(TextractorFieldInfo, Object) - Static method in class textractor.chain.indexer.Indexer
Assure that value is appropriate for fieldInfo.type.
attributesMap - Variable in class textractor.chain.loader.XmlElement
 
Author - Class in textractor.datamodel
An author for an Article.
Author(String, String, String) - Constructor for class textractor.datamodel.Author
Constructor.
Author(String) - Constructor for class textractor.datamodel.Author
An author will full name such as "Michael J.
Author - Class in textractor.xml.pubmed.xml
Class Author.
Author() - Constructor for class textractor.xml.pubmed.xml.Author
 
Author - Class in textractor.xml.pubmedabstracts.xml
Class Author.
Author() - Constructor for class textractor.xml.pubmedabstracts.xml.Author
 
AuthorChoice - Class in textractor.xml.pubmed.xml
Class AuthorChoice.
AuthorChoice() - Constructor for class textractor.xml.pubmed.xml.AuthorChoice
 
AuthorChoice - Class in textractor.xml.pubmedabstracts.xml
Class AuthorChoice.
AuthorChoice() - Constructor for class textractor.xml.pubmedabstracts.xml.AuthorChoice
 
AuthorChoiceChoiceSequence - Class in textractor.xml.pubmed.xml
Class AuthorChoiceChoiceSequence.
AuthorChoiceChoiceSequence() - Constructor for class textractor.xml.pubmed.xml.AuthorChoiceChoiceSequence
 
AuthorChoiceChoiceSequence - Class in textractor.xml.pubmedabstracts.xml
Class AuthorChoiceChoiceSequence.
AuthorChoiceChoiceSequence() - Constructor for class textractor.xml.pubmedabstracts.xml.AuthorChoiceChoiceSequence
 
AuthorChoiceChoiceSequenceChoice - Class in textractor.xml.pubmed.xml
Class AuthorChoiceChoiceSequenceChoice.
AuthorChoiceChoiceSequenceChoice() - Constructor for class textractor.xml.pubmed.xml.AuthorChoiceChoiceSequenceChoice
 
AuthorChoiceChoiceSequenceChoice - Class in textractor.xml.pubmedabstracts.xml
Class AuthorChoiceChoiceSequenceChoice.
AuthorChoiceChoiceSequenceChoice() - Constructor for class textractor.xml.pubmedabstracts.xml.AuthorChoiceChoiceSequenceChoice
 
AuthorChoiceChoiceSequenceChoiceDescriptor - Class in textractor.xml.pubmed.xml
Class AuthorChoiceChoiceSequenceChoiceDescriptor.
AuthorChoiceChoiceSequenceChoiceDescriptor() - Constructor for class textractor.xml.pubmed.xml.AuthorChoiceChoiceSequenceChoiceDescriptor
 
AuthorChoiceChoiceSequenceChoiceDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AuthorChoiceChoiceSequenceChoiceDescriptor.
AuthorChoiceChoiceSequenceChoiceDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AuthorChoiceChoiceSequenceChoiceDescriptor
 
AuthorChoiceChoiceSequenceChoiceSequence - Class in textractor.xml.pubmed.xml
Class AuthorChoiceChoiceSequenceChoiceSequence.
AuthorChoiceChoiceSequenceChoiceSequence() - Constructor for class textractor.xml.pubmed.xml.AuthorChoiceChoiceSequenceChoiceSequence
 
AuthorChoiceChoiceSequenceChoiceSequence - Class in textractor.xml.pubmedabstracts.xml
Class AuthorChoiceChoiceSequenceChoiceSequence.
AuthorChoiceChoiceSequenceChoiceSequence() - Constructor for class textractor.xml.pubmedabstracts.xml.AuthorChoiceChoiceSequenceChoiceSequence
 
AuthorChoiceChoiceSequenceChoiceSequenceDescriptor - Class in textractor.xml.pubmed.xml
Class AuthorChoiceChoiceSequenceChoiceSequenceDescriptor.
AuthorChoiceChoiceSequenceChoiceSequenceDescriptor() - Constructor for class textractor.xml.pubmed.xml.AuthorChoiceChoiceSequenceChoiceSequenceDescriptor
 
AuthorChoiceChoiceSequenceChoiceSequenceDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AuthorChoiceChoiceSequenceChoiceSequenceDescriptor.
AuthorChoiceChoiceSequenceChoiceSequenceDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AuthorChoiceChoiceSequenceChoiceSequenceDescriptor
 
AuthorChoiceChoiceSequenceDescriptor - Class in textractor.xml.pubmed.xml
Class AuthorChoiceChoiceSequenceDescriptor.
AuthorChoiceChoiceSequenceDescriptor() - Constructor for class textractor.xml.pubmed.xml.AuthorChoiceChoiceSequenceDescriptor
 
AuthorChoiceChoiceSequenceDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AuthorChoiceChoiceSequenceDescriptor.
AuthorChoiceChoiceSequenceDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AuthorChoiceChoiceSequenceDescriptor
 
AuthorChoiceDescriptor - Class in textractor.xml.pubmed.xml
Class AuthorChoiceDescriptor.
AuthorChoiceDescriptor() - Constructor for class textractor.xml.pubmed.xml.AuthorChoiceDescriptor
 
AuthorChoiceDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AuthorChoiceDescriptor.
AuthorChoiceDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AuthorChoiceDescriptor
 
AuthorDescriptor - Class in textractor.xml.pubmed.xml
Class AuthorDescriptor.
AuthorDescriptor() - Constructor for class textractor.xml.pubmed.xml.AuthorDescriptor
 
AuthorDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AuthorDescriptor.
AuthorDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AuthorDescriptor
 
AuthorList - Class in textractor.xml.pubmed.xml
Class AuthorList.
AuthorList() - Constructor for class textractor.xml.pubmed.xml.AuthorList
 
AuthorList - Class in textractor.xml.pubmedabstracts.xml
Class AuthorList.
AuthorList() - Constructor for class textractor.xml.pubmedabstracts.xml.AuthorList
 
AuthorList - Class in textractor.xml.uniprot.xml
The authors of the citation.
AuthorList() - Constructor for class textractor.xml.uniprot.xml.AuthorList
 
AuthorListCompleteYNType - Class in textractor.xml.pubmed.xml.types
Class AuthorListCompleteYNType.
AuthorListCompleteYNType - Class in textractor.xml.pubmedabstracts.xml.types
Class AuthorListCompleteYNType.
AuthorListCompleteYNTypeDescriptor - Class in textractor.xml.pubmed.xml.types
Class AuthorListCompleteYNTypeDescriptor.
AuthorListCompleteYNTypeDescriptor() - Constructor for class textractor.xml.pubmed.xml.types.AuthorListCompleteYNTypeDescriptor
 
AuthorListCompleteYNTypeDescriptor - Class in textractor.xml.pubmedabstracts.xml.types
Class AuthorListCompleteYNTypeDescriptor.
AuthorListCompleteYNTypeDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.types.AuthorListCompleteYNTypeDescriptor
 
AuthorListDescriptor - Class in textractor.xml.pubmed.xml
Class AuthorListDescriptor.
AuthorListDescriptor() - Constructor for class textractor.xml.pubmed.xml.AuthorListDescriptor
 
AuthorListDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class AuthorListDescriptor.
AuthorListDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.AuthorListDescriptor
 
AuthorListDescriptor - Class in textractor.xml.uniprot.xml
Class AuthorListDescriptor.
AuthorListDescriptor() - Constructor for class textractor.xml.uniprot.xml.AuthorListDescriptor
 
AuthorsWordReader - Class in textractor.mg4j.io
PubMedExtractor creates a specifically formatted "authorsIndexText" string.
AuthorsWordReader() - Constructor for class textractor.mg4j.io.AuthorsWordReader
 
AuthorValidYNType - Class in textractor.xml.pubmed.xml.types
Class AuthorValidYNType.
AuthorValidYNType - Class in textractor.xml.pubmedabstracts.xml.types
Class AuthorValidYNType.
AuthorValidYNTypeDescriptor - Class in textractor.xml.pubmed.xml.types
Class AuthorValidYNTypeDescriptor.
AuthorValidYNTypeDescriptor() - Constructor for class textractor.xml.pubmed.xml.types.AuthorValidYNTypeDescriptor
 
AuthorValidYNTypeDescriptor - Class in textractor.xml.pubmedabstracts.xml.types
Class AuthorValidYNTypeDescriptor.
AuthorValidYNTypeDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.types.AuthorValidYNTypeDescriptor
 
AZ - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The instance of the AZ type
AZ_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The AZ type

B

BagOfWordExporter - Class in textractor.learning
Created by IntelliJ IDEA.
BagOfWordExporter() - Constructor for class textractor.learning.BagOfWordExporter
 
basenameFromAlias(String, String) - Static method in class textractor.database.IndexDetails
 
batchId - Variable in class textractor.tools.io.ExportRecords
 
begin() - Method in class textractor.database.JDOArticleProducer
Begin the interaction with this processor.
begin() - Method in class textractor.database.JDOSentenceProducer
 
begin() - Method in class textractor.html.DatabaseTextConsumer
Begin the interaction with this processor.
begin() - Method in class textractor.html.QueueTextConsumer
Begin the interaction with this consumer.
begin() - Method in interface textractor.TransactionalProcessor
Begin the interaction with this processor.
Begin - Class in textractor.xml.uniprot.xml
Class Begin.
Begin() - Constructor for class textractor.xml.uniprot.xml.Begin
 
beginColumn - Variable in class textractor.parsers.extractor.Token
beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
BeginDescriptor - Class in textractor.xml.uniprot.xml
Class BeginDescriptor.
BeginDescriptor() - Constructor for class textractor.xml.uniprot.xml.BeginDescriptor
 
beginIteration(int) - Method in class textractor.chain.loader.AbstractFileLoader
Called at the start of an iteration.
beginIteration(int) - Method in class textractor.chain.loader.PubmedArticleLoader
Called at the start of an iteration.
beginLine - Variable in class textractor.parsers.extractor.Token
beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
beginTxn() - Method in class textractor.database.DbManager
Begin a transaction.
beginTxn() - Method in interface textractor.database.TransactionManager
Begin a transaction.
bestMatchFile(String, String[]) - Static method in class textractor.query.clustering.TermCoOccurenceLoader
Find the best match file for term co-occurences.
bestScoresFavorLarge(float[], int) - Static method in class textractor.tfidf.TfIdfCalculator
Returns the indices of the n best scores in scoresInput.
bestScoresFavorSmall(float[], int) - Static method in class textractor.tfidf.TfIdfCalculator
 
BG - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The instance of the BG type
BG_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The BG type
bind(Object) - Method in class textractor.database.DbManager
Same as makePersistent
bind(Object, String) - Method in class textractor.database.DbManager
Binds a transient object to a name and make it persistent.
bind(Object, String) - Method in class textractor.database.NamingManager
 
BINDING_SITE - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The instance of the binding site type
BINDING_SITE_TYPE - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The binding site type
BIOPHYSICOCHEMICAL_PROPERTIES - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The instance of the biophysicochemical properties type
BIOPHYSICOCHEMICAL_PROPERTIES_TYPE - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The biophysicochemical properties type
BioSequenceWordReader - Class in textractor.mg4j.io
A word reader that splits a biological sequence into overlapping n-grams.
BioSequenceWordReader() - Constructor for class textractor.mg4j.io.BioSequenceWordReader
 
BioStemmer - Class in textractor.tools.biostems
Removes word prefix and suffixes leveraging a large word dictionary.
BioStemmer(DidYouMeanI) - Constructor for class textractor.tools.biostems.BioStemmer
 
BIOTECHNOLOGY - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The instance of the biotechnology type
BIOTECHNOLOGY_TYPE - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The biotechnology type
Book - Class in textractor.xml.pubmed.xml
Class Book.
Book() - Constructor for class textractor.xml.pubmed.xml.Book
 
Book - Class in textractor.xml.pubmedabstracts.xml
Class Book.
Book() - Constructor for class textractor.xml.pubmedabstracts.xml.Book
 
BOOK - Static variable in class textractor.xml.uniprot.xml.types.CitationTypeTypeType
The instance of the book type
BOOK_TYPE - Static variable in class textractor.xml.uniprot.xml.types.CitationTypeTypeType
The book type
BookDescriptor - Class in textractor.xml.pubmed.xml
Class BookDescriptor.
BookDescriptor() - Constructor for class textractor.xml.pubmed.xml.BookDescriptor
 
BookDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class BookDescriptor.
BookDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.BookDescriptor
 
BpcCommentGroup - Class in textractor.xml.uniprot.xml
Class BpcCommentGroup.
BpcCommentGroup() - Constructor for class textractor.xml.uniprot.xml.BpcCommentGroup
 
BpcCommentGroupDescriptor - Class in textractor.xml.uniprot.xml
Class BpcCommentGroupDescriptor.
BpcCommentGroupDescriptor() - Constructor for class textractor.xml.uniprot.xml.BpcCommentGroupDescriptor
 
BroadJournalHeading - Class in textractor.xml.pubmed.xml
Class BroadJournalHeading.
BroadJournalHeading() - Constructor for class textractor.xml.pubmed.xml.BroadJournalHeading
 
BroadJournalHeading - Class in textractor.xml.pubmedabstracts.xml
Class BroadJournalHeading.
BroadJournalHeading() - Constructor for class textractor.xml.pubmedabstracts.xml.BroadJournalHeading
 
BroadJournalHeadingDescriptor - Class in textractor.xml.pubmed.xml
Class BroadJournalHeadingDescriptor.
BroadJournalHeadingDescriptor() - Constructor for class textractor.xml.pubmed.xml.BroadJournalHeadingDescriptor
 
BroadJournalHeadingDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class BroadJournalHeadingDescriptor.
BroadJournalHeadingDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.BroadJournalHeadingDescriptor
 
BroadJournalHeadingItem - Class in textractor.xml.pubmed.xml
Class BroadJournalHeadingItem.
BroadJournalHeadingItem() - Constructor for class textractor.xml.pubmed.xml.BroadJournalHeadingItem
 
BroadJournalHeadingItem - Class in textractor.xml.pubmedabstracts.xml
Class BroadJournalHeadingItem.
BroadJournalHeadingItem() - Constructor for class textractor.xml.pubmedabstracts.xml.BroadJournalHeadingItem
 
BroadJournalHeadingItemDescriptor - Class in textractor.xml.pubmed.xml
Class BroadJournalHeadingItemDescriptor.
BroadJournalHeadingItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.BroadJournalHeadingItemDescriptor
 
BroadJournalHeadingItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class BroadJournalHeadingItemDescriptor.
BroadJournalHeadingItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.BroadJournalHeadingItemDescriptor
 
BroadJournalHeadingList - Class in textractor.xml.pubmed.xml
Class BroadJournalHeadingList.
BroadJournalHeadingList() - Constructor for class textractor.xml.pubmed.xml.BroadJournalHeadingList
 
BroadJournalHeadingList - Class in textractor.xml.pubmedabstracts.xml
Class BroadJournalHeadingList.
BroadJournalHeadingList() - Constructor for class textractor.xml.pubmedabstracts.xml.BroadJournalHeadingList
 
BroadJournalHeadingListDescriptor - Class in textractor.xml.pubmed.xml
Class BroadJournalHeadingListDescriptor.
BroadJournalHeadingListDescriptor() - Constructor for class textractor.xml.pubmed.xml.BroadJournalHeadingListDescriptor
 
BroadJournalHeadingListDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class BroadJournalHeadingListDescriptor.
BroadJournalHeadingListDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.BroadJournalHeadingListDescriptor
 
build() - Method in class textractor.caseInsensitive.CaseInsensitiveBuilder
Build the CaseInsensetiveStore.
BuildDocStore - Class in textractor.tools.docstore
Construct a document store from documents in the database.
BuildDocStore() - Constructor for class textractor.tools.docstore.BuildDocStore
 
BuildDocStoreFromPubmedArticles - Class in textractor.tools
Pass over a document collection to create a document store.
BuildDocStoreFromPubmedArticles(String[]) - Constructor for class textractor.tools.BuildDocStoreFromPubmedArticles
 
BuildDocumentIndex - Class in textractor.tools
Prints documents from the database into the MG document format.
BuildDocumentIndex() - Constructor for class textractor.tools.BuildDocumentIndex
 
BuildDocumentIndexFromDB - Class in textractor.tools
Used to builds a the document index from the database.
BuildDocumentIndexFromDB() - Constructor for class textractor.tools.BuildDocumentIndexFromDB
 
BuildDocumentIndexFromDocumentSequence - Class in textractor.tools
User: campagne Date: Nov 8, 2005 Time: 3:01:44 PM
BuildDocumentIndexFromDocumentSequence(String, DocumentSequence) - Constructor for class textractor.tools.BuildDocumentIndexFromDocumentSequence
 
BuildDocumentIndexFromGenbankFiles - Class in textractor.tools.genbank
User: Fabien Campagne Date: Oct 17, 2004 Time: 1:19:53 PM
BuildDocumentIndexFromGenbankFiles(String[], String, boolean) - Constructor for class textractor.tools.genbank.BuildDocumentIndexFromGenbankFiles
 
BuildDocumentIndexFromGenbankFiles(String) - Constructor for class textractor.tools.genbank.BuildDocumentIndexFromGenbankFiles
 
BuildDocumentIndexFromGenbankFiles(String, boolean) - Constructor for class textractor.tools.genbank.BuildDocumentIndexFromGenbankFiles
 
BuildDocumentIndexFromHTMLArticles - Class in textractor.tools
User: Fabien Campagne Date: Oct 17, 2004 Time: 1:19:53 PM
BuildDocumentIndexFromHTMLArticles(String) - Constructor for class textractor.tools.BuildDocumentIndexFromHTMLArticles
 
BuildDocumentIndexFromHTMLArticles(String[], String, boolean) - Constructor for class textractor.tools.BuildDocumentIndexFromHTMLArticles
 
BuildDocumentIndexFromHTMLArticles(String, boolean) - Constructor for class textractor.tools.BuildDocumentIndexFromHTMLArticles
 
BuildDocumentIndexFromPubmedArticles - Class in textractor.tools
Builds a document index directly from a set of pubmed articles.
BuildDocumentIndexFromPubmedArticles(String[]) - Constructor for class textractor.tools.BuildDocumentIndexFromPubmedArticles
 
BuildDocumentIndexFromTextDocuments - Class in textractor.tools
 
BuildDocumentIndexFromTextDocuments(String) - Constructor for class textractor.tools.BuildDocumentIndexFromTextDocuments
 

C

CALCIUM_BINDING_REGION - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The instance of the calcium-binding region type
CALCIUM_BINDING_REGION_TYPE - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The calcium-binding region type
calculate(TermSimilarityMatrix, int[]) - Method in class textractor.query.clustering.TermCoOccurenceCalculator
 
calculate(String[]) - Method in class textractor.query.clustering.TermDependencyCalculator
 
calculate(int[], String[]) - Method in class textractor.query.clustering.TermDependencyCalculator
 
calculate(TermSimilarityMatrix, int[]) - Method in class textractor.query.clustering.TermDependencyCalculator
 
calculateMaxWindowWidth(int, int, int) - Method in class textractor.datamodel.SingleBagOfWordFeatureCreationParameters
 
calculateMinWindowIndex(int) - Method in class textractor.datamodel.SingleBagOfWordFeatureCreationParameters
 
calculatePartial(Map<String, Integer>, Map<String, Integer>) - Method in class textractor.tools.lookup.LookupProteinnameStandalone
Calculate the occurence of a term as a part of the other term e.g.
calculateTfIdfScore(float[], float[]) - Method in class textractor.tfidf.TfIdfCalculator
Retuns the tf-idf score based on two tf-idf vectors.
call() - Method in class textractor.chain.AbstractSentenceConsumer
 
call() - Method in class textractor.chain.AbstractSentenceTransformer
 
call() - Method in class textractor.chain.loader.AbstractFileLoader
Thread that will process a file, directory or list of files.
call() - Method in class textractor.chain.producer.StringArrayProducer
Thread that will process a array of strings.
CandidateAcronym - Class in textractor.tools.expansion
User: Fabien Campagne Date: Nov 6, 2004 Time: 2:44:29 PM
CandidateAcronym(String) - Constructor for class textractor.tools.expansion.CandidateAcronym
 
CandidateExpansion - Class in textractor.tools.expansion
Created by IntelliJ IDEA.
CandidateExpansion() - Constructor for class textractor.tools.expansion.CandidateExpansion
 
CandidateExpansion(List<String>) - Constructor for class textractor.tools.expansion.CandidateExpansion
 
CaseInsensitiveBuilder - Class in textractor.caseInsensitive
Class to build the CaseInsensetiveStore.
CaseInsensitiveBuilder(DocumentIndexManager) - Constructor for class textractor.caseInsensitive.CaseInsensitiveBuilder
Contractor to use to build the CaseInsensitiveStore.
CaseInsensitiveStore - Class in textractor.caseInsensitive
The Textractor index for Twease is case insensitive for large words but for small words it is case sensitive.
CaseInsensitiveStore(DocumentIndexManager) - Constructor for class textractor.caseInsensitive.CaseInsensitiveStore
This version of the constructor is used when creating a CaseInsensitiveStore and should only be used during the indexing phase, not during application runtime.
CaseInsensitiveStore(DocumentIndexManager, String) - Constructor for class textractor.caseInsensitive.CaseInsensitiveStore
This version of the constructor is used during application runtime.
CaseInsensitiveStoreReader - Interface in textractor.caseInsensitive
Interface to read information in a CaseInsensitiveStore.
CATALYTIC_ACTIVITY - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The instance of the catalytic activity type
CATALYTIC_ACTIVITY_TYPE - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The catalytic activity type
CAUTION - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The instance of the caution type
CAUTION_TYPE - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The caution type
CERTAIN - Static variable in class textractor.xml.uniprot.xml.types.PositionTypeStatusType
The instance of the certain type
CERTAIN_TYPE - Static variable in class textractor.xml.uniprot.xml.types.PositionTypeStatusType
The certain type
CHAIN - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The instance of the chain type
CHAIN_TYPE - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The chain type
ChainExecutor - Class in textractor.tools.chain
 
ChainExecutor(URL) - Constructor for class textractor.tools.chain.ChainExecutor
 
ChainExecutor(Catalog) - Constructor for class textractor.tools.chain.ChainExecutor
 
characterIsDelimiter(char) - Method in class textractor.mg4j.io.ProteinWordSplitterReader
Check if the character is a word delimiter.
characterIsNonDelimiter(char) - Method in class textractor.mg4j.io.ProteinWordSplitterReader
Check if the character is a word delimiter.
characterIsNonDelimiter(char) - Method in class textractor.mg4j.io.TweaseWordReader2
Check if the character can be part of a word.
characterIsPunctuation(char) - Static method in class textractor.util.TextractorUtils
 
characterIsSentenceTerminator(char) - Static method in class textractor.util.TextractorUtils
 
characters(char[], int, int, boolean) - Method in class textractor.chain.loader.SimplifiedDefaultCallback
Process (more) characters between start and end elements.
characters(char[], int, int, boolean) - Method in class textractor.parsers.PubmedExtractor
Received XML characters.
characters(char[], int, int) - Method in class textractor.tools.expansion.ExpansionHandler
 
check() - Method in class textractor.util.TermChecker
Build the CaseInsensetiveStore.
checkAndRemoveRedundancy - Variable in class textractor.tools.lookup.AbstractLookupProteinname
 
checkConsisentcyWithSearchTerm(String) - Method in class textractor.mg4j.docstore.DocumentStoreConsistencyChecker
 
CheckpointCallback - Interface in textractor.html
Created by IntelliJ IDEA.
checkpointCallback() - Method in interface textractor.html.CheckpointCallback
 
checkpointCallback() - Method in class textractor.html.DatabaseTextConsumer
 
checkpointCallback() - Method in class textractor.html.PubmedAbstracts2Text2DB
 
checkpointTxn() - Method in class textractor.database.DbManager
Checkpoints a transaction.
Chemical - Class in textractor.xml.pubmed.xml
Class Chemical.
Chemical() - Constructor for class textractor.xml.pubmed.xml.Chemical
 
Chemical - Class in textractor.xml.pubmedabstracts.xml
Class Chemical.
Chemical() - Constructor for class textractor.xml.pubmedabstracts.xml.Chemical
 
ChemicalDescriptor - Class in textractor.xml.pubmed.xml
Class ChemicalDescriptor.
ChemicalDescriptor() - Constructor for class textractor.xml.pubmed.xml.ChemicalDescriptor
 
ChemicalDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ChemicalDescriptor.
ChemicalDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ChemicalDescriptor
 
ChemicalList - Class in textractor.xml.pubmed.xml
Class ChemicalList.
ChemicalList() - Constructor for class textractor.xml.pubmed.xml.ChemicalList
 
ChemicalList - Class in textractor.xml.pubmedabstracts.xml
Class ChemicalList.
ChemicalList() - Constructor for class textractor.xml.pubmedabstracts.xml.ChemicalList
 
ChemicalListDescriptor - Class in textractor.xml.pubmed.xml
Class ChemicalListDescriptor.
ChemicalListDescriptor() - Constructor for class textractor.xml.pubmed.xml.ChemicalListDescriptor
 
ChemicalListDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ChemicalListDescriptor.
ChemicalListDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ChemicalListDescriptor
 
CHLOROPLAST - Static variable in class textractor.xml.uniprot.xml.types.GeneLocationTypeTypeType
The instance of the chloroplast type
CHLOROPLAST_TYPE - Static variable in class textractor.xml.uniprot.xml.types.GeneLocationTypeTypeType
The chloroplast type
chunkSize - Variable in class textractor.database.TextractorDBDocumentIterator
 
chunkSize - Variable in class textractor.database.TextractorDBDocumentSequence
 
Citation - Class in textractor.xml.uniprot.xml
Class Citation.
Citation() - Constructor for class textractor.xml.uniprot.xml.Citation
 
CitationDescriptor - Class in textractor.xml.uniprot.xml
Class CitationDescriptor.
CitationDescriptor() - Constructor for class textractor.xml.uniprot.xml.CitationDescriptor
 
CitationSubset - Class in textractor.xml.pubmed.xml
Class CitationSubset.
CitationSubset() - Constructor for class textractor.xml.pubmed.xml.CitationSubset
 
CitationSubset - Class in textractor.xml.pubmedabstracts.xml
Class CitationSubset.
CitationSubset() - Constructor for class textractor.xml.pubmedabstracts.xml.CitationSubset
 
CitationSubsetDescriptor - Class in textractor.xml.pubmed.xml
Class CitationSubsetDescriptor.
CitationSubsetDescriptor() - Constructor for class textractor.xml.pubmed.xml.CitationSubsetDescriptor
 
CitationSubsetDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CitationSubsetDescriptor.
CitationSubsetDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CitationSubsetDescriptor
 
CitationSubsetItem - Class in textractor.xml.pubmed.xml
Class CitationSubsetItem.
CitationSubsetItem() - Constructor for class textractor.xml.pubmed.xml.CitationSubsetItem
 
CitationSubsetItem - Class in textractor.xml.pubmedabstracts.xml
Class CitationSubsetItem.
CitationSubsetItem() - Constructor for class textractor.xml.pubmedabstracts.xml.CitationSubsetItem
 
CitationSubsetItemDescriptor - Class in textractor.xml.pubmed.xml
Class CitationSubsetItemDescriptor.
CitationSubsetItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.CitationSubsetItemDescriptor
 
CitationSubsetItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CitationSubsetItemDescriptor.
CitationSubsetItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CitationSubsetItemDescriptor
 
CitationType - Class in textractor.xml.uniprot.xml
The citation type stores all information about a citation.
CitationType() - Constructor for class textractor.xml.uniprot.xml.CitationType
 
CitationTypeDescriptor - Class in textractor.xml.uniprot.xml
Class CitationTypeDescriptor.
CitationTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.CitationTypeDescriptor
 
CitationTypeTypeType - Class in textractor.xml.uniprot.xml.types
Class CitationTypeTypeType.
CitationTypeTypeTypeDescriptor - Class in textractor.xml.uniprot.xml.types
Class CitationTypeTypeTypeDescriptor.
CitationTypeTypeTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.types.CitationTypeTypeTypeDescriptor
 
CitingCitation - Class in textractor.xml.uniprot.xml
Used by type: unpublished results.
CitingCitation() - Constructor for class textractor.xml.uniprot.xml.CitingCitation
 
CitingCitationDescriptor - Class in textractor.xml.uniprot.xml
Class CitingCitationDescriptor.
CitingCitationDescriptor() - Constructor for class textractor.xml.uniprot.xml.CitingCitationDescriptor
 
classesNames - Variable in class textractor.tools.io.ExportImport
 
cleanData(BufferedReader) - Method in class textractor.util.CleanRatioData
 
CleanRatioData - Class in textractor.util
Used to clean the results from the ImportSVMResultsByAnnotation class.
CleanRatioData() - Constructor for class textractor.util.CleanRatioData
 
cleanTermPredictionStats - Variable in class textractor.tools.io.ImportSVMResults
 
clear() - Method in class textractor.tools.Features
Clears the features.
clear_abstract() - Method in class textractor.xml.yapex.xml.Abstracts
Method clear_abstract
clearCache(boolean) - Method in class textractor.database.NamingManager
Removes the persistent object references from the cache This must be done always after commiting a transaction.
clearName() - Method in class textractor.xml.yapex.xml.ProteinNames
Method clearName
clearTerms() - Method in class textractor.datamodel.DoubleBagOfWordFeatureCreationParameters
 
clearTerms() - Method in class textractor.datamodel.FeatureCreationParameters
Clear the terms stored in this parameter.
clearTerms() - Method in class textractor.datamodel.SingleBagOfWordFeatureCreationParameters
 
clip(DocumentIndexManager) - Method in class textractor.tools.expansion.ClipExpansions
 
ClipExpansions - Class in textractor.tools.expansion
Class removes commonly occuring words from collected expansions.
ClipExpansions(float) - Constructor for class textractor.tools.expansion.ClipExpansions
 
ClippedExpansionXMLWriter - Class in textractor.tools.expansion
 
ClippedExpansionXMLWriter(String) - Constructor for class textractor.tools.expansion.ClippedExpansionXMLWriter
 
CLML - Static variable in class textractor.xml.pubmed.xml.types.OtherIDItemSourceType
The instance of the CLML type
CLML - Static variable in class textractor.xml.pubmedabstracts.xml.types.OtherIDItemSourceType
The instance of the CLML type
CLML_TYPE - Static variable in class textractor.xml.pubmed.xml.types.OtherIDItemSourceType
The CLML type
CLML_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.OtherIDItemSourceType
The CLML type
close() - Method in class textractor.crf.CRFDatasetWriter
 
close() - Method in class textractor.crf.MalletDatasetWriter
 
close() - Method in class textractor.database.DocumentIndexManager
Close all loaded indexes.
close() - Method in class textractor.database.TextractorDBDocumentIterator
 
close() - Method in class textractor.database.TextractorDBDocumentSequence
Releases database resources.
close() - Method in class textractor.didyoumean.DidYouMeanDocument
 
close() - Method in class textractor.didyoumean.DidYouMeanDocumentSequence
 
close() - Method in class textractor.html.PubmedAbstracts2Text2DB
 
close() - Method in class textractor.learning.AnnotationFormatReader
 
close() - Method in class textractor.mg4j.docstore.DocumentStoreConsistencyChecker
Closes this stream and releases any system resources associated with it.
close() - Method in class textractor.mg4j.docstore.DocumentStoreReader
Closes this reader and releases any system resources associated with it.
close() - Method in class textractor.mg4j.docstore.DocumentStoreWriter
Close.
close() - Method in class textractor.mg4j.docstore.StringPerDocumentReader
Closes this reader and releases any system resources associated with it.
close() - Method in class textractor.mg4j.docstore.StringPerDocumentWriter
 
close() - Method in class textractor.mg4j.docstore.TermDocumentFrequencyReader
Closes this reader and releases any system resources associated with it.
close() - Method in class textractor.mg4j.docstore.TermDocumentFrequencyWriter
 
close() - Method in class textractor.mg4j.document.DocStoreDocumentCollection
Closes this stream and releases any system resources associated with it.
close() - Method in class textractor.mg4j.document.TextractorQueueDocumentIterator
Closes this document iterator, releasing all resources.
close() - Method in class textractor.mg4j.document.TextractorQueueDocumentSequence
Closes this document sequence, releasing all resources.
close() - Method in class textractor.mg4j.index.TermIterator
Closes this iterator.
close() - Method in class textractor.tools.lookup.LookupProteinname
 
CLOSEPAREN - Static variable in interface textractor.parsers.extractor.ExtractionEngineConstants
 
ClusterTool - Class in textractor.tools.clustering
This is a class to test clustering using MutualInformation.
ClusterTool() - Constructor for class textractor.tools.clustering.ClusterTool
 
Coden - Class in textractor.xml.pubmed.xml
Class Coden.
Coden() - Constructor for class textractor.xml.pubmed.xml.Coden
 
Coden - Class in textractor.xml.pubmedabstracts.xml
Class Coden.
Coden() - Constructor for class textractor.xml.pubmedabstracts.xml.Coden
 
CodenDescriptor - Class in textractor.xml.pubmed.xml
Class CodenDescriptor.
CodenDescriptor() - Constructor for class textractor.xml.pubmed.xml.CodenDescriptor
 
CodenDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CodenDescriptor.
CodenDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CodenDescriptor
 
CodenItem - Class in textractor.xml.pubmed.xml
Class CodenItem.
CodenItem() - Constructor for class textractor.xml.pubmed.xml.CodenItem
 
CodenItem - Class in textractor.xml.pubmedabstracts.xml
Class CodenItem.
CodenItem() - Constructor for class textractor.xml.pubmedabstracts.xml.CodenItem
 
CodenItemDescriptor - Class in textractor.xml.pubmed.xml
Class CodenItemDescriptor.
CodenItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.CodenItemDescriptor
 
CodenItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CodenItemDescriptor.
CodenItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CodenItemDescriptor
 
COFACTOR - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The instance of the cofactor type
COFACTOR_TYPE - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The cofactor type
CollectExpansions - Class in textractor.tools.expansion
Collect potential expansions of a list of abbreviations or acronyms.
CollectExpansions() - Constructor for class textractor.tools.expansion.CollectExpansions
 
collectFiles(String) - Method in class textractor.util.HTMLByteLocator
 
CollectionTitle - Class in textractor.xml.pubmed.xml
Class CollectionTitle.
CollectionTitle() - Constructor for class textractor.xml.pubmed.xml.CollectionTitle
 
CollectionTitle - Class in textractor.xml.pubmedabstracts.xml
Class CollectionTitle.
CollectionTitle() - Constructor for class textractor.xml.pubmedabstracts.xml.CollectionTitle
 
CollectionTitleDescriptor - Class in textractor.xml.pubmed.xml
Class CollectionTitleDescriptor.
CollectionTitleDescriptor() - Constructor for class textractor.xml.pubmed.xml.CollectionTitleDescriptor
 
CollectionTitleDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CollectionTitleDescriptor.
CollectionTitleDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CollectionTitleDescriptor
 
CollectionTitleItem - Class in textractor.xml.pubmed.xml
Class CollectionTitleItem.
CollectionTitleItem() - Constructor for class textractor.xml.pubmed.xml.CollectionTitleItem
 
CollectionTitleItem - Class in textractor.xml.pubmedabstracts.xml
Class CollectionTitleItem.
CollectionTitleItem() - Constructor for class textractor.xml.pubmedabstracts.xml.CollectionTitleItem
 
CollectionTitleItemDescriptor - Class in textractor.xml.pubmed.xml
Class CollectionTitleItemDescriptor.
CollectionTitleItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.CollectionTitleItemDescriptor
 
CollectionTitleItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CollectionTitleItemDescriptor.
CollectionTitleItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CollectionTitleItemDescriptor
 
CollectiveName - Class in textractor.xml.pubmed.xml
Class CollectiveName.
CollectiveName() - Constructor for class textractor.xml.pubmed.xml.CollectiveName
 
CollectiveName - Class in textractor.xml.pubmedabstracts.xml
Class CollectiveName.
CollectiveName() - Constructor for class textractor.xml.pubmedabstracts.xml.CollectiveName
 
CollectiveNameDescriptor - Class in textractor.xml.pubmed.xml
Class CollectiveNameDescriptor.
CollectiveNameDescriptor() - Constructor for class textractor.xml.pubmed.xml.CollectiveNameDescriptor
 
CollectiveNameDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CollectiveNameDescriptor.
CollectiveNameDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CollectiveNameDescriptor
 
CollectiveNameItem - Class in textractor.xml.pubmed.xml
Class CollectiveNameItem.
CollectiveNameItem() - Constructor for class textractor.xml.pubmed.xml.CollectiveNameItem
 
CollectiveNameItem - Class in textractor.xml.pubmedabstracts.xml
Class CollectiveNameItem.
CollectiveNameItem() - Constructor for class textractor.xml.pubmedabstracts.xml.CollectiveNameItem
 
CollectiveNameItemDescriptor - Class in textractor.xml.pubmed.xml
Class CollectiveNameItemDescriptor.
CollectiveNameItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.CollectiveNameItemDescriptor
 
CollectiveNameItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CollectiveNameItemDescriptor.
CollectiveNameItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CollectiveNameItemDescriptor
 
COMMA - Static variable in interface textractor.parsers.extractor.ExtractionEngineConstants
 
commands - Variable in class textractor.chain.AbstractSentenceProducer
The list of Commands configured for this Chain, in the order in which they may delegate processing to the remainder of the Chain.
commands - Variable in class textractor.chain.AbstractSentenceTransformer
The list of Commands configured for this Chain, in the order in which they may delegate processing to the remainder of the Chain.
Comment - Class in textractor.xml.uniprot.xml
Class Comment.
Comment() - Constructor for class textractor.xml.uniprot.xml.Comment
 
CommentDescriptor - Class in textractor.xml.uniprot.xml
Class CommentDescriptor.
CommentDescriptor() - Constructor for class textractor.xml.uniprot.xml.CommentDescriptor
 
CommentIn - Class in textractor.xml.pubmed.xml
Class CommentIn.
CommentIn() - Constructor for class textractor.xml.pubmed.xml.CommentIn
 
CommentIn - Class in textractor.xml.pubmedabstracts.xml
Class CommentIn.
CommentIn() - Constructor for class textractor.xml.pubmedabstracts.xml.CommentIn
 
CommentInDescriptor - Class in textractor.xml.pubmed.xml
Class CommentInDescriptor.
CommentInDescriptor() - Constructor for class textractor.xml.pubmed.xml.CommentInDescriptor
 
CommentInDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CommentInDescriptor.
CommentInDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CommentInDescriptor
 
CommentOn - Class in textractor.xml.pubmed.xml
Class CommentOn.
CommentOn() - Constructor for class textractor.xml.pubmed.xml.CommentOn
 
CommentOn - Class in textractor.xml.pubmedabstracts.xml
Class CommentOn.
CommentOn() - Constructor for class textractor.xml.pubmedabstracts.xml.CommentOn
 
CommentOnDescriptor - Class in textractor.xml.pubmed.xml
Class CommentOnDescriptor.
CommentOnDescriptor() - Constructor for class textractor.xml.pubmed.xml.CommentOnDescriptor
 
CommentOnDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CommentOnDescriptor.
CommentOnDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CommentOnDescriptor
 
CommentsCorrections - Class in textractor.xml.pubmed.xml
Class CommentsCorrections.
CommentsCorrections() - Constructor for class textractor.xml.pubmed.xml.CommentsCorrections
 
CommentsCorrections - Class in textractor.xml.pubmedabstracts.xml
Class CommentsCorrections.
CommentsCorrections() - Constructor for class textractor.xml.pubmedabstracts.xml.CommentsCorrections
 
CommentsCorrectionsDescriptor - Class in textractor.xml.pubmed.xml
Class CommentsCorrectionsDescriptor.
CommentsCorrectionsDescriptor() - Constructor for class textractor.xml.pubmed.xml.CommentsCorrectionsDescriptor
 
CommentsCorrectionsDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CommentsCorrectionsDescriptor.
CommentsCorrectionsDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CommentsCorrectionsDescriptor
 
CommentType - Class in textractor.xml.uniprot.xml
The comment element stores all information found in the CC lines of the flatfile format.
CommentType() - Constructor for class textractor.xml.uniprot.xml.CommentType
 
CommentTypeChoice - Class in textractor.xml.uniprot.xml
Class CommentTypeChoice.
CommentTypeChoice() - Constructor for class textractor.xml.uniprot.xml.CommentTypeChoice
 
CommentTypeChoiceDescriptor - Class in textractor.xml.uniprot.xml
Class CommentTypeChoiceDescriptor.
CommentTypeChoiceDescriptor() - Constructor for class textractor.xml.uniprot.xml.CommentTypeChoiceDescriptor
 
CommentTypeChoiceSequence - Class in textractor.xml.uniprot.xml
Class CommentTypeChoiceSequence.
CommentTypeChoiceSequence() - Constructor for class textractor.xml.uniprot.xml.CommentTypeChoiceSequence
 
CommentTypeChoiceSequence2 - Class in textractor.xml.uniprot.xml
Class CommentTypeChoiceSequence2.
CommentTypeChoiceSequence2() - Constructor for class textractor.xml.uniprot.xml.CommentTypeChoiceSequence2
 
CommentTypeChoiceSequence2Descriptor - Class in textractor.xml.uniprot.xml
Class CommentTypeChoiceSequence2Descriptor.
CommentTypeChoiceSequence2Descriptor() - Constructor for class textractor.xml.uniprot.xml.CommentTypeChoiceSequence2Descriptor
 
CommentTypeChoiceSequence3 - Class in textractor.xml.uniprot.xml
Class CommentTypeChoiceSequence3.
CommentTypeChoiceSequence3() - Constructor for class textractor.xml.uniprot.xml.CommentTypeChoiceSequence3
 
CommentTypeChoiceSequence3Descriptor - Class in textractor.xml.uniprot.xml
Class CommentTypeChoiceSequence3Descriptor.
CommentTypeChoiceSequence3Descriptor() - Constructor for class textractor.xml.uniprot.xml.CommentTypeChoiceSequence3Descriptor
 
CommentTypeChoiceSequence4 - Class in textractor.xml.uniprot.xml
Class CommentTypeChoiceSequence4.
CommentTypeChoiceSequence4() - Constructor for class textractor.xml.uniprot.xml.CommentTypeChoiceSequence4
 
CommentTypeChoiceSequence4Descriptor - Class in textractor.xml.uniprot.xml
Class CommentTypeChoiceSequence4Descriptor.
CommentTypeChoiceSequence4Descriptor() - Constructor for class textractor.xml.uniprot.xml.CommentTypeChoiceSequence4Descriptor
 
CommentTypeChoiceSequenceDescriptor - Class in textractor.xml.uniprot.xml
Class CommentTypeChoiceSequenceDescriptor.
CommentTypeChoiceSequenceDescriptor() - Constructor for class textractor.xml.uniprot.xml.CommentTypeChoiceSequenceDescriptor
 
CommentTypeDescriptor - Class in textractor.xml.uniprot.xml
Class CommentTypeDescriptor.
CommentTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.CommentTypeDescriptor
 
CommentTypeTypeType - Class in textractor.xml.uniprot.xml.types
Class CommentTypeTypeType.
CommentTypeTypeTypeDescriptor - Class in textractor.xml.uniprot.xml.types
Class CommentTypeTypeTypeDescriptor.
CommentTypeTypeTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.types.CommentTypeTypeTypeDescriptor
 
commitTxn() - Method in class textractor.database.DbManager
Commit a transaction.
commitTxn() - Method in interface textractor.database.TransactionManager
Commit a transaction.
COMMON - Static variable in class textractor.xml.uniprot.xml.types.OrganismNameTypeTypeType
The instance of the common type
COMMON_TYPE - Static variable in class textractor.xml.uniprot.xml.types.OrganismNameTypeTypeType
The common type
compare(ScoredResult, ScoredResult) - Method in class textractor.scoredresult.ScoredResultComparator
 
compare(ScoredTerm, ScoredTerm) - Method in class textractor.tools.biostems.ScoredTermComparator
 
compareAcronymsWith(ExpansionAnalyser) - Method in class textractor.tools.expansion.ExpansionAnalyser
 
compareLongFormsWith(ExpansionAnalyser) - Method in class textractor.tools.expansion.ExpansionAnalyser
 
compareTo(TextSegment) - Method in class textractor.crf.TextSegment
 
compareTo(TermOccurrence) - Method in class textractor.datamodel.TermOccurrence
Natural ordering of TermOccurrence - by term count.
compareTo(ScoredResult) - Method in class textractor.scoredresult.ScoredResult
 
compareTo(OrthogonalKeywordSets) - Method in class textractor.tools.ambiguity.OrthogonalKeywordSets
Compares this object with the specified object for order.
compareTo(ScoredTerm) - Method in class textractor.tools.biostems.ScoredTerm
 
COMPLETED - Static variable in class textractor.xml.pubmed.xml.types.MedlineCitationStatusType
The instance of the Completed type
COMPLETED - Static variable in class textractor.xml.pubmedabstracts.xml.types.MedlineCitationStatusType
The instance of the Completed type
COMPLETED_TYPE - Static variable in class textractor.xml.pubmed.xml.types.MedlineCitationStatusType
The Completed type
COMPLETED_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.MedlineCitationStatusType
The Completed type
Component - Class in textractor.xml.uniprot.xml
The component list is equivalent to the CONTAINS section of the DE line.
Component() - Constructor for class textractor.xml.uniprot.xml.Component
 
ComponentDescriptor - Class in textractor.xml.uniprot.xml
Class ComponentDescriptor.
ComponentDescriptor() - Constructor for class textractor.xml.uniprot.xml.ComponentDescriptor
 
CompressionAdaptor - Class in textractor.mg4j.docstore
Created by IntelliJ IDEA.
CompressionAdaptor(OutputBitStream) - Constructor for class textractor.mg4j.docstore.CompressionAdaptor
 
CompressionAdaptorDelta - Class in textractor.mg4j.docstore
Writes with DELTA coding.
CompressionAdaptorDelta(OutputBitStream) - Constructor for class textractor.mg4j.docstore.CompressionAdaptorDelta
 
CompressionAdaptorGamma - Class in textractor.mg4j.docstore
Writes with GAMMA coding.
CompressionAdaptorGamma(OutputBitStream) - Constructor for class textractor.mg4j.docstore.CompressionAdaptorGamma
 
ConfigurableTextractorDocumentFactory - Class in textractor.mg4j.document
A factory that can produce MG4J documents from Textractor sentences.
ConfigurableTextractorDocumentFactory(String, Reference2ObjectMap<Enum<?>, Object>) - Constructor for class textractor.mg4j.document.ConfigurableTextractorDocumentFactory
Construct a new DocumentFactory.
ConfigurableTextractorDocumentFactory(String, Properties) - Constructor for class textractor.mg4j.document.ConfigurableTextractorDocumentFactory
Construct a new DocumentFactory.
ConfigurableTextractorDocumentFactory.MetadataKeys - Enum in textractor.mg4j.document
Case-insensitive keys for metadata passed to DocumentFactory.getDocument( java.io.InputStream,it.unimi.dsi.fastutil.objects.Reference2ObjectMap).
configure(BulletParser) - Method in class textractor.chain.loader.OmimExtractor
Specify the elements we want to parse from the XML file.
configure(Properties) - Method in class textractor.mg4j.io.AuthorsWordReader
 
configure(Properties) - Method in class textractor.mg4j.io.BioSequenceWordReader
 
configure(Properties) - Method in class textractor.mg4j.io.ProteinWordSplitterReader
 
configure(Properties) - Method in interface textractor.mg4j.io.TextractorWordReader
Configure the word reader according to the textractor index properties.
configure(Properties) - Method in class textractor.mg4j.io.TweaseWordReader
 
configure(Properties) - Method in class textractor.mg4j.io.TweaseWordReader2
 
configure(BulletParser) - Method in class textractor.parsers.PubmedExtractor
Configure the parser to parse text.
configureFromCommandLine(String[]) - Method in class textractor.mg4j.io.AuthorsWordReader
 
configureFromCommandLine(String[]) - Method in class textractor.mg4j.io.BioSequenceWordReader
 
configureFromCommandLine(String[]) - Method in class textractor.mg4j.io.ProteinWordSplitterReader
 
configureFromCommandLine(String[]) - Method in class textractor.mg4j.io.ShufflingBioSequenceWordReader
 
configureFromCommandLine(String[]) - Method in interface textractor.mg4j.io.TextractorWordReader
Let the word reader obtain its parameters from the command line.
configureFromCommandLine(String[]) - Method in class textractor.mg4j.io.TweaseWordReader
 
configureFromCommandLine(String[]) - Method in class textractor.mg4j.io.TweaseWordReader2
 
Consortium - Class in textractor.xml.uniprot.xml
Class Consortium.
Consortium() - Constructor for class textractor.xml.uniprot.xml.Consortium
 
ConsortiumDescriptor - Class in textractor.xml.uniprot.xml
Class ConsortiumDescriptor.
ConsortiumDescriptor() - Constructor for class textractor.xml.uniprot.xml.ConsortiumDescriptor
 
ConsortiumType - Class in textractor.xml.uniprot.xml
Class ConsortiumType.
ConsortiumType() - Constructor for class textractor.xml.uniprot.xml.ConsortiumType
 
ConsortiumTypeDescriptor - Class in textractor.xml.uniprot.xml
Class ConsortiumTypeDescriptor.
ConsortiumTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.ConsortiumTypeDescriptor
 
consume(Article, Collection<Sentence>) - Method in class textractor.chain.consumer.SentenceWriter
Print sentences along with their associated article.
consume(Article, Collection<Sentence>) - Method in class textractor.chain.docstore.DocumentStoreBuilder
Process sentences along with their associated article.
consume(Article, Collection<Sentence>) - Method in class textractor.chain.indexer.Indexer
Process sentences along with their associated article into individual sentences so that the IndexBuilder process can read them properly.
consume(Article, Collection<Sentence>) - Method in class textractor.html.DatabaseTextConsumer
 
consume(Article, Collection<Sentence>, CheckpointCallback) - Method in class textractor.html.DatabaseTextConsumer
 
consume(Article, Collection<Sentence>) - Method in class textractor.html.QueueTextConsumer
Process sentences along with their associated article.
consume(Article, Collection<Sentence>, CheckpointCallback) - Method in class textractor.html.QueueTextConsumer
Process sentences along with their associated article.
consume(Article, Collection<Sentence>) - Method in interface textractor.sentence.SentenceConsumer
Process sentences along with their associated article.
consumer - Variable in class textractor.html.Html2Text2DB
 
CONSUMER - Static variable in class textractor.xml.pubmed.xml.types.OtherAbstractTypeType
The instance of the Consumer type
CONSUMER - Static variable in class textractor.xml.pubmedabstracts.xml.types.OtherAbstractTypeType
The instance of the Consumer type
CONSUMER_TYPE - Static variable in class textractor.xml.pubmed.xml.types.OtherAbstractTypeType
The Consumer type
CONSUMER_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.OtherAbstractTypeType
The Consumer type
containsVowel(String) - Method in class textractor.stemming.UnofficialPorterStemmer
Does string contain a vowel?
content(int) - Method in class textractor.didyoumean.DidYouMeanDocument
 
convert(MutableString, MutableString, MutableString, Map<String, Object>, String) - Method in class textractor.chain.loader.PubmedArticleLoader
"Convert" raw data from pubmed articles into internal textractor representation for further processing.
convert(MutableString, MutableString, MutableString, Map<String, Object>, String) - Method in class textractor.html.PubmedAbstracts2Text2DB
 
convert(MutableString, MutableString, MutableString, Map<String, Object>, String) - Method in interface textractor.parsers.PubmedLoader
"Convert" raw data from pubmed articles into internal textractor representation for further processing.
convert(String, FSMSymbols) - Static method in class textractor.tools.biostems.FSMPrefixSuffix
 
convertDistanceTypeToString(FisherDistanceCalculator.DistanceType) - Static method in class textractor.tools.clustering.FisherDistanceCalculator
 
convertEntryToArticle(DbManager, Entry) - Method in class textractor.html.SwissProtNames2DB
 
convertStringToDistanceType(String) - Static method in class textractor.tools.clustering.FisherDistanceCalculator
 
convertThreeLetterMonthToDigits(MutableString) - Static method in class textractor.util.ICBMutableStringUtils
Take a three letter month and conver it to digits.
convertToTermOccurrence(Map<String, Integer>) - Static method in class textractor.util.ParseOutput
 
copy() - Method in class textractor.didyoumean.DidYouMeanDocumentFactory
 
copy() - Method in class textractor.mg4j.document.ConfigurableTextractorDocumentFactory
Creates a copy of this factory.
copy() - Method in class textractor.mg4j.document.DocStoreDocumentCollection
Make a copy of this DocStoreDocumentCollection.
copy() - Method in class textractor.mg4j.document.SfnDocumentFactory
Creates a copy of this factory.
copy() - Method in class textractor.mg4j.document.TextractorDocumentFactory
Creates a copy of this factory.
copy() - Method in class textractor.mg4j.index.LowercaseTermProcessor
 
copy() - Method in class textractor.mg4j.index.TweaseTermProcessor
 
copy() - Method in class textractor.mg4j.io.ProteinWordSplitterReader
 
copy() - Method in class textractor.mg4j.io.TweaseWordReader2
 
copy() - Method in class textractor.scorers.PubDateScorer
 
copy() - Method in class textractor.tools.TFIDFScorer
 
CopyrightInformation - Class in textractor.xml.pubmed.xml
Class CopyrightInformation.
CopyrightInformation() - Constructor for class textractor.xml.pubmed.xml.CopyrightInformation
 
CopyrightInformation - Class in textractor.xml.pubmedabstracts.xml
Class CopyrightInformation.
CopyrightInformation() - Constructor for class textractor.xml.pubmedabstracts.xml.CopyrightInformation
 
CopyrightInformationDescriptor - Class in textractor.xml.pubmed.xml
Class CopyrightInformationDescriptor.
CopyrightInformationDescriptor() - Constructor for class textractor.xml.pubmed.xml.CopyrightInformationDescriptor
 
CopyrightInformationDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CopyrightInformationDescriptor.
CopyrightInformationDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CopyrightInformationDescriptor
 
CopyrightInformationItem - Class in textractor.xml.pubmed.xml
Class CopyrightInformationItem.
CopyrightInformationItem() - Constructor for class textractor.xml.pubmed.xml.CopyrightInformationItem
 
CopyrightInformationItem - Class in textractor.xml.pubmedabstracts.xml
Class CopyrightInformationItem.
CopyrightInformationItem() - Constructor for class textractor.xml.pubmedabstracts.xml.CopyrightInformationItem
 
CopyrightInformationItemDescriptor - Class in textractor.xml.pubmed.xml
Class CopyrightInformationItemDescriptor.
CopyrightInformationItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.CopyrightInformationItemDescriptor
 
CopyrightInformationItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CopyrightInformationItemDescriptor.
CopyrightInformationItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CopyrightInformationItemDescriptor
 
count - Variable in class textractor.database.TextractorDBDocumentIterator
 
CountNGramOccurences - Class in textractor.tools
A tool to count how many times n grams listed in a file occur in the corpus.
CountNGramOccurences() - Constructor for class textractor.tools.CountNGramOccurences
 
Country - Class in textractor.xml.pubmed.xml
Class Country.
Country() - Constructor for class textractor.xml.pubmed.xml.Country
 
Country - Class in textractor.xml.pubmedabstracts.xml
Class Country.
Country() - Constructor for class textractor.xml.pubmedabstracts.xml.Country
 
CountryDescriptor - Class in textractor.xml.pubmed.xml
Class CountryDescriptor.
CountryDescriptor() - Constructor for class textractor.xml.pubmed.xml.CountryDescriptor
 
CountryDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CountryDescriptor.
CountryDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CountryDescriptor
 
CountryItem - Class in textractor.xml.pubmed.xml
Class CountryItem.
CountryItem() - Constructor for class textractor.xml.pubmed.xml.CountryItem
 
CountryItem - Class in textractor.xml.pubmedabstracts.xml
Class CountryItem.
CountryItem() - Constructor for class textractor.xml.pubmedabstracts.xml.CountryItem
 
CountryItemDescriptor - Class in textractor.xml.pubmed.xml
Class CountryItemDescriptor.
CountryItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.CountryItemDescriptor
 
CountryItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CountryItemDescriptor.
CountryItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CountryItemDescriptor
 
CountTissueOccurencesInEntries - Class in textractor.tools.genbank
A tool to count how many different tissues are listed in Genbank entries.
CountTissueOccurencesInEntries() - Constructor for class textractor.tools.genbank.CountTissueOccurencesInEntries
 
Coverage - Class in textractor.xml.pubmed.xml
Class Coverage.
Coverage() - Constructor for class textractor.xml.pubmed.xml.Coverage
 
Coverage - Class in textractor.xml.pubmedabstracts.xml
Class Coverage.
Coverage() - Constructor for class textractor.xml.pubmedabstracts.xml.Coverage
 
CoverageDescriptor - Class in textractor.xml.pubmed.xml
Class CoverageDescriptor.
CoverageDescriptor() - Constructor for class textractor.xml.pubmed.xml.CoverageDescriptor
 
CoverageDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CoverageDescriptor.
CoverageDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CoverageDescriptor
 
CoverageItem - Class in textractor.xml.pubmed.xml
Class CoverageItem.
CoverageItem() - Constructor for class textractor.xml.pubmed.xml.CoverageItem
 
CoverageItem - Class in textractor.xml.pubmedabstracts.xml
Class CoverageItem.
CoverageItem() - Constructor for class textractor.xml.pubmedabstracts.xml.CoverageItem
 
CoverageItemDescriptor - Class in textractor.xml.pubmed.xml
Class CoverageItemDescriptor.
CoverageItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.CoverageItemDescriptor
 
CoverageItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class CoverageItemDescriptor.
CoverageItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.CoverageItemDescriptor
 
CPC - Static variable in class textractor.xml.pubmed.xml.types.OtherIDItemSourceType
The instance of the CPC type
CPC - Static variable in class textractor.xml.pubmedabstracts.xml.types.OtherIDItemSourceType
The instance of the CPC type
CPC_TYPE - Static variable in class textractor.xml.pubmed.xml.types.OtherIDItemSourceType
The CPC type
CPC_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.OtherIDItemSourceType
The CPC type
CPFH - Static variable in class textractor.xml.pubmed.xml.types.OtherIDItemSourceType
The instance of the CPFH type
CPFH - Static variable in class textractor.xml.pubmedabstracts.xml.types.OtherIDItemSourceType
The instance of the CPFH type
CPFH_TYPE - Static variable in class textractor.xml.pubmed.xml.types.OtherIDItemSourceType
The CPFH type
CPFH_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.OtherIDItemSourceType
The CPFH type
createAnnotatedTerm() - Method in class textractor.datamodel.annotation.TextFragmentAnnotation
 
createArticle() - Method in interface textractor.article.ArticleProducer
Creates an article.
createArticle() - Method in class textractor.article.DefaultArticleProducer
Creates a new Article.
createArticle(long, String) - Method in class textractor.chain.loader.PubmedArticleLoader
Create an Article using the given parameters.
createArticle() - Method in class textractor.database.JDOArticleProducer
Create a new persistent Article.
createArticle() - Method in class textractor.database.TextractorManager
Creates an article.
createArticle() - Method in class textractor.html.DatabaseTextConsumer
 
createArticle(long, String) - Method in class textractor.html.PubmedAbstracts2Text2DB
 
createArticle() - Method in class textractor.html.QueueTextConsumer
Creates an article.
createArticle(long, String) - Method in interface textractor.parsers.PubmedLoader
Create an Article using the given parameters.
createDocument(Reference2ObjectMap<Enum<?>, Object>, String) - Method in class textractor.mg4j.document.AbstractTextractorDocumentIterator
 
createDoubleTermAnnotation(int) - Method in class textractor.database.TextractorManager
 
createDummyTextSegment(int) - Method in class textractor.util.HTMLByteLocator
Creates a new dummy TextSegment when there are no entries for a specific topicId.
createFeatureCreationParameters() - Method in class textractor.learning.DoubleBagOfWordExporter
 
createFeatureCreationParameters() - Method in class textractor.learning.SingleBagOfWordExporter
 
createFeatureCreationParameters() - Method in interface textractor.learning.SVMFeatureExporter
Return corresponding type of FeatureCreationParameters.
createFrequencyStorage() - Method in class textractor.mg4j.docstore.TermDocumentFrequencyReader
Create storage for frequency information.
createIndexedTerms(DocumentIndexManager) - Method in interface textractor.datamodel.annotation.AnnotationSource
Instructs this annotation to created indexed terms if they do not already exist.
createIndexedTerms(DocumentIndexManager) - Method in class textractor.datamodel.annotation.ArticleSingleTermAnnotationSource
 
createIndexedTerms(DocumentIndexManager) - Method in class textractor.datamodel.annotation.TextFragmentAnnotation
Instructs this annotation to created indexed terms if they do not already exist.
createNew() - Method in class textractor.tools.BuildDocumentIndex
Factory method.
createNew() - Method in class textractor.tools.BuildDocumentIndexFromDB
 
createNew() - Method in class textractor.tools.BuildDocumentIndexFromDocumentSequence
Factory method.
createNew() - Method in class textractor.tools.BuildDocumentIndexFromHTMLArticles
 
createNewSentence(Article) - Method in class textractor.database.TextractorManager
Creates a sentence.
createOtmiArticle() - Method in class textractor.database.TextractorManager
Creates an OTMI article.
CreateRelationTrainingSet - Class in textractor.learning
 
CreateRelationTrainingSet() - Constructor for class textractor.learning.CreateRelationTrainingSet
 
createSentenceOneDocument(Article, Iterator<MutableString>, String) - Method in class textractor.html.AbstractHtml2Text
 
createSentences(Article, Iterator<PositionedText>) - Method in class textractor.chain.loader.Html2TextArticleLoader
Creates Sentences from an Article.
createSentences(Article, Iterator<PositionedText>) - Method in class textractor.chain.loader.TrecGov2ArticleLoader
Creates Sentences from an Article.
createSentences(Article, Iterator<MutableString>, String) - Method in class textractor.html.AbstractHtml2Text
 
createSingleTermAnnotation(int) - Method in class textractor.database.TextractorManager
 
createSkips(int, int) - Method in class textractor.mg4j.index.IndexerOptions
Call this method to create a skip index.
createTextSegment(int, long, int, float, int, long) - Method in class textractor.util.HTMLByteLocator
Creates a new TextSegment object with the given parameters.
CRFDatasetWriter - Class in textractor.crf
 
CRFDatasetWriter(PrintWriter) - Constructor for class textractor.crf.CRFDatasetWriter
 
CROSS_LINK - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The instance of the cross-link type
CROSS_LINK_TYPE - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The cross-link type
CS - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The instance of the CS type
CS_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The CS type
CURATOR - Static variable in class textractor.xml.uniprot.xml.types.EvidenceTypeCategoryType
The instance of the curator type
CURATOR_TYPE - Static variable in class textractor.xml.uniprot.xml.types.EvidenceTypeCategoryType
The curator type
CURRENT - Static variable in class textractor.xml.pubmed.xml.types.FrequencyItemFrequencyTypeType
The instance of the Current type
CURRENT - Static variable in class textractor.xml.pubmed.xml.types.PlaceItemImprintTypeType
The instance of the Current type
CURRENT - Static variable in class textractor.xml.pubmedabstracts.xml.types.FrequencyItemFrequencyTypeType
The instance of the Current type
CURRENT - Static variable in class textractor.xml.pubmedabstracts.xml.types.PlaceItemImprintTypeType
The instance of the Current type
CURRENT_TYPE - Static variable in class textractor.xml.pubmed.xml.types.FrequencyItemFrequencyTypeType
The Current type
CURRENT_TYPE - Static variable in class textractor.xml.pubmed.xml.types.PlaceItemImprintTypeType
The Current type
CURRENT_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.FrequencyItemFrequencyTypeType
The Current type
CURRENT_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.PlaceItemImprintTypeType
The Current type
currentIteration - Variable in class textractor.chain.loader.AbstractFileLoader
The iteration currently in progress (should start at 1).
currentToken - Variable in exception textractor.parsers.extractor.ParseException
This is the last token that has been consumed successfully.
CYANELLE - Static variable in class textractor.xml.uniprot.xml.types.GeneLocationTypeTypeType
The instance of the cyanelle type
CYANELLE_TYPE - Static variable in class textractor.xml.uniprot.xml.types.GeneLocationTypeTypeType
The cyanelle type

D

DA - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The instance of the DA type
DA_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The DA type
DataBank - Class in textractor.xml.pubmed.xml
Class DataBank.
DataBank() - Constructor for class textractor.xml.pubmed.xml.DataBank
 
DataBank - Class in textractor.xml.pubmedabstracts.xml
Class DataBank.
DataBank() - Constructor for class textractor.xml.pubmedabstracts.xml.DataBank
 
DataBankDescriptor - Class in textractor.xml.pubmed.xml
Class DataBankDescriptor.
DataBankDescriptor() - Constructor for class textractor.xml.pubmed.xml.DataBankDescriptor
 
DataBankDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DataBankDescriptor.
DataBankDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DataBankDescriptor
 
DataBankList - Class in textractor.xml.pubmed.xml
Class DataBankList.
DataBankList() - Constructor for class textractor.xml.pubmed.xml.DataBankList
 
DataBankList - Class in textractor.xml.pubmedabstracts.xml
Class DataBankList.
DataBankList() - Constructor for class textractor.xml.pubmedabstracts.xml.DataBankList
 
DataBankListCompleteYNType - Class in textractor.xml.pubmed.xml.types
Class DataBankListCompleteYNType.
DataBankListCompleteYNType - Class in textractor.xml.pubmedabstracts.xml.types
Class DataBankListCompleteYNType.
DataBankListCompleteYNTypeDescriptor - Class in textractor.xml.pubmed.xml.types
Class DataBankListCompleteYNTypeDescriptor.
DataBankListCompleteYNTypeDescriptor() - Constructor for class textractor.xml.pubmed.xml.types.DataBankListCompleteYNTypeDescriptor
 
DataBankListCompleteYNTypeDescriptor - Class in textractor.xml.pubmedabstracts.xml.types
Class DataBankListCompleteYNTypeDescriptor.
DataBankListCompleteYNTypeDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.types.DataBankListCompleteYNTypeDescriptor
 
DataBankListDescriptor - Class in textractor.xml.pubmed.xml
Class DataBankListDescriptor.
DataBankListDescriptor() - Constructor for class textractor.xml.pubmed.xml.DataBankListDescriptor
 
DataBankListDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DataBankListDescriptor.
DataBankListDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DataBankListDescriptor
 
DataBankName - Class in textractor.xml.pubmed.xml
Class DataBankName.
DataBankName() - Constructor for class textractor.xml.pubmed.xml.DataBankName
 
DataBankName - Class in textractor.xml.pubmedabstracts.xml
Class DataBankName.
DataBankName() - Constructor for class textractor.xml.pubmedabstracts.xml.DataBankName
 
DataBankNameDescriptor - Class in textractor.xml.pubmed.xml
Class DataBankNameDescriptor.
DataBankNameDescriptor() - Constructor for class textractor.xml.pubmed.xml.DataBankNameDescriptor
 
DataBankNameDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DataBankNameDescriptor.
DataBankNameDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DataBankNameDescriptor
 
DataBankNameItem - Class in textractor.xml.pubmed.xml
Class DataBankNameItem.
DataBankNameItem() - Constructor for class textractor.xml.pubmed.xml.DataBankNameItem
 
DataBankNameItem - Class in textractor.xml.pubmedabstracts.xml
Class DataBankNameItem.
DataBankNameItem() - Constructor for class textractor.xml.pubmedabstracts.xml.DataBankNameItem
 
DataBankNameItemDescriptor - Class in textractor.xml.pubmed.xml
Class DataBankNameItemDescriptor.
DataBankNameItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.DataBankNameItemDescriptor
 
DataBankNameItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DataBankNameItemDescriptor.
DataBankNameItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DataBankNameItemDescriptor
 
DatabaseTextConsumer - Class in textractor.html
A consumer that submits text to a database.
DatabaseTextConsumer(DbManager, int) - Constructor for class textractor.html.DatabaseTextConsumer
 
DatasetWriter - Interface in textractor.crf
 
DateCompleted - Class in textractor.xml.pubmed.xml
Class DateCompleted.
DateCompleted() - Constructor for class textractor.xml.pubmed.xml.DateCompleted
 
DateCompleted - Class in textractor.xml.pubmedabstracts.xml
Class DateCompleted.
DateCompleted() - Constructor for class textractor.xml.pubmedabstracts.xml.DateCompleted
 
DateCompletedDescriptor - Class in textractor.xml.pubmed.xml
Class DateCompletedDescriptor.
DateCompletedDescriptor() - Constructor for class textractor.xml.pubmed.xml.DateCompletedDescriptor
 
DateCompletedDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DateCompletedDescriptor.
DateCompletedDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DateCompletedDescriptor
 
DateCompletedSequenceSequence - Class in textractor.xml.pubmed.xml
Class DateCompletedSequenceSequence.
DateCompletedSequenceSequence() - Constructor for class textractor.xml.pubmed.xml.DateCompletedSequenceSequence
 
DateCompletedSequenceSequence - Class in textractor.xml.pubmedabstracts.xml
Class DateCompletedSequenceSequence.
DateCompletedSequenceSequence() - Constructor for class textractor.xml.pubmedabstracts.xml.DateCompletedSequenceSequence
 
DateCompletedSequenceSequenceDescriptor - Class in textractor.xml.pubmed.xml
Class DateCompletedSequenceSequenceDescriptor.
DateCompletedSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmed.xml.DateCompletedSequenceSequenceDescriptor
 
DateCompletedSequenceSequenceDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DateCompletedSequenceSequenceDescriptor.
DateCompletedSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DateCompletedSequenceSequenceDescriptor
 
DateCompletedSequenceSequenceSequence - Class in textractor.xml.pubmed.xml
Class DateCompletedSequenceSequenceSequence.
DateCompletedSequenceSequenceSequence() - Constructor for class textractor.xml.pubmed.xml.DateCompletedSequenceSequenceSequence
 
DateCompletedSequenceSequenceSequence - Class in textractor.xml.pubmedabstracts.xml
Class DateCompletedSequenceSequenceSequence.
DateCompletedSequenceSequenceSequence() - Constructor for class textractor.xml.pubmedabstracts.xml.DateCompletedSequenceSequenceSequence
 
DateCompletedSequenceSequenceSequenceDescriptor - Class in textractor.xml.pubmed.xml
Class DateCompletedSequenceSequenceSequenceDescriptor.
DateCompletedSequenceSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmed.xml.DateCompletedSequenceSequenceSequenceDescriptor
 
DateCompletedSequenceSequenceSequenceDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DateCompletedSequenceSequenceSequenceDescriptor.
DateCompletedSequenceSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DateCompletedSequenceSequenceSequenceDescriptor
 
DateCreated - Class in textractor.xml.pubmed.xml
Class DateCreated.
DateCreated() - Constructor for class textractor.xml.pubmed.xml.DateCreated
 
DateCreated - Class in textractor.xml.pubmedabstracts.xml
Class DateCreated.
DateCreated() - Constructor for class textractor.xml.pubmedabstracts.xml.DateCreated
 
DateCreatedDescriptor - Class in textractor.xml.pubmed.xml
Class DateCreatedDescriptor.
DateCreatedDescriptor() - Constructor for class textractor.xml.pubmed.xml.DateCreatedDescriptor
 
DateCreatedDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DateCreatedDescriptor.
DateCreatedDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DateCreatedDescriptor
 
DateCreatedSequenceSequence - Class in textractor.xml.pubmed.xml
Class DateCreatedSequenceSequence.
DateCreatedSequenceSequence() - Constructor for class textractor.xml.pubmed.xml.DateCreatedSequenceSequence
 
DateCreatedSequenceSequence - Class in textractor.xml.pubmedabstracts.xml
Class DateCreatedSequenceSequence.
DateCreatedSequenceSequence() - Constructor for class textractor.xml.pubmedabstracts.xml.DateCreatedSequenceSequence
 
DateCreatedSequenceSequenceDescriptor - Class in textractor.xml.pubmed.xml
Class DateCreatedSequenceSequenceDescriptor.
DateCreatedSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmed.xml.DateCreatedSequenceSequenceDescriptor
 
DateCreatedSequenceSequenceDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DateCreatedSequenceSequenceDescriptor.
DateCreatedSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DateCreatedSequenceSequenceDescriptor
 
DateCreatedSequenceSequenceSequence - Class in textractor.xml.pubmed.xml
Class DateCreatedSequenceSequenceSequence.
DateCreatedSequenceSequenceSequence() - Constructor for class textractor.xml.pubmed.xml.DateCreatedSequenceSequenceSequence
 
DateCreatedSequenceSequenceSequence - Class in textractor.xml.pubmedabstracts.xml
Class DateCreatedSequenceSequenceSequence.
DateCreatedSequenceSequenceSequence() - Constructor for class textractor.xml.pubmedabstracts.xml.DateCreatedSequenceSequenceSequence
 
DateCreatedSequenceSequenceSequenceDescriptor - Class in textractor.xml.pubmed.xml
Class DateCreatedSequenceSequenceSequenceDescriptor.
DateCreatedSequenceSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmed.xml.DateCreatedSequenceSequenceSequenceDescriptor
 
DateCreatedSequenceSequenceSequenceDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DateCreatedSequenceSequenceSequenceDescriptor.
DateCreatedSequenceSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DateCreatedSequenceSequenceSequenceDescriptor
 
DateIssued - Class in textractor.xml.pubmed.xml
Class DateIssued.
DateIssued() - Constructor for class textractor.xml.pubmed.xml.DateIssued
 
DateIssued - Class in textractor.xml.pubmedabstracts.xml
Class DateIssued.
DateIssued() - Constructor for class textractor.xml.pubmedabstracts.xml.DateIssued
 
DateIssuedDescriptor - Class in textractor.xml.pubmed.xml
Class DateIssuedDescriptor.
DateIssuedDescriptor() - Constructor for class textractor.xml.pubmed.xml.DateIssuedDescriptor
 
DateIssuedDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DateIssuedDescriptor.
DateIssuedDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DateIssuedDescriptor
 
DateIssuedItem - Class in textractor.xml.pubmed.xml
Class DateIssuedItem.
DateIssuedItem() - Constructor for class textractor.xml.pubmed.xml.DateIssuedItem
 
DateIssuedItem - Class in textractor.xml.pubmedabstracts.xml
Class DateIssuedItem.
DateIssuedItem() - Constructor for class textractor.xml.pubmedabstracts.xml.DateIssuedItem
 
DateIssuedItemDescriptor - Class in textractor.xml.pubmed.xml
Class DateIssuedItemDescriptor.
DateIssuedItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.DateIssuedItemDescriptor
 
DateIssuedItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DateIssuedItemDescriptor.
DateIssuedItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DateIssuedItemDescriptor
 
DateRevised - Class in textractor.xml.pubmed.xml
Class DateRevised.
DateRevised() - Constructor for class textractor.xml.pubmed.xml.DateRevised
 
DateRevised - Class in textractor.xml.pubmedabstracts.xml
Class DateRevised.
DateRevised() - Constructor for class textractor.xml.pubmedabstracts.xml.DateRevised
 
DateRevisedDescriptor - Class in textractor.xml.pubmed.xml
Class DateRevisedDescriptor.
DateRevisedDescriptor() - Constructor for class textractor.xml.pubmed.xml.DateRevisedDescriptor
 
DateRevisedDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DateRevisedDescriptor.
DateRevisedDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DateRevisedDescriptor
 
DateRevisedSequenceSequence - Class in textractor.xml.pubmed.xml
Class DateRevisedSequenceSequence.
DateRevisedSequenceSequence() - Constructor for class textractor.xml.pubmed.xml.DateRevisedSequenceSequence
 
DateRevisedSequenceSequence - Class in textractor.xml.pubmedabstracts.xml
Class DateRevisedSequenceSequence.
DateRevisedSequenceSequence() - Constructor for class textractor.xml.pubmedabstracts.xml.DateRevisedSequenceSequence
 
DateRevisedSequenceSequenceDescriptor - Class in textractor.xml.pubmed.xml
Class DateRevisedSequenceSequenceDescriptor.
DateRevisedSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmed.xml.DateRevisedSequenceSequenceDescriptor
 
DateRevisedSequenceSequenceDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DateRevisedSequenceSequenceDescriptor.
DateRevisedSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DateRevisedSequenceSequenceDescriptor
 
DateRevisedSequenceSequenceSequence - Class in textractor.xml.pubmed.xml
Class DateRevisedSequenceSequenceSequence.
DateRevisedSequenceSequenceSequence() - Constructor for class textractor.xml.pubmed.xml.DateRevisedSequenceSequenceSequence
 
DateRevisedSequenceSequenceSequence - Class in textractor.xml.pubmedabstracts.xml
Class DateRevisedSequenceSequenceSequence.
DateRevisedSequenceSequenceSequence() - Constructor for class textractor.xml.pubmedabstracts.xml.DateRevisedSequenceSequenceSequence
 
DateRevisedSequenceSequenceSequenceDescriptor - Class in textractor.xml.pubmed.xml
Class DateRevisedSequenceSequenceSequenceDescriptor.
DateRevisedSequenceSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmed.xml.DateRevisedSequenceSequenceSequenceDescriptor
 
DateRevisedSequenceSequenceSequenceDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DateRevisedSequenceSequenceSequenceDescriptor.
DateRevisedSequenceSequenceSequenceDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DateRevisedSequenceSequenceSequenceDescriptor
 
DatesAssociatedWithName - Class in textractor.xml.pubmed.xml
Class DatesAssociatedWithName.
DatesAssociatedWithName() - Constructor for class textractor.xml.pubmed.xml.DatesAssociatedWithName
 
DatesAssociatedWithName - Class in textractor.xml.pubmedabstracts.xml
Class DatesAssociatedWithName.
DatesAssociatedWithName() - Constructor for class textractor.xml.pubmedabstracts.xml.DatesAssociatedWithName
 
DatesAssociatedWithNameDescriptor - Class in textractor.xml.pubmed.xml
Class DatesAssociatedWithNameDescriptor.
DatesAssociatedWithNameDescriptor() - Constructor for class textractor.xml.pubmed.xml.DatesAssociatedWithNameDescriptor
 
DatesAssociatedWithNameDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DatesAssociatedWithNameDescriptor.
DatesAssociatedWithNameDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DatesAssociatedWithNameDescriptor
 
DatesAssociatedWithNameItem - Class in textractor.xml.pubmed.xml
Class DatesAssociatedWithNameItem.
DatesAssociatedWithNameItem() - Constructor for class textractor.xml.pubmed.xml.DatesAssociatedWithNameItem
 
DatesAssociatedWithNameItem - Class in textractor.xml.pubmedabstracts.xml
Class DatesAssociatedWithNameItem.
DatesAssociatedWithNameItem() - Constructor for class textractor.xml.pubmedabstracts.xml.DatesAssociatedWithNameItem
 
DatesAssociatedWithNameItemDescriptor - Class in textractor.xml.pubmed.xml
Class DatesAssociatedWithNameItemDescriptor.
DatesAssociatedWithNameItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.DatesAssociatedWithNameItemDescriptor
 
DatesAssociatedWithNameItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DatesAssociatedWithNameItemDescriptor.
DatesAssociatedWithNameItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DatesAssociatedWithNameItemDescriptor
 
DatesOfSerialPublication - Class in textractor.xml.pubmed.xml
Class DatesOfSerialPublication.
DatesOfSerialPublication() - Constructor for class textractor.xml.pubmed.xml.DatesOfSerialPublication
 
DatesOfSerialPublication - Class in textractor.xml.pubmedabstracts.xml
Class DatesOfSerialPublication.
DatesOfSerialPublication() - Constructor for class textractor.xml.pubmedabstracts.xml.DatesOfSerialPublication
 
DatesOfSerialPublicationDescriptor - Class in textractor.xml.pubmed.xml
Class DatesOfSerialPublicationDescriptor.
DatesOfSerialPublicationDescriptor() - Constructor for class textractor.xml.pubmed.xml.DatesOfSerialPublicationDescriptor
 
DatesOfSerialPublicationDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DatesOfSerialPublicationDescriptor.
DatesOfSerialPublicationDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DatesOfSerialPublicationDescriptor
 
DatesOfSerialPublicationItem - Class in textractor.xml.pubmed.xml
Class DatesOfSerialPublicationItem.
DatesOfSerialPublicationItem() - Constructor for class textractor.xml.pubmed.xml.DatesOfSerialPublicationItem
 
DatesOfSerialPublicationItem - Class in textractor.xml.pubmedabstracts.xml
Class DatesOfSerialPublicationItem.
DatesOfSerialPublicationItem() - Constructor for class textractor.xml.pubmedabstracts.xml.DatesOfSerialPublicationItem
 
DatesOfSerialPublicationItemDescriptor - Class in textractor.xml.pubmed.xml
Class DatesOfSerialPublicationItemDescriptor.
DatesOfSerialPublicationItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.DatesOfSerialPublicationItemDescriptor
 
DatesOfSerialPublicationItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DatesOfSerialPublicationItemDescriptor.
DatesOfSerialPublicationItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DatesOfSerialPublicationItemDescriptor
 
Day - Class in textractor.xml.pubmed.xml
Class Day.
Day() - Constructor for class textractor.xml.pubmed.xml.Day
 
Day - Class in textractor.xml.pubmedabstracts.xml
Class Day.
Day() - Constructor for class textractor.xml.pubmedabstracts.xml.Day
 
DayDescriptor - Class in textractor.xml.pubmed.xml
Class DayDescriptor.
DayDescriptor() - Constructor for class textractor.xml.pubmed.xml.DayDescriptor
 
DayDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DayDescriptor.
DayDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DayDescriptor
 
DayItem - Class in textractor.xml.pubmed.xml
Class DayItem.
DayItem() - Constructor for class textractor.xml.pubmed.xml.DayItem
 
DayItem - Class in textractor.xml.pubmedabstracts.xml
Class DayItem.
DayItem() - Constructor for class textractor.xml.pubmedabstracts.xml.DayItem
 
DayItemDescriptor - Class in textractor.xml.pubmed.xml
Class DayItemDescriptor.
DayItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.DayItemDescriptor
 
DayItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DayItemDescriptor.
DayItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DayItemDescriptor
 
DBIndexerOptions - Class in textractor.mg4j.index
Created by IntelliJ IDEA.
DBIndexerOptions() - Constructor for class textractor.mg4j.index.DBIndexerOptions
 
dbm - Variable in class textractor.database.TextractorDBDocumentIterator
 
dbm - Variable in class textractor.database.TextractorDBDocumentSequence
 
dbm - Variable in class textractor.mg4j.index.DBIndexerOptions
 
dbm() - Method in class textractor.tools.BuildDocumentIndexFromDB
 
dbm - Variable in class textractor.tools.io.ExportImport
 
DbManager - Class in textractor.database
Central point for database access in the system.
DbManager() - Constructor for class textractor.database.DbManager
Creates a nwe DbManager in the web application context.
DbManager(String) - Constructor for class textractor.database.DbManager
Creates a nwe DbManager in the web application context.
DbManager(String[]) - Constructor for class textractor.database.DbManager
Class Constructor.
dbManager - Variable in class textractor.database.JDOSentenceProducer
Database manager to produce with.
DbReference - Class in textractor.xml.uniprot.xml
Class DbReference.
DbReference() - Constructor for class textractor.xml.uniprot.xml.DbReference
 
DbReferenceDescriptor - Class in textractor.xml.uniprot.xml
Class DbReferenceDescriptor.
DbReferenceDescriptor() - Constructor for class textractor.xml.uniprot.xml.DbReferenceDescriptor
 
DbReferenceType - Class in textractor.xml.uniprot.xml
Database cross-references, equivalent to the flatfile format's DR line.
DbReferenceType() - Constructor for class textractor.xml.uniprot.xml.DbReferenceType
 
DbReferenceTypeDescriptor - Class in textractor.xml.uniprot.xml
Class DbReferenceTypeDescriptor.
DbReferenceTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.DbReferenceTypeDescriptor
 
DE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The instance of the DE type
DE_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The DE type
DEFAULT_DICTIONARY - Static variable in class textractor.tools.lookup.Dictionary
 
DEFAULT_FIELD_TYPE - Static variable in class textractor.mg4j.document.ConfigurableTextractorDocumentFactory
Default value for field type supported by this factory.
DEFAULT_JDO_EXTENSION_CLASS - Static variable in class textractor.database.TextractorDatabaseConstants
Default Jdo extension class to use if none was specified.
DEFAULT_MAXIMUM_LENGTH_CONSERVE_CASE - Static variable in class textractor.mg4j.document.AbstractTextractorDocumentFactory
The maximum number of characters in a term that guarantee that the term is not downcased.
DEFAULT_MINIMUM_DASH_SPLIT_LENGTH - Static variable in class textractor.mg4j.document.AbstractTextractorDocumentFactory
Default miniumm index at which a word can be split.
DEFAULT_OTHER_CHARACTER_DELIMITERS - Static variable in class textractor.mg4j.document.AbstractTextractorDocumentFactory
Default character delimiters to match Twease behaviour.
DEFAULT_PROPERTY_FILE_SUFFIX - Static variable in class textractor.database.DocumentIndexManager
Default property filename used with a basename if not provided.
DEFAULT_TERM_SUFFIX - Static variable in class textractor.database.DocumentIndexManager
Default term suffix used with a basename if not provided.
DEFAULT_WORD_READER_CLASS - Static variable in class textractor.mg4j.document.AbstractTextractorDocumentFactory
Default value for the word reader class supported by this factory.
DefaultArticleProducer - Class in textractor.article
A simple ArticleProducer that produces empty articles in memory.
DefaultArticleProducer() - Constructor for class textractor.article.DefaultArticleProducer
Create a new ArticleProducer.
defaultReturnValue() - Method in class textractor.tools.Features
 
DefaultSentenceSplitter - Class in textractor.tools
Splits text into sentences.
DefaultSentenceSplitter() - Constructor for class textractor.tools.DefaultSentenceSplitter
Create a new Sentence Splitter.
delete(Object) - Method in class textractor.database.DbManager
Deletes an object from the database.
deleteAll(Collection) - Method in class textractor.database.DbManager
 
deleteArticle(Article) - Method in class textractor.database.TextractorManager
Delete an article with all its sentences.
DeleteCitation - Class in textractor.xml.pubmed.xml
Class DeleteCitation.
DeleteCitation() - Constructor for class textractor.xml.pubmed.xml.DeleteCitation
 
DeleteCitation - Class in textractor.xml.pubmedabstracts.xml
Class DeleteCitation.
DeleteCitation() - Constructor for class textractor.xml.pubmedabstracts.xml.DeleteCitation
 
DeleteCitationDescriptor - Class in textractor.xml.pubmed.xml
Class DeleteCitationDescriptor.
DeleteCitationDescriptor() - Constructor for class textractor.xml.pubmed.xml.DeleteCitationDescriptor
 
DeleteCitationDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DeleteCitationDescriptor.
DeleteCitationDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DeleteCitationDescriptor
 
deleteExperiments() - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence4
 
deleteFrequency() - Method in class textractor.acronyms.xml.Expansion
 
deleteFrequency() - Method in class textractor.acronyms.xml.ShortForm
 
deleteLength() - Method in class textractor.xml.uniprot.xml.Sequence
 
deleteMass() - Method in class textractor.xml.uniprot.xml.CommentType
 
deleteMass() - Method in class textractor.xml.uniprot.xml.Sequence
 
deleteNamedIsoforms() - Method in class textractor.xml.uniprot.xml.EventType
 
deleteOrganismsDiffer() - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence4
 
deletePmid() - Method in class textractor.xml.yapex.xml.Abstract
Method deletePmid
deletePosition() - Method in class textractor.xml.uniprot.xml.PositionType
 
deleteTerm(String) - Method in class textractor.database.DocumentTermPositions
 
deriveOutputFilename(String) - Method in class textractor.util.ProcessDirectory
 
DESCRIBED - Static variable in class textractor.xml.uniprot.xml.types.IsequenceTypeType
The instance of the described type
DESCRIBED_TYPE - Static variable in class textractor.xml.uniprot.xml.types.IsequenceTypeType
The described type
DescriptorName - Class in textractor.xml.pubmed.xml
Class DescriptorName.
DescriptorName() - Constructor for class textractor.xml.pubmed.xml.DescriptorName
 
DescriptorName - Class in textractor.xml.pubmedabstracts.xml
Class DescriptorName.
DescriptorName() - Constructor for class textractor.xml.pubmedabstracts.xml.DescriptorName
 
DescriptorNameDescriptor - Class in textractor.xml.pubmed.xml
Class DescriptorNameDescriptor.
DescriptorNameDescriptor() - Constructor for class textractor.xml.pubmed.xml.DescriptorNameDescriptor
 
DescriptorNameDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DescriptorNameDescriptor.
DescriptorNameDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DescriptorNameDescriptor
 
DescriptorNameItem - Class in textractor.xml.pubmed.xml
Class DescriptorNameItem.
DescriptorNameItem() - Constructor for class textractor.xml.pubmed.xml.DescriptorNameItem
 
DescriptorNameItem - Class in textractor.xml.pubmedabstracts.xml
Class DescriptorNameItem.
DescriptorNameItem() - Constructor for class textractor.xml.pubmedabstracts.xml.DescriptorNameItem
 
DescriptorNameItemDescriptor - Class in textractor.xml.pubmed.xml
Class DescriptorNameItemDescriptor.
DescriptorNameItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.DescriptorNameItemDescriptor
 
DescriptorNameItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class DescriptorNameItemDescriptor.
DescriptorNameItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.DescriptorNameItemDescriptor
 
DescriptorNameItemMajorTopicYNType - Class in textractor.xml.pubmed.xml.types
Class DescriptorNameItemMajorTopicYNType.
DescriptorNameItemMajorTopicYNType - Class in textractor.xml.pubmedabstracts.xml.types
Class DescriptorNameItemMajorTopicYNType.
DescriptorNameItemMajorTopicYNTypeDescriptor - Class in textractor.xml.pubmed.xml.types
Class DescriptorNameItemMajorTopicYNTypeDescriptor.
DescriptorNameItemMajorTopicYNTypeDescriptor() - Constructor for class textractor.xml.pubmed.xml.types.DescriptorNameItemMajorTopicYNTypeDescriptor
 
DescriptorNameItemMajorTopicYNTypeDescriptor - Class in textractor.xml.pubmedabstracts.xml.types
Class DescriptorNameItemMajorTopicYNTypeDescriptor.
DescriptorNameItemMajorTopicYNTypeDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.types.DescriptorNameItemMajorTopicYNTypeDescriptor
 
DEVELOPMENTAL_STAGE - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The instance of the developmental stage type
DEVELOPMENTAL_STAGE_TYPE - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The developmental stage type
dictionary - Variable in class textractor.tools.lookup.AbstractLookupProteinname
Dictionary used to lookup terms.
Dictionary - Class in textractor.tools.lookup
Look up each term in the dictionay in the indexed terms.
Dictionary(String, boolean, boolean) - Constructor for class textractor.tools.lookup.Dictionary
 
DICTIONARY_DIRECTORY - Static variable in class textractor.tools.lookup.AbstractLookupProteinname
Default directory name for the dictionary.
DidYouMean - Class in textractor.didyoumean
DidYouMean class for suggesting new search terms, a la 'Did You Mean' on Google.com.
DidYouMean(DocumentIndexManager) - Constructor for class textractor.didyoumean.DidYouMean
Initialize the DidYouMean engine.
DidYouMeanDocument - Class in textractor.didyoumean
User: campagne Date: Nov 8, 2005 Time: 3:23:18 PM
DidYouMeanDocument(CharSequence) - Constructor for class textractor.didyoumean.DidYouMeanDocument
 
DidYouMeanDocumentFactory - Class in textractor.didyoumean
User: campagne Date: Nov 8, 2005 Time: 3:11:43 PM
DidYouMeanDocumentFactory() - Constructor for class textractor.didyoumean.DidYouMeanDocumentFactory
 
DidYouMeanDocumentSequence - Class in textractor.didyoumean
User: campagne Date: Nov 8, 2005 Time: 3:05:52 PM
DidYouMeanDocumentSequence(DocumentIndexManager, int) - Constructor for class textractor.didyoumean.DidYouMeanDocumentSequence
 
DidYouMeanFieldDescriptor - Class in textractor.didyoumean
Describes a Did You Mean field.
DidYouMeanFieldDescriptor(String, int, double) - Constructor for class textractor.didyoumean.DidYouMeanFieldDescriptor
 
DidYouMeanI - Interface in textractor.didyoumean
Created by IntelliJ IDEA.
DidYouMeanIndexer - Class in textractor.didyoumean
User: campagne Date: Nov 8, 2005 Time: 2:47:33 PM
DidYouMeanIndexer(DocumentIndexManager) - Constructor for class textractor.didyoumean.DidYouMeanIndexer
 
DidYouMeanQueryEngine - Class in textractor.didyoumean
Class to process queries with multiple fields.
DidYouMeanQueryEngine(QueryParser, Reference2DoubleMap<Index>, Object2ReferenceMap<String, Index>) - Constructor for class textractor.didyoumean.DidYouMeanQueryEngine
 
disable_tracing() - Method in class textractor.parsers.extractor.ExtractionEngine
 
disease() - Method in class textractor.parsers.extractor.ExtractionEngine
 
DISEASE - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The instance of the disease type
DISEASE_TYPE - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The disease type
DISEASES - Static variable in interface textractor.parsers.extractor.ExtractionEngineConstants
 
diseasesE_g(List<String>) - Method in class textractor.parsers.extractor.ExtractionEngine
 
diseasesSuchAs(List<String>) - Method in class textractor.parsers.extractor.ExtractionEngine
 
DisplayData - Class in textractor.tools
Displays textractor data for articles & sentences to the console.
DisplayData(String[]) - Constructor for class textractor.tools.DisplayData
 
DISPLAYED - Static variable in class textractor.xml.uniprot.xml.types.IsequenceTypeType
The instance of the displayed type
DISPLAYED_TYPE - Static variable in class textractor.xml.uniprot.xml.types.IsequenceTypeType
The displayed type
dispose() - Method in class textractor.tools.QueryResultDocumentIterator
 
distance(int[], int, int) - Method in class textractor.tools.clustering.FisherDistanceCalculator
Returns the distance between an instance and the instances in a cluster.
distance(int, int) - Method in class textractor.tools.clustering.FisherDistanceCalculator
 
distanceFisherClusterToPoint(int[], int, int) - Method in class textractor.tools.clustering.FisherDistanceCalculator
 
DISULFIDE_BOND - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The instance of the disulfide bond type
DISULFIDE_BOND_TYPE - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The disulfide bond type
DNA_BINDING_REGION - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The instance of the DNA-binding region type
DNA_BINDING_REGION_TYPE - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The DNA-binding region type
docmanager - Variable in class textractor.learning.BagOfWordExporter
 
docManager - Variable in class textractor.query.clustering.TermDependencyCalculator
 
docManager - Variable in class textractor.tools.io.ExportImport
 
docManager - Variable in class textractor.tools.lookup.AbstractLookupProteinname
Document manager used to lookup terms.
DocStore2TfIdf - Class in textractor.tools.docstore
Created by IntelliJ IDEA.
DocStore2TfIdf() - Constructor for class textractor.tools.docstore.DocStore2TfIdf
 
DocStoreDocumentCollection - Class in textractor.mg4j.document
The DocStore document collection for all TEXT indicies.
DocStoreDocumentCollection(DocumentIndexManager) - Constructor for class textractor.mg4j.document.DocStoreDocumentCollection
Creates a document collection based on the documents in the document store associated to a full text index.
document(int) - Method in class textractor.mg4j.docstore.DocumentStoreReader
Retrieves a document from this document store.
document(int, MutableString) - Method in class textractor.mg4j.docstore.DocumentStoreReader
Retrieves a document from this document store.
document(int, List<Integer>) - Method in class textractor.mg4j.docstore.DocumentStoreReader
Retrieves a document from this document store.
document(int) - Method in class textractor.mg4j.document.DocStoreDocumentCollection
Obtain the Document for document number index within the "text" index.
document(String, int) - Method in class textractor.mg4j.document.DocStoreDocumentCollection
Obtain the Document for document number index within the indexAlias index.
document() - Method in class textractor.tools.QueryResultDocumentIterator
 
DOCUMENT_NOT_FOUND - Static variable in class textractor.mg4j.docstore.DocumentStoreReader
 
DOCUMENT_NOT_FOUND - Static variable in class textractor.mg4j.docstore.DocumentStoreWriter
 
DOCUMENT_SEPARATOR - Static variable in class textractor.chain.indexer.Indexer
 
DOCUMENT_SEPARATOR - Static variable in class textractor.tools.BuildDocumentIndex
 
DOCUMENT_SEPARATOR_CHAR_ARRAY - Static variable in class textractor.tools.BuildDocumentIndex
 
DOCUMENT_SEPARATOR_UNICODE - Static variable in class textractor.tools.BuildDocumentIndex
 
DocumentIndexManager - Class in textractor.database
The manager provides access to the inverted index files created by MG4J for a specific document collection.
DocumentIndexManager(String) - Constructor for class textractor.database.DocumentIndexManager
Initializes the DocumentIndexManager using the basename with a default term suffix and property file suffix.
DocumentIndexManager(TextractorWordReader, TermProcessor) - Constructor for class textractor.database.DocumentIndexManager
Initialize this document index manager for text splitting only.
documentNoContent(int) - Method in class textractor.mg4j.document.DocStoreDocumentCollection
Obtain the Document for document number index within the "text" index, but do not retrieve the document content.
documentNoContent(String, int) - Method in class textractor.mg4j.document.DocStoreDocumentCollection
Obtain the Document for document number index within the indexAlias index, but do not retrieve the document content.
documentNumber - Variable in class textractor.datamodel.TextractorDocument
By design, this number exactly match the document number in the MG4J full text index.
documentNumberRangeLength - Variable in class textractor.datamodel.ArticleInfo
 
documentNumberRangeStart - Variable in class textractor.datamodel.ArticleInfo
 
DocumentQueryResult - Class in textractor.tools
Keeps track of the results of a document query.
DocumentQueryResult(ReferenceSet<Index>) - Constructor for class textractor.tools.DocumentQueryResult
 
DocumentQueryResult(DocumentIterator) - Constructor for class textractor.tools.DocumentQueryResult
 
documents - Variable in class textractor.database.TermDocumentPositions
store function from document number to document index in table positions.
documentSequence(TextractorDocumentFactory) - Method in class textractor.tools.BuildDocumentIndex
 
documentSequence(TextractorDocumentFactory) - Method in class textractor.tools.BuildDocumentIndexFromDB
 
documentSequence(TextractorDocumentFactory) - Method in class textractor.tools.BuildDocumentIndexFromDocumentSequence
 
documentSequence(TextractorDocumentFactory) - Method in class textractor.tools.BuildDocumentIndexFromHTMLArticles
 
DocumentStoreBuilder - Class in textractor.chain.docstore
A Command that builds a DocumentStore.
DocumentStoreBuilder() - Constructor for class textractor.chain.docstore.DocumentStoreBuilder
Create a new Command to build a Document Store.
DocumentStoreConsistencyChecker - Class in textractor.mg4j.docstore
 
DocumentStoreConsistencyChecker(DocumentIndexManager) - Constructor for class textractor.mg4j.docstore.DocumentStoreConsistencyChecker
 
DocumentStoreReader - Class in textractor.mg4j.docstore
Access a DocumentStore on disk.
DocumentStoreReader(DocumentIndexManager) - Constructor for class textractor.mg4j.docstore.DocumentStoreReader
Initialize a document store reader for the "text" index.
DocumentStoreReader(IndexDetails, boolean) - Constructor for class textractor.mg4j.docstore.DocumentStoreReader
Initialize a document store reader for the inex specified by indexDetailsVal.
DocumentStoreReader(IndexDetails, int, boolean) - Constructor for class textractor.mg4j.docstore.DocumentStoreReader
Initialize a document store reader for the inex specified by indexDetailsVal.
DocumentStoreWriter - Class in textractor.mg4j.docstore
Provides for writing a document store.
DocumentStoreWriter(DocumentIndexManager) - Constructor for class textractor.mg4j.docstore.DocumentStoreWriter
Initialize a document store writer for the "text" index.
DocumentStoreWriter(IndexDetails, boolean, boolean) - Constructor for class textractor.mg4j.docstore.DocumentStoreWriter
Initialize a document store writer.
DocumentTermPositions - Class in textractor.database
In parallel to TermDocumentPositions, indexed by document

Created by IntelliJ IDEA.

DocumentTermPositions() - Constructor for class textractor.database.DocumentTermPositions
 
DocumentTermPositions(int) - Constructor for class textractor.database.DocumentTermPositions
 
DocumentTokenManager - Class in textractor.parsers.extractor
Translates a textractor document (coded as an int[]) into a stream of tokens for JavaCC parsers.
DocumentTokenManager(int[], DocumentIndexManager) - Constructor for class textractor.parsers.extractor.DocumentTokenManager
Initialize with a new document.
DocumentTokenManager(int[], DocumentIndexManager, int) - Constructor for class textractor.parsers.extractor.DocumentTokenManager
Initialize with a new document and a starting position in the document.
DocumentTokenManager(int[], DocumentIndexManager, int, int) - Constructor for class textractor.parsers.extractor.DocumentTokenManager
Initialize with a new document and a starting position in the document.
doi(int) - Method in class textractor.mg4j.document.DocStoreDocumentCollection
Obtain the DOI for document number index within the "text" index.
DOI - Static variable in class textractor.xml.pubmedabstracts.xml.types.ArticleIdItemIdTypeType
The instance of the doi type
DOI_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.ArticleIdItemIdTypeType
The doi type
Domain - Class in textractor.xml.uniprot.xml
The domain list is equivalent to the INCLUDES section of the DE line.
Domain() - Constructor for class textractor.xml.uniprot.xml.Domain
 
DOMAIN - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The instance of the domain type
DOMAIN - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The instance of the domain type
DOMAIN_TYPE - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The domain type
DOMAIN_TYPE - Static variable in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
The domain type
DomainDescriptor - Class in textractor.xml.uniprot.xml
Class DomainDescriptor.
DomainDescriptor() - Constructor for class textractor.xml.uniprot.xml.DomainDescriptor
 
DoubleBagOfWordExporter - Class in textractor.learning
Created by IntelliJ IDEA.
DoubleBagOfWordExporter(DocumentIndexManager) - Constructor for class textractor.learning.DoubleBagOfWordExporter
 
DoubleBagOfWordFeatureCreationParameters - Class in textractor.datamodel
Created by IntelliJ IDEA.
DoubleBagOfWordFeatureCreationParameters() - Constructor for class textractor.datamodel.DoubleBagOfWordFeatureCreationParameters
 
DoubleTermAnnotation - Class in textractor.datamodel.annotation
Stores two annotations about a text fragment.
DoubleTermAnnotation() - Constructor for class textractor.datamodel.annotation.DoubleTermAnnotation
Creates a new Double Term Annotation.
DoubleTermAnnotation(int, int) - Constructor for class textractor.datamodel.annotation.DoubleTermAnnotation
 
dumpStore(int) - Method in class textractor.caseInsensitive.CaseInsensitiveStore
Dump a textual version of the store to System.out.

E

echoBasicStatistics() - Method in class textractor.tools.expansion.ExpansionAnalyser
 
Edition - Class in textractor.xml.pubmed.xml
Class Edition.
Edition() - Constructor for class textractor.xml.pubmed.xml.Edition
 
Edition - Class in textractor.xml.pubmedabstracts.xml
Class Edition.
Edition() - Constructor for class textractor.xml.pubmedabstracts.xml.Edition
 
EditionDescriptor - Class in textractor.xml.pubmed.xml
Class EditionDescriptor.
EditionDescriptor() - Constructor for class textractor.xml.pubmed.xml.EditionDescriptor
 
EditionDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class EditionDescriptor.
EditionDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.EditionDescriptor
 
EditionItem - Class in textractor.xml.pubmed.xml
Class EditionItem.
EditionItem() - Constructor for class textractor.xml.pubmed.xml.EditionItem
 
EditionItem - Class in textractor.xml.pubmedabstracts.xml
Class EditionItem.
EditionItem() - Constructor for class textractor.xml.pubmedabstracts.xml.EditionItem
 
EditionItemDescriptor - Class in textractor.xml.pubmed.xml
Class EditionItemDescriptor.
EditionItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.EditionItemDescriptor
 
EditionItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class EditionItemDescriptor.
EditionItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.EditionItemDescriptor
 
EditorList - Class in textractor.xml.uniprot.xml
The editors of a book.
EditorList() - Constructor for class textractor.xml.uniprot.xml.EditorList
 
EditorListDescriptor - Class in textractor.xml.uniprot.xml
Class EditorListDescriptor.
EditorListDescriptor() - Constructor for class textractor.xml.uniprot.xml.EditorListDescriptor
 
EL - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The instance of the EL type
EL_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The EL type
ELECTRONIC - Static variable in class textractor.xml.pubmed.xml.types.ArticlePubModelType
The instance of the Electronic type
ELECTRONIC - Static variable in class textractor.xml.pubmedabstracts.xml.types.ArticlePubModelType
The instance of the Electronic type
ELECTRONIC_PRINT - Static variable in class textractor.xml.pubmed.xml.types.ArticlePubModelType
The instance of the Electronic-Print type
ELECTRONIC_PRINT - Static variable in class textractor.xml.pubmedabstracts.xml.types.ArticlePubModelType
The instance of the Electronic-Print type
ELECTRONIC_PRINT_TYPE - Static variable in class textractor.xml.pubmed.xml.types.ArticlePubModelType
The Electronic-Print type
ELECTRONIC_PRINT_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.ArticlePubModelType
The Electronic-Print type
ELECTRONIC_TYPE - Static variable in class textractor.xml.pubmed.xml.types.ArticlePubModelType
The Electronic type
ELECTRONIC_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.ArticlePubModelType
The Electronic type
ElectronicPubDate - Class in textractor.xml.pubmed.xml
Class ElectronicPubDate.
ElectronicPubDate() - Constructor for class textractor.xml.pubmed.xml.ElectronicPubDate
 
ElectronicPubDateDescriptor - Class in textractor.xml.pubmed.xml
Class ElectronicPubDateDescriptor.
ElectronicPubDateDescriptor() - Constructor for class textractor.xml.pubmed.xml.ElectronicPubDateDescriptor
 
ElectronicPubDateOfficialDateYNType - Class in textractor.xml.pubmed.xml.types
Class ElectronicPubDateOfficialDateYNType.
ElectronicPubDateOfficialDateYNTypeDescriptor - Class in textractor.xml.pubmed.xml.types
Class ElectronicPubDateOfficialDateYNTypeDescriptor.
ElectronicPubDateOfficialDateYNTypeDescriptor() - Constructor for class textractor.xml.pubmed.xml.types.ElectronicPubDateOfficialDateYNTypeDescriptor
 
element - Variable in class textractor.chain.loader.XmlElement
 
elementText - Variable in class textractor.chain.loader.XmlElement
 
EMPTY_MUTABLE_STRING - Static variable in class textractor.datamodel.Author
An empty mutable string.
EMPTY_PUBLICATION_DATE - Static variable in class textractor.TextractorConstants
 
EN - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The instance of the EN type
EN_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The EN type
enable_tracing() - Method in class textractor.parsers.extractor.ExtractionEngine
 
end() - Method in class textractor.database.JDOArticleProducer
End the interaction with this processor.
end() - Method in class textractor.database.JDOSentenceProducer
 
end() - Method in class textractor.html.DatabaseTextConsumer
End the interaction with this processor.
end() - Method in class textractor.html.QueueTextConsumer
End the interaction with this processor.
end() - Method in interface textractor.TransactionalProcessor
End the interaction with this processor.
End - Class in textractor.xml.uniprot.xml
Class End.
End() - Constructor for class textractor.xml.uniprot.xml.End
 
endColumn - Variable in class textractor.parsers.extractor.Token
beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
EndDescriptor - Class in textractor.xml.uniprot.xml
Class EndDescriptor.
EndDescriptor() - Constructor for class textractor.xml.uniprot.xml.EndDescriptor
 
endDocument() - Method in class textractor.chain.loader.SimplifiedDefaultCallback
 
endDocument() - Method in class textractor.parsers.PubmedExtractor
End of document.
endElement(Element) - Method in class textractor.chain.loader.SimplifiedDefaultCallback
We have reached the end element.
endElement(Element) - Method in class textractor.parsers.PubmedExtractor
We have found an XML end-element tag.
endElement(String, String, String) - Method in class textractor.tools.expansion.ExpansionHandler
 
endIteration(int) - Method in class textractor.chain.loader.AbstractFileLoader
Called at the end of an iteration.
endIteration(int) - Method in class textractor.chain.loader.PubmedArticleLoader
Called at the end of an iteration.
endLine - Variable in class textractor.parsers.extractor.Token
beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
EndPage - Class in textractor.xml.pubmed.xml
Class EndPage.
EndPage() - Constructor for class textractor.xml.pubmed.xml.EndPage
 
EndPage - Class in textractor.xml.pubmedabstracts.xml
Class EndPage.
EndPage() - Constructor for class textractor.xml.pubmedabstracts.xml.EndPage
 
EndPageDescriptor - Class in textractor.xml.pubmed.xml
Class EndPageDescriptor.
EndPageDescriptor() - Constructor for class textractor.xml.pubmed.xml.EndPageDescriptor
 
EndPageDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class EndPageDescriptor.
EndPageDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.EndPageDescriptor
 
EndPageItem - Class in textractor.xml.pubmed.xml
Class EndPageItem.
EndPageItem() - Constructor for class textractor.xml.pubmed.xml.EndPageItem
 
EndPageItem - Class in textractor.xml.pubmedabstracts.xml
Class EndPageItem.
EndPageItem() - Constructor for class textractor.xml.pubmedabstracts.xml.EndPageItem
 
EndPageItemDescriptor - Class in textractor.xml.pubmed.xml
Class EndPageItemDescriptor.
EndPageItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.EndPageItemDescriptor
 
EndPageItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class EndPageItemDescriptor.
EndPageItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.EndPageItemDescriptor
 
endsWithCVC(String) - Method in class textractor.stemming.UnofficialPorterStemmer
 
endsWithDoubleConsonent(String) - Method in class textractor.stemming.UnofficialPorterStemmer
 
endsWithS(String) - Method in class textractor.stemming.UnofficialPorterStemmer
Does string end with 's'?
Entry - Class in textractor.xml.uniprot.xml
Class Entry.
Entry() - Constructor for class textractor.xml.uniprot.xml.Entry
 
EntryDescriptor - Class in textractor.xml.uniprot.xml
Class EntryDescriptor.
EntryDescriptor() - Constructor for class textractor.xml.uniprot.xml.EntryDescriptor
 
EntryType - Class in textractor.xml.uniprot.xml
A (public) SPTr entry
EntryType() - Constructor for class textractor.xml.uniprot.xml.EntryType
 
EntryTypeDescriptor - Class in textractor.xml.uniprot.xml
Class EntryTypeDescriptor.
EntryTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.EntryTypeDescriptor
 
enumerate() - Static method in class textractor.xml.pubmed.xml.types.ArticlePubModelType
Method enumerate Returns an enumeration of all possible instances of ArticlePubModelType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.AuthorListCompleteYNType
Method enumerate Returns an enumeration of all possible instances of AuthorListCompleteYNType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.AuthorValidYNType
Method enumerate Returns an enumeration of all possible instances of AuthorValidYNType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.DataBankListCompleteYNType
Method enumerate Returns an enumeration of all possible instances of DataBankListCompleteYNType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.DescriptorNameItemMajorTopicYNType
Method enumerate Returns an enumeration of all possible instances of DescriptorNameItemMajorTopicYNType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.ElectronicPubDateOfficialDateYNType
Method enumerate Returns an enumeration of all possible instances of ElectronicPubDateOfficialDateYNType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.FrequencyItemFrequencyTypeType
Method enumerate Returns an enumeration of all possible instances of FrequencyItemFrequencyTypeType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.GeneralNoteItemOwnerType
Method enumerate Returns an enumeration of all possible instances of GeneralNoteItemOwnerType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.GrantListCompleteYNType
Method enumerate Returns an enumeration of all possible instances of GrantListCompleteYNType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.KeywordItemMajorTopicYNType
Method enumerate Returns an enumeration of all possible instances of KeywordItemMajorTopicYNType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.KeywordListOwnerType
Method enumerate Returns an enumeration of all possible instances of KeywordListOwnerType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.MedlineCitationOwnerType
Method enumerate Returns an enumeration of all possible instances of MedlineCitationOwnerType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.MedlineCitationStatusType
Method enumerate Returns an enumeration of all possible instances of MedlineCitationStatusType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.OtherAbstractTypeType
Method enumerate Returns an enumeration of all possible instances of OtherAbstractTypeType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.OtherIDItemSourceType
Method enumerate Returns an enumeration of all possible instances of OtherIDItemSourceType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.PlaceItemImprintTypeType
Method enumerate Returns an enumeration of all possible instances of PlaceItemImprintTypeType
enumerate() - Static method in class textractor.xml.pubmed.xml.types.QualifierNameItemMajorTopicYNType
Method enumerate Returns an enumeration of all possible instances of QualifierNameItemMajorTopicYNType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.ArticleIdItemIdTypeType
Method enumerate Returns an enumeration of all possible instances of ArticleIdItemIdTypeType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.ArticlePubModelType
Method enumerate Returns an enumeration of all possible instances of ArticlePubModelType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.AuthorListCompleteYNType
Method enumerate Returns an enumeration of all possible instances of AuthorListCompleteYNType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.AuthorValidYNType
Method enumerate Returns an enumeration of all possible instances of AuthorValidYNType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.DataBankListCompleteYNType
Method enumerate Returns an enumeration of all possible instances of DataBankListCompleteYNType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.DescriptorNameItemMajorTopicYNType
Method enumerate Returns an enumeration of all possible instances of DescriptorNameItemMajorTopicYNType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.FrequencyItemFrequencyTypeType
Method enumerate Returns an enumeration of all possible instances of FrequencyItemFrequencyTypeType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.GeneralNoteItemOwnerType
Method enumerate Returns an enumeration of all possible instances of GeneralNoteItemOwnerType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.GrantListCompleteYNType
Method enumerate Returns an enumeration of all possible instances of GrantListCompleteYNType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.KeywordItemMajorTopicYNType
Method enumerate Returns an enumeration of all possible instances of KeywordItemMajorTopicYNType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.KeywordListOwnerType
Method enumerate Returns an enumeration of all possible instances of KeywordListOwnerType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.MedlineCitationOwnerType
Method enumerate Returns an enumeration of all possible instances of MedlineCitationOwnerType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.MedlineCitationStatusType
Method enumerate Returns an enumeration of all possible instances of MedlineCitationStatusType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.OtherAbstractTypeType
Method enumerate Returns an enumeration of all possible instances of OtherAbstractTypeType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.OtherIDItemSourceType
Method enumerate Returns an enumeration of all possible instances of OtherIDItemSourceType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.PlaceItemImprintTypeType
Method enumerate Returns an enumeration of all possible instances of PlaceItemImprintTypeType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.PubMedPubDatePubStatusType
Method enumerate Returns an enumeration of all possible instances of PubMedPubDatePubStatusType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.QualifierNameItemMajorTopicYNType
Method enumerate Returns an enumeration of all possible instances of QualifierNameItemMajorTopicYNType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
Method enumerate Returns an enumeration of all possible instances of URLItemLangType
enumerate() - Static method in class textractor.xml.pubmedabstracts.xml.types.URLItemTypeType
Method enumerate Returns an enumeration of all possible instances of URLItemTypeType
enumerate() - Static method in class textractor.xml.uniprot.xml.types.CitationTypeTypeType
Method enumerate Returns an enumeration of all possible instances of CitationTypeTypeType
enumerate() - Static method in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
Method enumerate Returns an enumeration of all possible instances of CommentTypeTypeType
enumerate() - Static method in class textractor.xml.uniprot.xml.types.EventTypeTypeType
Method enumerate Returns an enumeration of all possible instances of EventTypeTypeType
enumerate() - Static method in class textractor.xml.uniprot.xml.types.EvidenceTypeCategoryType
Method enumerate Returns an enumeration of all possible instances of EvidenceTypeCategoryType
enumerate() - Static method in class textractor.xml.uniprot.xml.types.FeatureTypeTypeType
Method enumerate Returns an enumeration of all possible instances of FeatureTypeTypeType
enumerate() - Static method in class textractor.xml.uniprot.xml.types.GeneLocationTypeTypeType
Method enumerate Returns an enumeration of all possible instances of GeneLocationTypeTypeType
enumerate() - Static method in class textractor.xml.uniprot.xml.types.GeneNameTypeTypeType
Method enumerate Returns an enumeration of all possible instances of GeneNameTypeTypeType
enumerate() - Static method in class textractor.xml.uniprot.xml.types.IsequenceTypeType
Method enumerate Returns an enumeration of all possible instances of IsequenceTypeType
enumerate() - Static method in class textractor.xml.uniprot.xml.types.OrganismNameTypeTypeType
Method enumerate Returns an enumeration of all possible instances of OrganismNameTypeTypeType
enumerate() - Static method in class textractor.xml.uniprot.xml.types.PositionTypeStatusType
Method enumerate Returns an enumeration of all possible instances of PositionTypeStatusType
enumerate() - Static method in class textractor.xml.uniprot.xml.types.ProteinTypeTypeType
Method enumerate Returns an enumeration of all possible instances of ProteinTypeTypeType
enumerate() - Static method in class textractor.xml.uniprot.xml.types.StatusTypeStatusType
Method enumerate Returns an enumeration of all possible instances of StatusTypeStatusType
enumerate_abstract() - Method in class textractor.xml.yapex.xml.Abstracts
Method enumerate_abstract
enumerateAbstractTextItem() - Method in class textractor.xml.pubmed.xml.AbstractText
Method enumerateAbstractTextItem
enumerateAbstractTextItem() - Method in class textractor.xml.pubmedabstracts.xml.AbstractText
Method enumerateAbstractTextItem
enumerateAccession() - Method in class textractor.xml.uniprot.xml.EntryType
Method enumerateAccession
enumerateAccessionNumber() - Method in class textractor.xml.pubmed.xml.AccessionNumberList
Method enumerateAccessionNumber
enumerateAccessionNumber() - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumberList
Method enumerateAccessionNumber
enumerateAccessionNumberItem() - Method in class textractor.xml.pubmed.xml.AccessionNumber
Method enumerateAccessionNumberItem
enumerateAccessionNumberItem() - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumber
Method enumerateAccessionNumberItem
enumerateAcronymItem() - Method in class textractor.xml.pubmed.xml.Acronym
Method enumerateAcronymItem
enumerateAcronymItem() - Method in class textractor.xml.pubmedabstracts.xml.Acronym
Method enumerateAcronymItem
enumerateAcronymsItem() - Method in class textractor.acronyms.xml.Acronyms
Method enumerateAcronymsItem
enumerateAffiliationItem() - Method in class textractor.xml.pubmed.xml.Affiliation
Method enumerateAffiliationItem
enumerateAffiliationItem() - Method in class textractor.xml.pubmedabstracts.xml.Affiliation
Method enumerateAffiliationItem
enumerateAgencyItem() - Method in class textractor.xml.pubmed.xml.Agency
Method enumerateAgencyItem
enumerateAgencyItem() - Method in class textractor.xml.pubmedabstracts.xml.Agency
Method enumerateAgencyItem
enumerateArticleDate() - Method in class textractor.xml.pubmed.xml.Article
Method enumerateArticleDate
enumerateArticleDate() - Method in class textractor.xml.pubmedabstracts.xml.Article
Method enumerateArticleDate
enumerateArticleId() - Method in class textractor.xml.pubmedabstracts.xml.ArticleIdList
Method enumerateArticleId
enumerateArticleIdItem() - Method in class textractor.xml.pubmedabstracts.xml.ArticleId
Method enumerateArticleIdItem
enumerateArticleTitleItem() - Method in class textractor.xml.pubmed.xml.ArticleTitle
Method enumerateArticleTitleItem
enumerateArticleTitleItem() - Method in class textractor.xml.pubmedabstracts.xml.ArticleTitle
Method enumerateArticleTitleItem
enumerateAuthor() - Method in class textractor.xml.pubmed.xml.AuthorList
Method enumerateAuthor
enumerateAuthor() - Method in class textractor.xml.pubmedabstracts.xml.AuthorList
Method enumerateAuthor
enumerateBroadJournalHeading() - Method in class textractor.xml.pubmed.xml.BroadJournalHeadingList
Method enumerateBroadJournalHeading
enumerateBroadJournalHeading() - Method in class textractor.xml.pubmedabstracts.xml.BroadJournalHeadingList
Method enumerateBroadJournalHeading
enumerateBroadJournalHeadingItem() - Method in class textractor.xml.pubmed.xml.BroadJournalHeading
Method enumerateBroadJournalHeadingItem
enumerateBroadJournalHeadingItem() - Method in class textractor.xml.pubmedabstracts.xml.BroadJournalHeading
Method enumerateBroadJournalHeadingItem
enumerateChemical() - Method in class textractor.xml.pubmed.xml.ChemicalList
Method enumerateChemical
enumerateChemical() - Method in class textractor.xml.pubmedabstracts.xml.ChemicalList
Method enumerateChemical
enumerateCitationSubset() - Method in class textractor.xml.pubmed.xml.MedlineCitation
Method enumerateCitationSubset
enumerateCitationSubset() - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
Method enumerateCitationSubset
enumerateCitationSubsetItem() - Method in class textractor.xml.pubmed.xml.CitationSubset
Method enumerateCitationSubsetItem
enumerateCitationSubsetItem() - Method in class textractor.xml.pubmedabstracts.xml.CitationSubset
Method enumerateCitationSubsetItem
enumerateCodenItem() - Method in class textractor.xml.pubmed.xml.Coden
Method enumerateCodenItem
enumerateCodenItem() - Method in class textractor.xml.pubmedabstracts.xml.Coden
Method enumerateCodenItem
enumerateCollectionTitleItem() - Method in class textractor.xml.pubmed.xml.CollectionTitle
Method enumerateCollectionTitleItem
enumerateCollectionTitleItem() - Method in class textractor.xml.pubmedabstracts.xml.CollectionTitle
Method enumerateCollectionTitleItem
enumerateCollectiveNameItem() - Method in class textractor.xml.pubmed.xml.CollectiveName
Method enumerateCollectiveNameItem
enumerateCollectiveNameItem() - Method in class textractor.xml.pubmedabstracts.xml.CollectiveName
Method enumerateCollectiveNameItem
enumerateComment() - Method in class textractor.xml.uniprot.xml.EntryType
Method enumerateComment
enumerateCommentIn() - Method in class textractor.xml.pubmed.xml.CommentsCorrections
Method enumerateCommentIn
enumerateCommentIn() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
Method enumerateCommentIn
enumerateCommentOn() - Method in class textractor.xml.pubmed.xml.CommentsCorrections
Method enumerateCommentOn
enumerateCommentOn() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
Method enumerateCommentOn
enumerateComponent() - Method in class textractor.xml.uniprot.xml.ProteinType
Method enumerateComponent
enumerateCopyrightInformationItem() - Method in class textractor.xml.pubmed.xml.CopyrightInformation
Method enumerateCopyrightInformationItem
enumerateCopyrightInformationItem() - Method in class textractor.xml.pubmedabstracts.xml.CopyrightInformation
Method enumerateCopyrightInformationItem
enumerateCountryItem() - Method in class textractor.xml.pubmed.xml.Country
Method enumerateCountryItem
enumerateCountryItem() - Method in class textractor.xml.pubmedabstracts.xml.Country
Method enumerateCountryItem
enumerateCoverageItem() - Method in class textractor.xml.pubmed.xml.Coverage
Method enumerateCoverageItem
enumerateCoverageItem() - Method in class textractor.xml.pubmedabstracts.xml.Coverage
Method enumerateCoverageItem
enumerateDataBank() - Method in class textractor.xml.pubmed.xml.DataBankList
Method enumerateDataBank
enumerateDataBank() - Method in class textractor.xml.pubmedabstracts.xml.DataBankList
Method enumerateDataBank
enumerateDataBankNameItem() - Method in class textractor.xml.pubmed.xml.DataBankName
Method enumerateDataBankNameItem
enumerateDataBankNameItem() - Method in class textractor.xml.pubmedabstracts.xml.DataBankName
Method enumerateDataBankNameItem
enumerateDateIssued() - Method in class textractor.xml.pubmed.xml.PublicationInfo
Method enumerateDateIssued
enumerateDateIssued() - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
Method enumerateDateIssued
enumerateDateIssuedItem() - Method in class textractor.xml.pubmed.xml.DateIssued
Method enumerateDateIssuedItem
enumerateDateIssuedItem() - Method in class textractor.xml.pubmedabstracts.xml.DateIssued
Method enumerateDateIssuedItem
enumerateDatesAssociatedWithNameItem() - Method in class textractor.xml.pubmed.xml.DatesAssociatedWithName
Method enumerateDatesAssociatedWithNameItem
enumerateDatesAssociatedWithNameItem() - Method in class textractor.xml.pubmedabstracts.xml.DatesAssociatedWithName
Method enumerateDatesAssociatedWithNameItem
enumerateDatesOfSerialPublication() - Method in class textractor.xml.pubmed.xml.PublicationInfo
Method enumerateDatesOfSerialPublication
enumerateDatesOfSerialPublication() - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
Method enumerateDatesOfSerialPublication
enumerateDatesOfSerialPublicationItem() - Method in class textractor.xml.pubmed.xml.DatesOfSerialPublication
Method enumerateDatesOfSerialPublicationItem
enumerateDatesOfSerialPublicationItem() - Method in class textractor.xml.pubmedabstracts.xml.DatesOfSerialPublication
Method enumerateDatesOfSerialPublicationItem
enumerateDayItem() - Method in class textractor.xml.pubmed.xml.Day
Method enumerateDayItem
enumerateDayItem() - Method in class textractor.xml.pubmedabstracts.xml.Day
Method enumerateDayItem
enumerateDbReference() - Method in class textractor.xml.uniprot.xml.CitationType
Method enumerateDbReference
enumerateDbReference() - Method in class textractor.xml.uniprot.xml.EntryType
Method enumerateDbReference
enumerateDbReference() - Method in class textractor.xml.uniprot.xml.Organism
Method enumerateDbReference
enumerateDescriptorNameItem() - Method in class textractor.xml.pubmed.xml.DescriptorName
Method enumerateDescriptorNameItem
enumerateDescriptorNameItem() - Method in class textractor.xml.pubmedabstracts.xml.DescriptorName
Method enumerateDescriptorNameItem
enumerateDomain() - Method in class textractor.xml.uniprot.xml.ProteinType
Method enumerateDomain
enumerateEditionItem() - Method in class textractor.xml.pubmed.xml.Edition
Method enumerateEditionItem
enumerateEditionItem() - Method in class textractor.xml.pubmedabstracts.xml.Edition
Method enumerateEditionItem
enumerateEndPageItem() - Method in class textractor.xml.pubmed.xml.EndPage
Method enumerateEndPageItem
enumerateEndPageItem() - Method in class textractor.xml.pubmedabstracts.xml.EndPage
Method enumerateEndPageItem
enumerateEntry() - Method in class textractor.xml.uniprot.xml.Uniprot
Method enumerateEntry
enumerateErratumFor() - Method in class textractor.xml.pubmed.xml.CommentsCorrections
Method enumerateErratumFor
enumerateErratumFor() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
Method enumerateErratumFor
enumerateErratumIn() - Method in class textractor.xml.pubmed.xml.CommentsCorrections
Method enumerateErratumIn
enumerateErratumIn() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
Method enumerateErratumIn
enumerateEvent() - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence3
Method enumerateEvent
enumerateEvidence() - Method in class textractor.xml.uniprot.xml.EntryType
Method enumerateEvidence
enumerateExpansionsItem() - Method in class textractor.acronyms.xml.Expansions
Method enumerateExpansionsItem
enumerateFeature() - Method in class textractor.xml.uniprot.xml.EntryType
Method enumerateFeature
enumerateFirstNameItem() - Method in class textractor.xml.pubmed.xml.FirstName
Method enumerateFirstNameItem
enumerateFirstNameItem() - Method in class textractor.xml.pubmedabstracts.xml.FirstName
Method enumerateFirstNameItem
enumerateForeNameItem() - Method in class textractor.xml.pubmed.xml.ForeName
Method enumerateForeNameItem
enumerateForeNameItem() - Method in class textractor.xml.pubmedabstracts.xml.ForeName
Method enumerateForeNameItem
enumerateFrequency() - Method in class textractor.xml.pubmed.xml.PublicationInfo
Method enumerateFrequency
enumerateFrequency() - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
Method enumerateFrequency
enumerateFrequencyItem() - Method in class textractor.xml.pubmed.xml.Frequency
Method enumerateFrequencyItem
enumerateFrequencyItem() - Method in class textractor.xml.pubmedabstracts.xml.Frequency
Method enumerateFrequencyItem
enumerateGene() - Method in class textractor.xml.uniprot.xml.EntryType
Method enumerateGene
enumerateGeneLocation() - Method in class textractor.xml.uniprot.xml.EntryType
Method enumerateGeneLocation
enumerateGeneralNote() - Method in class textractor.xml.pubmed.xml.MedlineCitation
Method enumerateGeneralNote
enumerateGeneralNote() - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
Method enumerateGeneralNote
enumerateGeneralNoteItem() - Method in class textractor.xml.pubmed.xml.GeneralNote
Method enumerateGeneralNoteItem
enumerateGeneralNoteItem() - Method in class textractor.xml.pubmedabstracts.xml.GeneralNote
Method enumerateGeneralNoteItem
enumerateGeneSymbol() - Method in class textractor.xml.pubmed.xml.GeneSymbolList
Method enumerateGeneSymbol
enumerateGeneSymbol() - Method in class textractor.xml.pubmedabstracts.xml.GeneSymbolList
Method enumerateGeneSymbol
enumerateGeneSymbolItem() - Method in class textractor.xml.pubmed.xml.GeneSymbol
Method enumerateGeneSymbolItem
enumerateGeneSymbolItem() - Method in class textractor.xml.pubmedabstracts.xml.GeneSymbol
Method enumerateGeneSymbolItem
enumerateGrant() - Method in class textractor.xml.pubmed.xml.GrantList
Method enumerateGrant
enumerateGrant() - Method in class textractor.xml.pubmedabstracts.xml.GrantList
Method enumerateGrant
enumerateGrantIDItem() - Method in class textractor.xml.pubmed.xml.GrantID
Method enumerateGrantIDItem
enumerateGrantIDItem() - Method in class textractor.xml.pubmedabstracts.xml.GrantID
Method enumerateGrantIDItem
enumerateHistory() - Method in class textractor.xml.pubmedabstracts.xml.PubmedData
Method enumerateHistory
enumerateHourItem() - Method in class textractor.xml.pubmed.xml.Hour
Method enumerateHourItem
enumerateHourItem() - Method in class textractor.xml.pubmedabstracts.xml.Hour
Method enumerateHourItem
enumerateId() - Method in class textractor.xml.uniprot.xml.IsoformType
Method enumerateId
enumerateImprint() - Method in class textractor.xml.pubmed.xml.PublicationInfo
Method enumerateImprint
enumerateImprint() - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
Method enumerateImprint
enumerateImprintItem() - Method in class textractor.xml.pubmed.xml.Imprint
Method enumerateImprintItem
enumerateImprintItem() - Method in class textractor.xml.pubmedabstracts.xml.Imprint
Method enumerateImprintItem
enumerateInitialsItem() - Method in class textractor.xml.pubmed.xml.Initials
Method enumerateInitialsItem
enumerateInitialsItem() - Method in class textractor.xml.pubmedabstracts.xml.Initials
Method enumerateInitialsItem
enumerateInteractant() - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence4
Method enumerateInteractant
enumerateInvestigator() - Method in class textractor.xml.pubmed.xml.InvestigatorList
Method enumerateInvestigator
enumerateInvestigator() - Method in class textractor.xml.pubmedabstracts.xml.InvestigatorList
Method enumerateInvestigator
enumerateISOAbbreviationItem() - Method in class textractor.xml.pubmed.xml.ISOAbbreviation
Method enumerateISOAbbreviationItem
enumerateISOAbbreviationItem() - Method in class textractor.xml.pubmedabstracts.xml.ISOAbbreviation
Method enumerateISOAbbreviationItem
enumerateIsoform() - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence3
Method enumerateIsoform
enumerateISSNItem() - Method in class textractor.xml.pubmed.xml.ISSN
Method enumerateISSNItem
enumerateISSNItem() - Method in class textractor.xml.pubmedabstracts.xml.ISSN
Method enumerateISSNItem
enumerateIssueItem() - Method in class textractor.xml.pubmed.xml.Issue
Method enumerateIssueItem
enumerateIssueItem() - Method in class textractor.xml.pubmedabstracts.xml.Issue
Method enumerateIssueItem
enumerateKeyword() - Method in class textractor.xml.pubmed.xml.KeywordList
Method enumerateKeyword
enumerateKeyword() - Method in class textractor.xml.pubmedabstracts.xml.KeywordList
Method enumerateKeyword
enumerateKeyword() - Method in class textractor.xml.uniprot.xml.EntryType
Method enumerateKeyword
enumerateKeywordItem() - Method in class textractor.xml.pubmed.xml.Keyword
Method enumerateKeywordItem
enumerateKeywordItem() - Method in class textractor.xml.pubmedabstracts.xml.Keyword
Method enumerateKeywordItem
enumerateKeywordList() - Method in class textractor.xml.pubmed.xml.MedlineCitation
Method enumerateKeywordList
enumerateKeywordList() - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
Method enumerateKeywordList
enumerateKM() - Method in class textractor.xml.uniprot.xml.Kinetics
Method enumerateKM
enumerateLanguage() - Method in class textractor.xml.pubmed.xml.Article
Method enumerateLanguage
enumerateLanguage() - Method in class textractor.xml.pubmedabstracts.xml.Article
Method enumerateLanguage
enumerateLanguageItem() - Method in class textractor.xml.pubmed.xml.Language
Method enumerateLanguageItem
enumerateLanguageItem() - Method in class textractor.xml.pubmedabstracts.xml.Language
Method enumerateLanguageItem
enumerateLastNameItem() - Method in class textractor.xml.pubmed.xml.LastName
Method enumerateLastNameItem
enumerateLastNameItem() - Method in class textractor.xml.pubmedabstracts.xml.LastName
Method enumerateLastNameItem
enumerateLink() - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence
Method enumerateLink
enumerateLocation() - Method in class textractor.xml.uniprot.xml.CommentTypeChoiceSequence2
Method enumerateLocation
enumerateMedlineCitation() - Method in class textractor.xml.pubmed.xml.MedlineCitationSet
Method enumerateMedlineCitation
enumerateMedlineCitation() - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitationSet
Method enumerateMedlineCitation
enumerateMedlineDateItem() - Method in class textractor.xml.pubmed.xml.MedlineDate
Method enumerateMedlineDateItem
enumerateMedlineDateItem() - Method in class textractor.xml.pubmedabstracts.xml.MedlineDate
Method enumerateMedlineDateItem
enumerateMedlinePgnItem() - Method in class textractor.xml.pubmed.xml.MedlinePgn
Method enumerateMedlinePgnItem
enumerateMedlinePgnItem() - Method in class textractor.xml.pubmedabstracts.xml.MedlinePgn
Method enumerateMedlinePgnItem
enumerateMedlineTAItem() - Method in class textractor.xml.pubmed.xml.MedlineTA
Method enumerateMedlineTAItem
enumerateMedlineTAItem() - Method in class textractor.xml.pubmedabstracts.xml.MedlineTA
Method enumerateMedlineTAItem
enumerateMeshHeading() - Method in class textractor.xml.pubmed.xml.MeshHeadingList
Method enumerateMeshHeading
enumerateMeshHeading() - Method in class textractor.xml.pubmedabstracts.xml.MeshHeadingList
Method enumerateMeshHeading
enumerateMiddleNameItem() - Method in class textractor.xml.pubmed.xml.MiddleName
Method enumerateMiddleNameItem
enumerateMiddleNameItem() - Method in class textractor.xml.pubmedabstracts.xml.MiddleName
Method enumerateMiddleNameItem
enumerateMinuteItem() - Method in class textractor.xml.pubmed.xml.Minute
Method enumerateMinuteItem
enumerateMinuteItem() - Method in class textractor.xml.pubmedabstracts.xml.Minute
Method enumerateMinuteItem
enumerateMonthItem() - Method in class textractor.xml.pubmed.xml.Month
Method enumerateMonthItem
enumerateMonthItem() - Method in class textractor.xml.pubmedabstracts.xml.Month
Method enumerateMonthItem
enumerateName() - Method in class textractor.xml.uniprot.xml.Component
Method enumerateName
enumerateName() - Method in class textractor.xml.uniprot.xml.Domain
Method enumerateName
enumerateName() - Method in class textractor.xml.uniprot.xml.EntryType
Method enumerateName
enumerateName() - Method in class textractor.xml.uniprot.xml.Gene
Method enumerateName
enumerateName() - Method in class textractor.xml.uniprot.xml.IsoformType
Method enumerateName
enumerateName() - Method in class textractor.xml.uniprot.xml.Organism
Method enumerateName
enumerateName() - Method in class textractor.xml.uniprot.xml.ProteinType
Method enumerateName
enumerateName() - Method in class textractor.xml.uniprot.xml.Strain
Method enumerateName
enumerateName() - Method in class textractor.xml.yapex.xml.ProteinNames
Method enumerateName
enumerateNameListTypeItem() - Method in class textractor.xml.uniprot.xml.NameListType
Method enumerateNameListTypeItem
enumerateNameOfSubstanceItem() - Method in class textractor.xml.pubmed.xml.NameOfSubstance
Method enumerateNameOfSubstanceItem
enumerateNameOfSubstanceItem() - Method in class textractor.xml.pubmedabstracts.xml.NameOfSubstance
Method enumerateNameOfSubstanceItem
enumerateNameQualifierItem() - Method in class textractor.xml.pubmed.xml.NameQualifier
Method enumerateNameQualifierItem
enumerateNameQualifierItem() - Method in class textractor.xml.pubmedabstracts.xml.NameQualifier
Method enumerateNameQualifierItem
enumerateNlmDcmsIDItem() - Method in class textractor.xml.pubmed.xml.NlmDcmsID
Method enumerateNlmDcmsIDItem
enumerateNlmDcmsIDItem() - Method in class textractor.xml.pubmedabstracts.xml.NlmDcmsID
Method enumerateNlmDcmsIDItem
enumerateNlmUniqueIDItem() - Method in class textractor.xml.pubmed.xml.NlmUniqueID
Method enumerateNlmUniqueIDItem
enumerateNlmUniqueIDItem() - Method in class textractor.xml.pubmedabstracts.xml.NlmUniqueID
Method enumerateNlmUniqueIDItem
enumerateNoteItem() - Method in class textractor.xml.pubmed.xml.Note
Method enumerateNoteItem
enumerateNoteItem() - Method in class textractor.xml.pubmedabstracts.xml.Note
Method enumerateNoteItem
enumerateNumberOfReferencesItem() - Method in class textractor.xml.pubmed.xml.NumberOfReferences
Method enumerateNumberOfReferencesItem
enumerateNumberOfReferencesItem() - Method in class textractor.xml.pubmedabstracts.xml.NumberOfReferences
Method enumerateNumberOfReferencesItem
enumerateOrganism() - Method in class textractor.xml.uniprot.xml.EntryType
Method enumerateOrganism
enumerateOriginalReportIn() - Method in class textractor.xml.pubmed.xml.CommentsCorrections
Method enumerateOriginalReportIn
enumerateOriginalReportIn() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
Method enumerateOriginalReportIn
enumerateOtherAbstract() - Method in class textractor.xml.pubmed.xml.MedlineCitation
Method enumerateOtherAbstract
enumerateOtherAbstract() - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
Method enumerateOtherAbstract
enumerateOtherID() - Method in class textractor.xml.pubmed.xml.MedlineCitation
Method enumerateOtherID
enumerateOtherID() - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
Method enumerateOtherID
enumerateOtherIDItem() - Method in class textractor.xml.pubmed.xml.OtherID
Method enumerateOtherIDItem
enumerateOtherIDItem() - Method in class textractor.xml.pubmedabstracts.xml.OtherID
Method enumerateOtherIDItem
enumerateOtherInformationItem() - Method in class textractor.xml.pubmed.xml.OtherInformation
Method enumerateOtherInformationItem
enumerateOtherInformationItem() - Method in class textractor.xml.pubmedabstracts.xml.OtherInformation
Method enumerateOtherInformationItem
enumeratePersonalNameSubject() - Method in class textractor.xml.pubmed.xml.PersonalNameSubjectList
Method enumeratePersonalNameSubject
enumeratePersonalNameSubject() - Method in class textractor.xml.pubmedabstracts.xml.PersonalNameSubjectList
Method enumeratePersonalNameSubject
enumeratePlace() - Method in class textractor.xml.pubmed.xml.PublicationInfo
Method enumeratePlace
enumeratePlace() - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
Method enumeratePlace
enumeratePlaceCodeItem() - Method in class textractor.xml.pubmed.xml.PlaceCode
Method enumeratePlaceCodeItem
enumeratePlaceCodeItem() - Method in class textractor.xml.pubmedabstracts.xml.PlaceCode
Method enumeratePlaceCodeItem
enumeratePlaceItem() - Method in class textractor.xml.pubmed.xml.Place
Method enumeratePlaceItem
enumeratePlaceItem() - Method in class textractor.xml.pubmedabstracts.xml.Place
Method enumeratePlaceItem
enumeratePMID() - Method in class textractor.xml.pubmed.xml.DeleteCitation
Method enumeratePMID
enumeratePMID() - Method in class textractor.xml.pubmedabstracts.xml.DeleteCitation
Method enumeratePMID
enumeratePMIDItem() - Method in class textractor.xml.pubmed.xml.PMID
Method enumeratePMIDItem
enumeratePMIDItem() - Method in class textractor.xml.pubmedabstracts.xml.PMID
Method enumeratePMIDItem
enumerateProjectedPublicationDateItem() - Method in class textractor.xml.pubmed.xml.ProjectedPublicationDate
Method enumerateProjectedPublicationDateItem
enumerateProjectedPublicationDateItem() - Method in class textractor.xml.pubmedabstracts.xml.ProjectedPublicationDate
Method enumerateProjectedPublicationDateItem
enumerateProperty() - Method in class textractor.xml.uniprot.xml.DbReferenceType
Method enumerateProperty
enumeratePublicationEndYearItem() - Method in class textractor.xml.pubmed.xml.PublicationEndYear
Method enumeratePublicationEndYearItem
enumeratePublicationEndYearItem() - Method in class textractor.xml.pubmedabstracts.xml.PublicationEndYear
Method enumeratePublicationEndYearItem
enumeratePublicationFirstYearItem() - Method in class textractor.xml.pubmed.xml.PublicationFirstYear
Method enumeratePublicationFirstYearItem
enumeratePublicationFirstYearItem() - Method in class textractor.xml.pubmedabstracts.xml.PublicationFirstYear
Method enumeratePublicationFirstYearItem
enumeratePublicationStatusItem() - Method in class textractor.xml.pubmedabstracts.xml.PublicationStatus
Method enumeratePublicationStatusItem
enumeratePublicationType() - Method in class textractor.xml.pubmed.xml.PublicationTypeList
Method enumeratePublicationType
enumeratePublicationType() - Method in class textractor.xml.pubmedabstracts.xml.PublicationTypeList
Method enumeratePublicationType
enumeratePublicationTypeItem() - Method in class textractor.xml.pubmed.xml.PublicationType
Method enumeratePublicationTypeItem
enumeratePublicationTypeItem() - Method in class textractor.xml.pubmedabstracts.xml.PublicationType
Method enumeratePublicationTypeItem
enumeratePublisher() - Method in class textractor.xml.pubmed.xml.PublicationInfo
Method enumeratePublisher
enumeratePublisher() - Method in class textractor.xml.pubmedabstracts.xml.PublicationInfo
Method enumeratePublisher
enumeratePublisherItem() - Method in class textractor.xml.pubmed.xml.Publisher
Method enumeratePublisherItem
enumeratePublisherItem() - Method in class textractor.xml.pubmedabstracts.xml.Publisher
Method enumeratePublisherItem
enumeratePubmedArticleSetItem() - Method in class textractor.xml.pubmedabstracts.xml.PubmedArticleSet
Method enumeratePubmedArticleSetItem
enumeratePubMedPubDate() - Method in class textractor.xml.pubmedabstracts.xml.History
Method enumeratePubMedPubDate
enumerateQualifierName() - Method in class textractor.xml.pubmed.xml.MeshHeading
Method enumerateQualifierName
enumerateQualifierName() - Method in class textractor.xml.pubmedabstracts.xml.MeshHeading
Method enumerateQualifierName
enumerateQualifierNameItem() - Method in class textractor.xml.pubmed.xml.QualifierName
Method enumerateQualifierNameItem
enumerateQualifierNameItem() - Method in class textractor.xml.pubmedabstracts.xml.QualifierName
Method enumerateQualifierNameItem
enumerateReference() - Method in class textractor.xml.uniprot.xml.EntryType
Method enumerateReference
enumerateRefSourceItem() - Method in class textractor.xml.pubmed.xml.RefSource
Method enumerateRefSourceItem
enumerateRefSourceItem() - Method in class textractor.xml.pubmedabstracts.xml.RefSource
Method enumerateRefSourceItem
enumerateRegistryNumberItem() - Method in class textractor.xml.pubmed.xml.RegistryNumber
Method enumerateRegistryNumberItem
enumerateRegistryNumberItem() - Method in class textractor.xml.pubmedabstracts.xml.RegistryNumber
Method enumerateRegistryNumberItem
enumerateReprintIn() - Method in class textractor.xml.pubmed.xml.CommentsCorrections
Method enumerateReprintIn
enumerateReprintIn() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
Method enumerateReprintIn
enumerateReprintOf() - Method in class textractor.xml.pubmed.xml.CommentsCorrections
Method enumerateReprintOf
enumerateReprintOf() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
Method enumerateReprintOf
enumerateRepublishedFrom() - Method in class textractor.xml.pubmed.xml.CommentsCorrections
Method enumerateRepublishedFrom
enumerateRepublishedFrom() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
Method enumerateRepublishedFrom
enumerateRepublishedIn() - Method in class textractor.xml.pubmed.xml.CommentsCorrections
Method enumerateRepublishedIn
enumerateRepublishedIn() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
Method enumerateRepublishedIn
enumerateRetractionIn() - Method in class textractor.xml.pubmed.xml.CommentsCorrections
Method enumerateRetractionIn
enumerateRetractionIn() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
Method enumerateRetractionIn
enumerateRetractionOf() - Method in class textractor.xml.pubmed.xml.CommentsCorrections
Method enumerateRetractionOf
enumerateRetractionOf() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
Method enumerateRetractionOf
enumerateScope() - Method in class textractor.xml.uniprot.xml.SptrCitationGroup
Method enumerateScope
enumerateSeasonItem() - Method in class textractor.xml.pubmed.xml.Season
Method enumerateSeasonItem
enumerateSeasonItem() - Method in class textractor.xml.pubmedabstracts.xml.Season
Method enumerateSeasonItem
enumerateSecondItem() - Method in class textractor.xml.pubmed.xml.Second
Method enumerateSecondItem
enumerateSecondItem() - Method in class textractor.xml.pubmedabstracts.xml.Second
Method enumerateSecondItem
enumerateSourceDataTypeItem() - Method in class textractor.xml.uniprot.xml.SourceDataType
Method enumerateSourceDataTypeItem
enumerateSpaceFlightMission() - Method in class textractor.xml.pubmed.xml.MedlineCitation
Method enumerateSpaceFlightMission
enumerateSpaceFlightMission() - Method in class textractor.xml.pubmedabstracts.xml.MedlineCitation
Method enumerateSpaceFlightMission
enumerateSpaceFlightMissionItem() - Method in class textractor.xml.pubmed.xml.SpaceFlightMission
Method enumerateSpaceFlightMissionItem
enumerateSpaceFlightMissionItem() - Method in class textractor.xml.pubmedabstracts.xml.SpaceFlightMission
Method enumerateSpaceFlightMissionItem
enumerateStartPageItem() - Method in class textractor.xml.pubmed.xml.StartPage
Method enumerateStartPageItem
enumerateStartPageItem() - Method in class textractor.xml.pubmedabstracts.xml.StartPage
Method enumerateStartPageItem
enumerateSuffixItem() - Method in class textractor.xml.pubmed.xml.Suffix
Method enumerateSuffixItem
enumerateSuffixItem() - Method in class textractor.xml.pubmedabstracts.xml.Suffix
Method enumerateSuffixItem
enumerateSummaryForPatientsIn() - Method in class textractor.xml.pubmed.xml.CommentsCorrections
Method enumerateSummaryForPatientsIn
enumerateSummaryForPatientsIn() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
Method enumerateSummaryForPatientsIn
enumerateTaxon() - Method in class textractor.xml.uniprot.xml.Lineage
Method enumerateTaxon
enumerateTitleAssociatedWithNameItem() - Method in class textractor.xml.pubmed.xml.TitleAssociatedWithName
Method enumerateTitleAssociatedWithNameItem
enumerateTitleAssociatedWithNameItem() - Method in class textractor.xml.pubmedabstracts.xml.TitleAssociatedWithName
Method enumerateTitleAssociatedWithNameItem
enumerateTitleItem() - Method in class textractor.xml.pubmed.xml.Title
Method enumerateTitleItem
enumerateTitleItem() - Method in class textractor.xml.pubmedabstracts.xml.Title
Method enumerateTitleItem
enumerateUpdateIn() - Method in class textractor.xml.pubmed.xml.CommentsCorrections
Method enumerateUpdateIn
enumerateUpdateIn() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
Method enumerateUpdateIn
enumerateUpdateOf() - Method in class textractor.xml.pubmed.xml.CommentsCorrections
Method enumerateUpdateOf
enumerateUpdateOf() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrections
Method enumerateUpdateOf
enumerateURLItem() - Method in class textractor.xml.pubmedabstracts.xml.URL
Method enumerateURLItem
enumerateVariation() - Method in class textractor.xml.uniprot.xml.FeatureType
Method enumerateVariation
enumerateVernacularTitleItem() - Method in class textractor.xml.pubmed.xml.VernacularTitle
Method enumerateVernacularTitleItem
enumerateVernacularTitleItem() - Method in class textractor.xml.pubmedabstracts.xml.VernacularTitle
Method enumerateVernacularTitleItem
enumerateVmax() - Method in class textractor.xml.uniprot.xml.Kinetics
Method enumerateVmax
enumerateVolumeItem() - Method in class textractor.xml.pubmed.xml.Volume
Method enumerateVolumeItem
enumerateVolumeItem() - Method in class textractor.xml.pubmedabstracts.xml.Volume
Method enumerateVolumeItem
enumerateYearItem() - Method in class textractor.xml.pubmed.xml.Year
Method enumerateYearItem
enumerateYearItem() - Method in class textractor.xml.pubmedabstracts.xml.Year
Method enumerateYearItem
enumeration(List<String>) - Method in class textractor.parsers.extractor.ExtractionEngine
 
ENZYME_REGULATION - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The instance of the enzyme regulation type
ENZYME_REGULATION_TYPE - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The enzyme regulation type
EOF - Static variable in interface textractor.parsers.extractor.ExtractionEngineConstants
 
eol - Variable in exception textractor.parsers.extractor.ParseException
The end of line string for this machine.
EPUBLISH - Static variable in class textractor.xml.pubmedabstracts.xml.types.PubMedPubDatePubStatusType
The instance of the epublish type
EPUBLISH_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.PubMedPubDatePubStatusType
The epublish type
equals(Object) - Method in class textractor.crf.TextSegment
 
equals(Object) - Method in class textractor.datamodel.TermOccurrence
 
equals(Object) - Method in class textractor.mg4j.index.PositionedTerm
 
equals(Object) - Method in class textractor.scoredresult.ScoredResult
 
equals(Object) - Method in class textractor.tools.biostems.ScoredTerm
 
equals(Object) - Method in class textractor.tools.expansion.CandidateExpansion
 
equals(Object) - Method in class textractor.util.Tuple2
 
equals(Object) - Method in class textractor.util.Tuple3
 
ErratumFor - Class in textractor.xml.pubmed.xml
Class ErratumFor.
ErratumFor() - Constructor for class textractor.xml.pubmed.xml.ErratumFor
 
ErratumFor - Class in textractor.xml.pubmedabstracts.xml
Class ErratumFor.
ErratumFor() - Constructor for class textractor.xml.pubmedabstracts.xml.ErratumFor
 
ErratumForDescriptor - Class in textractor.xml.pubmed.xml
Class ErratumForDescriptor.
ErratumForDescriptor() - Constructor for class textractor.xml.pubmed.xml.ErratumForDescriptor
 
ErratumForDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ErratumForDescriptor.
ErratumForDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ErratumForDescriptor
 
ErratumIn - Class in textractor.xml.pubmed.xml
Class ErratumIn.
ErratumIn() - Constructor for class textractor.xml.pubmed.xml.ErratumIn
 
ErratumIn - Class in textractor.xml.pubmedabstracts.xml
Class ErratumIn.
ErratumIn() - Constructor for class textractor.xml.pubmedabstracts.xml.ErratumIn
 
ErratumInDescriptor - Class in textractor.xml.pubmed.xml
Class ErratumInDescriptor.
ErratumInDescriptor() - Constructor for class textractor.xml.pubmed.xml.ErratumInDescriptor
 
ErratumInDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ErratumInDescriptor.
ErratumInDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ErratumInDescriptor
 
ES - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The instance of the ES type
ES_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The ES type
evaluates(int[]) - Method in class textractor.tfidf.TfIdfCalculator
Scans a set of documents, calculating TF-IDF for each term that occurs in these documents.
evaluates(int[], float[]) - Method in class textractor.tfidf.TfIdfCalculator
Scans a set of documents, calculating TF-IDF for each term that occurs in these documents.
evaluates(int[], float[], int[]) - Method in class textractor.tfidf.TfIdfCalculator
Scans a set of documents, calculating TF-IDF for each term that occurs in these documents.
Event - Class in textractor.xml.uniprot.xml
Class Event.
Event() - Constructor for class textractor.xml.uniprot.xml.Event
 
EventDescriptor - Class in textractor.xml.uniprot.xml
Class EventDescriptor.
EventDescriptor() - Constructor for class textractor.xml.uniprot.xml.EventDescriptor
 
EventType - Class in textractor.xml.uniprot.xml
This element stores information about events that cause an alternative product.
EventType() - Constructor for class textractor.xml.uniprot.xml.EventType
 
EventTypeDescriptor - Class in textractor.xml.uniprot.xml
Class EventTypeDescriptor.
EventTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.EventTypeDescriptor
 
EventTypeTypeType - Class in textractor.xml.uniprot.xml.types
Class EventTypeTypeType.
EventTypeTypeTypeDescriptor - Class in textractor.xml.uniprot.xml.types
Class EventTypeTypeTypeDescriptor.
EventTypeTypeTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.types.EventTypeTypeTypeDescriptor
 
Evidence - Class in textractor.xml.uniprot.xml
Class Evidence.
Evidence() - Constructor for class textractor.xml.uniprot.xml.Evidence
 
EvidenceDescriptor - Class in textractor.xml.uniprot.xml
Class EvidenceDescriptor.
EvidenceDescriptor() - Constructor for class textractor.xml.uniprot.xml.EvidenceDescriptor
 
EvidenceType - Class in textractor.xml.uniprot.xml
The evidence element is equivalent to the actual evidence (EV line).
EvidenceType() - Constructor for class textractor.xml.uniprot.xml.EvidenceType
 
EvidenceTypeCategoryType - Class in textractor.xml.uniprot.xml.types
Class EvidenceTypeCategoryType.
EvidenceTypeCategoryTypeDescriptor - Class in textractor.xml.uniprot.xml.types
Class EvidenceTypeCategoryTypeDescriptor.
EvidenceTypeCategoryTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.types.EvidenceTypeCategoryTypeDescriptor
 
EvidenceTypeDescriptor - Class in textractor.xml.uniprot.xml
Class EvidenceTypeDescriptor.
EvidenceTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.EvidenceTypeDescriptor
 
exclude(long, TermOccurrence) - Method in class textractor.tools.ArticleTermCount
 
ExcludedPositionProvider - Interface in textractor.learning
User: Fabien Campagne Date: May 29, 2004 Time: 4:52:01 PM
excludedPositions(AnnotationSource) - Method in class textractor.learning.DoubleBagOfWordExporter
Returns the set of positions that should be excluded from the feature export for this annotation.
excludedPositions(AnnotationSource) - Method in interface textractor.learning.ExcludedPositionProvider
Returns the set of positions that should be excluded from the feature export for this annotation.
excludedPositions(AnnotationSource) - Method in class textractor.learning.ExcludeWindowCenter
Returns the set of positions that should be excluded from the feature export for this annotation.
excludedPostfix - Variable in class textractor.tools.ArticleTermCount
 
excludedPrefix - Variable in class textractor.tools.ArticleTermCount
 
ExcludeWindowCenter - Class in textractor.learning
User: Fabien Campagne Date: May 29, 2004 Time: 7:38:04 PM
ExcludeWindowCenter() - Constructor for class textractor.learning.ExcludeWindowCenter
 
execute(Context) - Method in class textractor.chain.AbstractSentenceConsumer
 
execute(Context) - Method in class textractor.chain.AbstractSentenceProducer
See the Chain JavaDoc.
execute(Context) - Method in class textractor.chain.AbstractSentenceTransformer
See the Chain JavaDoc.
execute() - Method in class textractor.tools.chain.ChainExecutor
 
EXEMPLIGRATIA - Static variable in interface textractor.parsers.extractor.ExtractionEngineConstants
 
expand(int[], QueryTerm[], int) - Method in interface textractor.pseudorelevance.PseudoRelevanceFeedback
Inspect top documents and suggest query expansion terms.
expand(int[], QueryTerm[], int) - Method in class textractor.pseudorelevance.TermSelectionPseudoRelevanceFeedback
 
expand(int[], QueryTerm[], int) - Method in class textractor.pseudorelevance.TfIdfPseudoRelevanceFeedback
 
expandConsensus(int[], QueryTerm[], int) - Method in interface textractor.pseudorelevance.PseudoRelevanceFeedback
Inspect top documents and suggest query expansion terms common across some top documents.
expandConsensus(int[], QueryTerm[], int) - Method in class textractor.pseudorelevance.TermSelectionPseudoRelevanceFeedback
 
expandConsensus(int[], QueryTerm[], int) - Method in class textractor.pseudorelevance.TfIdfPseudoRelevanceFeedback
Return back the tf-idf terms that are in at 10% of the documents (to a minimum of 1 fo the documents).
expandConsensus(int[], QueryTerm[], int, int) - Method in class textractor.pseudorelevance.TfIdfPseudoRelevanceFeedback
Same as expand, but rejects terms that occur in less than a documentCountThreshold among the top hits.
Expansion - Class in textractor.acronyms.xml
Class Expansion.
Expansion() - Constructor for class textractor.acronyms.xml.Expansion
 
ExpansionAnalyser - Class in textractor.tools.expansion
 
ExpansionAnalyser() - Constructor for class textractor.tools.expansion.ExpansionAnalyser
 
ExpansionAnalyser(String) - Constructor for class textractor.tools.expansion.ExpansionAnalyser
 
ExpansionAnalyser(String, String) - Constructor for class textractor.tools.expansion.ExpansionAnalyser
 
ExpansionDescriptor - Class in textractor.acronyms.xml
Class ExpansionDescriptor.
ExpansionDescriptor() - Constructor for class textractor.acronyms.xml.ExpansionDescriptor
 
ExpansionHandler - Class in textractor.tools.expansion
 
ExpansionHandler() - Constructor for class textractor.tools.expansion.ExpansionHandler
 
Expansions - Class in textractor.acronyms.xml
Class Expansions.
Expansions() - Constructor for class textractor.acronyms.xml.Expansions
 
expansionsContainAcronym(String) - Method in class textractor.tools.expansion.ExpansionAnalyser
 
ExpansionsDescriptor - Class in textractor.acronyms.xml
Class ExpansionsDescriptor.
ExpansionsDescriptor() - Constructor for class textractor.acronyms.xml.ExpansionsDescriptor
 
ExpansionsItem - Class in textractor.acronyms.xml
Class ExpansionsItem.
ExpansionsItem() - Constructor for class textractor.acronyms.xml.ExpansionsItem
 
ExpansionsItemDescriptor - Class in textractor.acronyms.xml
Class ExpansionsItemDescriptor.
ExpansionsItemDescriptor() - Constructor for class textractor.acronyms.xml.ExpansionsItemDescriptor
 
ExpansionTerm - Class in textractor.tools.expansion
 
ExpansionTerm() - Constructor for class textractor.tools.expansion.ExpansionTerm
 
ExpansionTerm(String, long) - Constructor for class textractor.tools.expansion.ExpansionTerm
 
expectedTokenSequences - Variable in exception textractor.parsers.extractor.ParseException
Each entry in this array is an array of integers.
export(FeatureCreationParameters) - Method in class textractor.tools.getTermsByClass
 
export(FeatureCreationParameters) - Method in class textractor.tools.io.ExportRecords
 
export(FeatureCreationParameters) - Method in class textractor.tools.io.ExportRecordsByArticle
 
export(FeatureCreationParameters) - Method in class textractor.tools.io.ExportTrainingRecords
 
export(DbManager, int, int, Writer, String) - Method in class textractor.tools.io.ExportTrainingRecordsLeftRight
 
export(FeatureCreationParameters) - Method in class textractor.tools.io.ExportUnannotatedRecords
 
ExportArticleFeatures - Class in textractor.tools.io
Export features for one or several articles.
ExportArticleFeatures() - Constructor for class textractor.tools.io.ExportArticleFeatures
 
exportCategory - Variable in class textractor.tools.io.ExportImport
 
exportClassLabel(int, Writer, AnnotationSource) - Method in class textractor.learning.BagOfWordExporter
 
exporter - Variable in class textractor.tools.io.ExportRecords
 
ExportImport - Class in textractor.tools.io
Created by IntelliJ IDEA.
ExportImport() - Constructor for class textractor.tools.io.ExportImport
 
ExportRecords - Class in textractor.tools.io
Created by IntelliJ IDEA.
ExportRecords() - Constructor for class textractor.tools.io.ExportRecords
 
ExportRecordsByArticle - Class in textractor.tools.io
Created by IntelliJ IDEA.
ExportRecordsByArticle() - Constructor for class textractor.tools.io.ExportRecordsByArticle
 
exportSingleFeatureWindow(SingleBagOfWordFeatureCreationParameters, int, int, int[], Writer) - Method in class textractor.learning.SingleBagOfWordExporter
 
ExportTermsByArticle - Class in textractor.tools.io
Created by IntelliJ IDEA.
ExportTermsByArticle() - Constructor for class textractor.tools.io.ExportTermsByArticle
 
ExportTrainingRecords - Class in textractor.tools.io
A tool to export annotation in a format suitable for training a machine learning algorithm.
ExportTrainingRecords() - Constructor for class textractor.tools.io.ExportTrainingRecords
 
ExportTrainingRecords(DbManager, int, Writer, Writer) - Constructor for class textractor.tools.io.ExportTrainingRecords
 
ExportTrainingRecordsLeftRight - Class in textractor.tools.io
A tool to export annotation in a format suitable for training a machine learning algorithm.
ExportTrainingRecordsLeftRight() - Constructor for class textractor.tools.io.ExportTrainingRecordsLeftRight
 
ExportUnannotatedRecords - Class in textractor.tools.io
A tool to export annotation in a format suitable for training a machine learning algorithm.
ExportUnannotatedRecords() - Constructor for class textractor.tools.io.ExportUnannotatedRecords
 
extendOnLeft(DocumentQueryResult, String) - Method in class textractor.database.DocumentIndexManager
Extend the result of a query exact order on the left, by one word.
extendOnRight(DocumentQueryResult, String) - Method in class textractor.database.DocumentIndexManager
Extend the result of a query exact order on the right, by one word.
extent() - Method in class textractor.tools.QueryResultIntervalIterator
 
EXTERNAL - Static variable in class textractor.xml.uniprot.xml.types.IsequenceTypeType
The instance of the external type
EXTERNAL_TYPE - Static variable in class textractor.xml.uniprot.xml.types.IsequenceTypeType
The external type
extractAttribute(Tag, Attribute) - Method in class textractor.html.TextractorTextExtractingVisitor
 
ExtractionEngine - Class in textractor.parsers.extractor
 
ExtractionEngine(TokenManager) - Constructor for class textractor.parsers.extractor.ExtractionEngine
 
ExtractionEngineConstants - Interface in textractor.parsers.extractor
 
extractPrefixSuffix(MutableString, String, String) - Static method in class textractor.tools.biostems.FSMPrefixSuffix
 
extractPrefixSuffix(MutableString, String, String) - Static method in class textractor.tools.biostems.ObtainPrefixSuffix
 
extractSpaceDelimitedTerms(CharSequence) - Method in class textractor.database.DocumentIndexManager
Extracts indexed terms from a document.
extractTerms(Sentence) - Method in class textractor.database.DocumentIndexManager
Extract the positioned terms for the given sentence.
extractTerms(CharSequence) - Method in class textractor.database.DocumentIndexManager
Extracts indexed terms from a document using the "text" index.
extractTerms(IndexDetails, CharSequence) - Method in class textractor.database.DocumentIndexManager
Extract the int terms from a document using the given indexAlias index.
extractTerms(CharSequence, char) - Method in class textractor.database.DocumentIndexManager
Deprecated. use the version that processes a MutableString documentContent instead.
extractTerms(IndexDetails, CharSequence, Character) - Method in class textractor.database.DocumentIndexManager
Convert the string in documentContent into index term int's within the index associated with indexAlias.
extractTerms(String, MutableString) - Method in class textractor.util.HTMLByteLocator
 

F

FA - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The instance of the FA type
FA_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The FA type
factory() - Method in class textractor.database.TextractorDBDocumentSequence
 
factory() - Method in class textractor.didyoumean.DidYouMeanDocumentSequence
 
factory() - Method in class textractor.mg4j.document.DocStoreDocumentCollection
Return the DocumentFactory associated with this DocStoreDocumentCollection.
factory() - Method in class textractor.mg4j.document.TextractorQueueDocumentSequence
Returns the factory used by this sequence.
FastaFileLoader - Class in textractor.chain.loader
Load a Fasta file as article sentence pairs.
FastaFileLoader() - Constructor for class textractor.chain.loader.FastaFileLoader
 
FASTOBJECTS_LICENSE - Static variable in class textractor.database.TextractorDatabaseConstants
Name of Parameter which contains the FastObjects License.
Feature - Class in textractor.xml.uniprot.xml
Class Feature.
Feature() - Constructor for class textractor.xml.uniprot.xml.Feature
 
FeatureCreationParameters - Class in textractor.datamodel
User: Fabien Campagne Date: Jan 19, 2004 Time: 1:24:19 PM
FeatureCreationParameters() - Constructor for class textractor.datamodel.FeatureCreationParameters
 
FeatureDescriptor - Class in textractor.xml.uniprot.xml
Class FeatureDescriptor.
FeatureDescriptor() - Constructor for class textractor.xml.uniprot.xml.FeatureDescriptor
 
Features - Class in textractor.tools
A class to store features.
Features() - Constructor for class textractor.tools.Features
 
FeatureType - Class in textractor.xml.uniprot.xml
Currently there is only one basic feature type, but this will change in future with enhancement of the FT line parsers.
FeatureType() - Constructor for class textractor.xml.uniprot.xml.FeatureType
 
FeatureTypeDescriptor - Class in textractor.xml.uniprot.xml
Class FeatureTypeDescriptor.
FeatureTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.FeatureTypeDescriptor
 
FeatureTypeTypeType - Class in textractor.xml.uniprot.xml.types
Class FeatureTypeTypeType.
FeatureTypeTypeTypeDescriptor - Class in textractor.xml.uniprot.xml.types
Class FeatureTypeTypeTypeDescriptor.
FeatureTypeTypeTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.types.FeatureTypeTypeTypeDescriptor
 
FI - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The instance of the FI type
FI_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The FI type
fieldErrorString(TextractorFieldInfo, Object) - Static method in class textractor.chain.indexer.Indexer
The value is not valid for the fieldInfo.tyep.
fieldIndex(String) - Method in class textractor.didyoumean.DidYouMeanDocumentFactory
Returns the index of a field, given its symbolic name.
fieldIndex(String) - Method in class textractor.mg4j.document.AbstractTextractorDocumentFactory
Returns the index of a field, given its symbolic name.
fieldName(int) - Method in class textractor.didyoumean.DidYouMeanDocumentFactory
Returns the symbolic name of a field.
fieldName(int) - Method in class textractor.mg4j.document.AbstractTextractorDocumentFactory
Returns the symbolic name of a field.
fields - Variable in class textractor.mg4j.document.AbstractTextractorDocumentFactory
Fields and configuration associated with this DocumentFactory.
fieldType(int) - Method in class textractor.didyoumean.DidYouMeanDocumentFactory
 
fieldType(int) - Method in class textractor.mg4j.document.AbstractTextractorDocumentFactory
Returns the type of a field.
filename - Variable in class textractor.chain.loader.SimplifiedDefaultCallback
The filename being proessed.
filename - Variable in class textractor.datamodel.ArticleInfo
 
Filter - Class in textractor.chain.transformer
A SentenceTransformer that transforms sentences using a specific SentenceFilter
Filter() - Constructor for class textractor.chain.transformer.Filter
Create a new SentenceTransformer.
FILTER_ACRONYM - Static variable in class textractor.mg4j.index.IndexerOptions
 
FILTER_ACRONYM - Static variable in class textractor.tools.BuildDocumentIndex
 
FILTER_NONE - Static variable in class textractor.mg4j.index.IndexerOptions
 
FILTER_NONE - Static variable in class textractor.tools.BuildDocumentIndex
 
FILTER_REFERENCE - Static variable in class textractor.tools.BuildDocumentIndex
 
filteredSentenceCount - Variable in class textractor.mg4j.document.AbstractTextractorDocumentIterator
 
filterSentence(CharSequence) - Method in class textractor.util.NullSentenceFilter
Determine if a sentence should be removed from the index, based on the text that it contains.
filterSentence(TextractorDocument) - Method in class textractor.util.NullSentenceFilter
Determine if a sentence should be removed from the index, based on the text that it contains.
filterSentence(CharSequence) - Method in interface textractor.util.SentenceFilter
Determine if a sentence should be removed from the index, based on the text that it contains.
filterSentence(TextractorDocument) - Method in interface textractor.util.SentenceFilter
Determine if a sentence should be removed from the index, based on the text that it contains.
filterSentence(CharSequence) - Method in class textractor.util.SentenceLengthFilter
 
filterSentence(TextractorDocument) - Method in class textractor.util.SentenceLengthFilter
 
filterSentence(CharSequence) - Method in class textractor.util.SentenceParenthesesFilter
Determine if a sentence should be removed from the index, based on the text that it contains.
filterSentence(TextractorDocument) - Method in class textractor.util.SentenceParenthesesFilter
 
filterSentence(CharSequence) - Method in class textractor.util.SentenceReferenceFilter
 
filterSentence(TextractorDocument) - Method in class textractor.util.SentenceReferenceFilter
 
finalize() - Method in class textractor.database.DbManager
Close the persistence manager upon garbage collection.
finalize() - Method in interface textractor.database.TransactionManager
Finalize method for the class.
finalize() - Method in class textractor.mg4j.docstore.DocumentStoreWriter
Finalize (close).
finalize() - Method in class textractor.mg4j.index.TermIterator
 
finalize() - Method in class textractor.tools.BuildDocumentIndexFromPubmedArticles
 
findAbbreviationsForLongForm(String) - Method in class textractor.abbreviation.Abbreviation
Searches for abbreviations of the form: long form (abbreviation) in the index provided by the docmanager.
findHighestFrequencyKeywords(int) - Method in class textractor.util.Tally
Returns howMany high frequency keywords.
findMinTopFreqIdx(int[], int[]) - Method in class textractor.tools.ArticleTermCount
 
findTermIndex(CharSequence) - Method in class textractor.database.DocumentIndexManager
 
findTermIndex(IndexDetails, CharSequence) - Method in class textractor.database.DocumentIndexManager
Obtain the index of the term in the index.
FindTerms - Class in textractor.tools
Created by IntelliJ IDEA.
FindTerms() - Constructor for class textractor.tools.FindTerms
 
findTerms(String, String) - Method in class textractor.tools.FindTerms
 
findTopTermsIdx(int[], int, int) - Method in class textractor.tools.ArticleTermCount
 
fireSentenceProcessedEvent(Sentence) - Method in class textractor.sentence.AbstractSentenceProcessor
Fire a sentence processed event to the listeners.
fireSentenceProcessingCompleteEvent() - Method in class textractor.sentence.AbstractSentenceProcessor
Fire a sentence processing complete event to the listeners.
FIRST_TERM - Static variable in interface textractor.datamodel.annotation.AnnotationSource
 
FirstName - Class in textractor.xml.pubmed.xml
Class FirstName.
FirstName() - Constructor for class textractor.xml.pubmed.xml.FirstName
 
FirstName - Class in textractor.xml.pubmedabstracts.xml
Class FirstName.
FirstName() - Constructor for class textractor.xml.pubmedabstracts.xml.FirstName
 
FirstNameDescriptor - Class in textractor.xml.pubmed.xml
Class FirstNameDescriptor.
FirstNameDescriptor() - Constructor for class textractor.xml.pubmed.xml.FirstNameDescriptor
 
FirstNameDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class FirstNameDescriptor.
FirstNameDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.FirstNameDescriptor
 
FirstNameItem - Class in textractor.xml.pubmed.xml
Class FirstNameItem.
FirstNameItem() - Constructor for class textractor.xml.pubmed.xml.FirstNameItem
 
FirstNameItem - Class in textractor.xml.pubmedabstracts.xml
Class FirstNameItem.
FirstNameItem() - Constructor for class textractor.xml.pubmedabstracts.xml.FirstNameItem
 
FirstNameItemDescriptor - Class in textractor.xml.pubmed.xml
Class FirstNameItemDescriptor.
FirstNameItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.FirstNameItemDescriptor
 
FirstNameItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class FirstNameItemDescriptor.
FirstNameItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.FirstNameItemDescriptor
 
firstNonEmptyValue(CharSequence, CharSequence...) - Static method in class textractor.util.ICBMutableStringUtils
Return the first item in preferredOrder that exists and is not empty.
firstPass(FeatureCreationParameters, Collection<AnnotationSource>) - Method in class textractor.learning.DoubleBagOfWordExporter
 
firstPass(FeatureCreationParameters, Collection<AnnotationSource>) - Method in class textractor.learning.PhosphorylateBagOfWordExporter
 
firstPass(FeatureCreationParameters, Collection<AnnotationSource>) - Method in class textractor.learning.SingleBagOfWordExporter
First pass determines the terms that should be considered as features.
firstPass(SingleBagOfWordFeatureCreationParameters, Collection<AnnotationSource>, int) - Method in class textractor.learning.SingleBagOfWordExporter
First pass determines the terms that should be considered as features.
firstPass(SingleBagOfWordFeatureCreationParameters, Collection<AnnotationSource>) - Method in class textractor.learning.SingleBagOfWordExporter
First pass determines the terms that should be considered as features.
firstPass(FeatureCreationParameters, Collection<AnnotationSource>) - Method in interface textractor.learning.SVMFeatureExporter
Determine what the features are.
firstWord() - Method in class textractor.tools.expansion.CandidateExpansion
 
FisherDistanceCalculator - Class in textractor.tools.clustering
 
FisherDistanceCalculator(DocumentIndexManager, TermSimilarityMatrix, int[], String[], FisherDistanceCalculator.DistanceType) - Constructor for class textractor.tools.clustering.FisherDistanceCalculator
 
FisherDistanceCalculator(DocumentIndexManager, TermSimilarityMatrix, String[], FisherDistanceCalculator.DistanceType) - Constructor for class textractor.tools.clustering.FisherDistanceCalculator
 
FisherDistanceCalculator.DistanceType - Enum in textractor.tools.clustering
 
flush() - Method in class textractor.learning.AnnotationFormatWriter
 
flush() - Method in class textractor.mg4j.docstore.DocumentStoreWriter
Flush the output files.
flush() - Method in class textractor.mg4j.docstore.StringPerDocumentWriter
 
ForeName - Class in textractor.xml.pubmed.xml
Class ForeName.
ForeName() - Constructor for class textractor.xml.pubmed.xml.ForeName
 
ForeName - Class in textractor.xml.pubmedabstracts.xml
Class ForeName.
ForeName() - Constructor for class textractor.xml.pubmedabstracts.xml.ForeName
 
ForeNameDescriptor - Class in textractor.xml.pubmed.xml
Class ForeNameDescriptor.
ForeNameDescriptor() - Constructor for class textractor.xml.pubmed.xml.ForeNameDescriptor
 
ForeNameDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ForeNameDescriptor.
ForeNameDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ForeNameDescriptor
 
ForeNameItem - Class in textractor.xml.pubmed.xml
Class ForeNameItem.
ForeNameItem() - Constructor for class textractor.xml.pubmed.xml.ForeNameItem
 
ForeNameItem - Class in textractor.xml.pubmedabstracts.xml
Class ForeNameItem.
ForeNameItem() - Constructor for class textractor.xml.pubmedabstracts.xml.ForeNameItem
 
ForeNameItemDescriptor - Class in textractor.xml.pubmed.xml
Class ForeNameItemDescriptor.
ForeNameItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.ForeNameItemDescriptor
 
ForeNameItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class ForeNameItemDescriptor.
ForeNameItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.ForeNameItemDescriptor
 
FORMER - Static variable in class textractor.xml.pubmed.xml.types.FrequencyItemFrequencyTypeType
The instance of the Former type
FORMER - Static variable in class textractor.xml.pubmedabstracts.xml.types.FrequencyItemFrequencyTypeType
The instance of the Former type
FORMER_TYPE - Static variable in class textractor.xml.pubmed.xml.types.FrequencyItemFrequencyTypeType
The Former type
FORMER_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.FrequencyItemFrequencyTypeType
The Former type
FOUR_END - Static variable in class textractor.didyoumean.DidYouMeanDocumentFactory
 
FOUR_START - Static variable in class textractor.didyoumean.DidYouMeanDocumentFactory
 
FR - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The instance of the FR type
FR_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemLangType
The FR type
FRAGMENT - Static variable in class textractor.xml.uniprot.xml.types.ProteinTypeTypeType
The instance of the fragment type
FRAGMENT_TYPE - Static variable in class textractor.xml.uniprot.xml.types.ProteinTypeTypeType
The fragment type
FRAGMENTS - Static variable in class textractor.xml.uniprot.xml.types.ProteinTypeTypeType
The instance of the fragments type
FRAGMENTS_TYPE - Static variable in class textractor.xml.uniprot.xml.types.ProteinTypeTypeType
The fragments type
frequencies(int, int[], int[]) - Method in class textractor.mg4j.docstore.DocumentStoreReader
Get frequencies.
frequency(String[], TermFrequency) - Method in class textractor.database.DocumentIndexManager
Calculates the number of times a query matches a corpus.
frequency(int) - Method in class textractor.database.DocumentIndexManager
Obtain frequency information for a single term in the index for the indexAlias named "text".
frequency(String, int) - Method in class textractor.database.DocumentIndexManager
Obtain frequency information for a single term in the index for the specified indexAlias.
Frequency - Class in textractor.xml.pubmed.xml
Class Frequency.
Frequency() - Constructor for class textractor.xml.pubmed.xml.Frequency
 
Frequency - Class in textractor.xml.pubmedabstracts.xml
Class Frequency.
Frequency() - Constructor for class textractor.xml.pubmedabstracts.xml.Frequency
 
FrequencyCalculator - Interface in textractor.tools
FrequencyCalculator classes are used to extend the FrequencyScorer class.
FrequencyDescriptor - Class in textractor.xml.pubmed.xml
Class FrequencyDescriptor.
FrequencyDescriptor() - Constructor for class textractor.xml.pubmed.xml.FrequencyDescriptor
 
FrequencyDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class FrequencyDescriptor.
FrequencyDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.FrequencyDescriptor
 
FrequencyItem - Class in textractor.xml.pubmed.xml
Class FrequencyItem.
FrequencyItem() - Constructor for class textractor.xml.pubmed.xml.FrequencyItem
 
FrequencyItem - Class in textractor.xml.pubmedabstracts.xml
Class FrequencyItem.
FrequencyItem() - Constructor for class textractor.xml.pubmedabstracts.xml.FrequencyItem
 
FrequencyItemDescriptor - Class in textractor.xml.pubmed.xml
Class FrequencyItemDescriptor.
FrequencyItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.FrequencyItemDescriptor
 
FrequencyItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class FrequencyItemDescriptor.
FrequencyItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.FrequencyItemDescriptor
 
FrequencyItemFrequencyTypeType - Class in textractor.xml.pubmed.xml.types
Class FrequencyItemFrequencyTypeType.
FrequencyItemFrequencyTypeType - Class in textractor.xml.pubmedabstracts.xml.types
Class FrequencyItemFrequencyTypeType.
FrequencyItemFrequencyTypeTypeDescriptor - Class in textractor.xml.pubmed.xml.types
Class FrequencyItemFrequencyTypeTypeDescriptor.
FrequencyItemFrequencyTypeTypeDescriptor() - Constructor for class textractor.xml.pubmed.xml.types.FrequencyItemFrequencyTypeTypeDescriptor
 
FrequencyItemFrequencyTypeTypeDescriptor - Class in textractor.xml.pubmedabstracts.xml.types
Class FrequencyItemFrequencyTypeTypeDescriptor.
FrequencyItemFrequencyTypeTypeDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.types.FrequencyItemFrequencyTypeTypeDescriptor
 
FrequencyScorer - Class in textractor.tools
FrequencyScorer objects provide a weighted score based on a term's frequency in a corpus.
FrequencyScorer() - Constructor for class textractor.tools.FrequencyScorer
 
FrequencyStorage - Interface in textractor.mg4j.docstore
Implementations of this interface can store term frequency information.
FrequencyStorageImpl - Class in textractor.mg4j.docstore
Storage for term frequencies.
FrequencyStorageImpl(int) - Constructor for class textractor.mg4j.docstore.FrequencyStorageImpl
 
FrequencyStorageImpl(TermIndexTransform) - Constructor for class textractor.mg4j.docstore.FrequencyStorageImpl
 
fromAnnotationClass - Static variable in interface textractor.learning.SVMFeatureExporter
 
frozen - Variable in class textractor.chain.AbstractSentenceProducer
Flag indicating whether the configuration of our commands list has been frozen by a call to the execute() method.
frozen - Variable in class textractor.chain.AbstractSentenceTransformer
Flag indicating whether the configuration of our commands list has been frozen by a call to the execute() method.
FSMPrefixSuffix - Class in textractor.tools.biostems
Collects prefix and suffixes for a list of stems in a term dictionary.
FSMPrefixSuffix() - Constructor for class textractor.tools.biostems.FSMPrefixSuffix
 
FULL - Static variable in class textractor.xml.uniprot.xml.types.OrganismNameTypeTypeType
The instance of the full type
FULL_TYPE - Static variable in class textractor.xml.uniprot.xml.types.OrganismNameTypeTypeType
The full type
FULLTEXT - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemTypeType
The instance of the FullText type
FULLTEXT_TYPE - Static variable in class textractor.xml.pubmedabstracts.xml.types.URLItemTypeType
The FullText type
FUNCTION - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The instance of the function type
FUNCTION_TYPE - Static variable in class textractor.xml.uniprot.xml.types.CommentTypeTypeType
The function type

G

GenbankParser - Class in textractor.tools.genbank
User: campagne Date: Aug 4, 2005 Time: 2:47:52 PM
GenbankParser(BufferedReader) - Constructor for class textractor.tools.genbank.GenbankParser
 
Gene - Class in textractor.xml.uniprot.xml
Class Gene.
Gene() - Constructor for class textractor.xml.uniprot.xml.Gene
 
GeneDescriptor - Class in textractor.xml.uniprot.xml
Class GeneDescriptor.
GeneDescriptor() - Constructor for class textractor.xml.uniprot.xml.GeneDescriptor
 
GeneLocation - Class in textractor.xml.uniprot.xml
Class GeneLocation.
GeneLocation() - Constructor for class textractor.xml.uniprot.xml.GeneLocation
 
GeneLocationDescriptor - Class in textractor.xml.uniprot.xml
Class GeneLocationDescriptor.
GeneLocationDescriptor() - Constructor for class textractor.xml.uniprot.xml.GeneLocationDescriptor
 
GeneLocationType - Class in textractor.xml.uniprot.xml
Defines the locations/origins of the shown sequence (OG line).
GeneLocationType() - Constructor for class textractor.xml.uniprot.xml.GeneLocationType
 
GeneLocationTypeDescriptor - Class in textractor.xml.uniprot.xml
Class GeneLocationTypeDescriptor.
GeneLocationTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.GeneLocationTypeDescriptor
 
GeneLocationTypeTypeType - Class in textractor.xml.uniprot.xml.types
Class GeneLocationTypeTypeType.
GeneLocationTypeTypeTypeDescriptor - Class in textractor.xml.uniprot.xml.types
Class GeneLocationTypeTypeTypeDescriptor.
GeneLocationTypeTypeTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.types.GeneLocationTypeTypeTypeDescriptor
 
GeneNameType - Class in textractor.xml.uniprot.xml
The gene name type is used for gene information.
GeneNameType() - Constructor for class textractor.xml.uniprot.xml.GeneNameType
 
GeneNameTypeDescriptor - Class in textractor.xml.uniprot.xml
Class GeneNameTypeDescriptor.
GeneNameTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.GeneNameTypeDescriptor
 
GeneNameTypeTypeType - Class in textractor.xml.uniprot.xml.types
Class GeneNameTypeTypeType.
GeneNameTypeTypeTypeDescriptor - Class in textractor.xml.uniprot.xml.types
Class GeneNameTypeTypeTypeDescriptor.
GeneNameTypeTypeTypeDescriptor() - Constructor for class textractor.xml.uniprot.xml.types.GeneNameTypeTypeTypeDescriptor
 
GeneralNote - Class in textractor.xml.pubmed.xml
Class GeneralNote.
GeneralNote() - Constructor for class textractor.xml.pubmed.xml.GeneralNote
 
GeneralNote - Class in textractor.xml.pubmedabstracts.xml
Class GeneralNote.
GeneralNote() - Constructor for class textractor.xml.pubmedabstracts.xml.GeneralNote
 
GeneralNoteDescriptor - Class in textractor.xml.pubmed.xml
Class GeneralNoteDescriptor.
GeneralNoteDescriptor() - Constructor for class textractor.xml.pubmed.xml.GeneralNoteDescriptor
 
GeneralNoteDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class GeneralNoteDescriptor.
GeneralNoteDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.GeneralNoteDescriptor
 
GeneralNoteItem - Class in textractor.xml.pubmed.xml
Class GeneralNoteItem.
GeneralNoteItem() - Constructor for class textractor.xml.pubmed.xml.GeneralNoteItem
 
GeneralNoteItem - Class in textractor.xml.pubmedabstracts.xml
Class GeneralNoteItem.
GeneralNoteItem() - Constructor for class textractor.xml.pubmedabstracts.xml.GeneralNoteItem
 
GeneralNoteItemDescriptor - Class in textractor.xml.pubmed.xml
Class GeneralNoteItemDescriptor.
GeneralNoteItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.GeneralNoteItemDescriptor
 
GeneralNoteItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class GeneralNoteItemDescriptor.
GeneralNoteItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.GeneralNoteItemDescriptor
 
GeneralNoteItemOwnerType - Class in textractor.xml.pubmed.xml.types
Class GeneralNoteItemOwnerType.
GeneralNoteItemOwnerType - Class in textractor.xml.pubmedabstracts.xml.types
Class GeneralNoteItemOwnerType.
GeneralNoteItemOwnerTypeDescriptor - Class in textractor.xml.pubmed.xml.types
Class GeneralNoteItemOwnerTypeDescriptor.
GeneralNoteItemOwnerTypeDescriptor() - Constructor for class textractor.xml.pubmed.xml.types.GeneralNoteItemOwnerTypeDescriptor
 
GeneralNoteItemOwnerTypeDescriptor - Class in textractor.xml.pubmedabstracts.xml.types
Class GeneralNoteItemOwnerTypeDescriptor.
GeneralNoteItemOwnerTypeDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.types.GeneralNoteItemOwnerTypeDescriptor
 
generateParseException() - Method in class textractor.parsers.extractor.ExtractionEngine
 
GeneSymbol - Class in textractor.xml.pubmed.xml
Class GeneSymbol.
GeneSymbol() - Constructor for class textractor.xml.pubmed.xml.GeneSymbol
 
GeneSymbol - Class in textractor.xml.pubmedabstracts.xml
Class GeneSymbol.
GeneSymbol() - Constructor for class textractor.xml.pubmedabstracts.xml.GeneSymbol
 
GeneSymbolDescriptor - Class in textractor.xml.pubmed.xml
Class GeneSymbolDescriptor.
GeneSymbolDescriptor() - Constructor for class textractor.xml.pubmed.xml.GeneSymbolDescriptor
 
GeneSymbolDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class GeneSymbolDescriptor.
GeneSymbolDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.GeneSymbolDescriptor
 
GeneSymbolItem - Class in textractor.xml.pubmed.xml
Class GeneSymbolItem.
GeneSymbolItem() - Constructor for class textractor.xml.pubmed.xml.GeneSymbolItem
 
GeneSymbolItem - Class in textractor.xml.pubmedabstracts.xml
Class GeneSymbolItem.
GeneSymbolItem() - Constructor for class textractor.xml.pubmedabstracts.xml.GeneSymbolItem
 
GeneSymbolItemDescriptor - Class in textractor.xml.pubmed.xml
Class GeneSymbolItemDescriptor.
GeneSymbolItemDescriptor() - Constructor for class textractor.xml.pubmed.xml.GeneSymbolItemDescriptor
 
GeneSymbolItemDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class GeneSymbolItemDescriptor.
GeneSymbolItemDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.GeneSymbolItemDescriptor
 
GeneSymbolList - Class in textractor.xml.pubmed.xml
Class GeneSymbolList.
GeneSymbolList() - Constructor for class textractor.xml.pubmed.xml.GeneSymbolList
 
GeneSymbolList - Class in textractor.xml.pubmedabstracts.xml
Class GeneSymbolList.
GeneSymbolList() - Constructor for class textractor.xml.pubmedabstracts.xml.GeneSymbolList
 
GeneSymbolListDescriptor - Class in textractor.xml.pubmed.xml
Class GeneSymbolListDescriptor.
GeneSymbolListDescriptor() - Constructor for class textractor.xml.pubmed.xml.GeneSymbolListDescriptor
 
GeneSymbolListDescriptor - Class in textractor.xml.pubmedabstracts.xml
Class GeneSymbolListDescriptor.
GeneSymbolListDescriptor() - Constructor for class textractor.xml.pubmedabstracts.xml.GeneSymbolListDescriptor
 
get_abstract(int) - Method in class textractor.xml.yapex.xml.Abstracts
Method get_abstract
get_abstract() - Method in class textractor.xml.yapex.xml.Abstracts
Method get_abstract
get_abstractCount() - Method in class textractor.xml.yapex.xml.Abstracts
Method get_abstractCount
getA() - Method in class textractor.util.Tuple2
 
getA() - Method in class textractor.util.Tuple3
 
getAbsorption() - Method in class textractor.xml.uniprot.xml.BpcCommentGroup
Returns the value of field 'absorption'.
getAbstract() - Method in class textractor.xml.pubmed.xml.Article
Returns the value of field 'abstract'.
getAbstract() - Method in class textractor.xml.pubmedabstracts.xml.Article
Returns the value of field 'abstract'.
getAbstractText() - Method in class textractor.xml.pubmed.xml.Abstract
Returns the value of field 'abstractText'.
getAbstractText() - Method in class textractor.xml.pubmed.xml.OtherAbstract
Returns the value of field 'abstractText'.
getAbstractText() - Method in class textractor.xml.pubmedabstracts.xml.Abstract
Returns the value of field 'abstractText'.
getAbstractText() - Method in class textractor.xml.pubmedabstracts.xml.OtherAbstract
Returns the value of field 'abstractText'.
getAbstractTextItem(int) - Method in class textractor.xml.pubmed.xml.AbstractText
Method getAbstractTextItem
getAbstractTextItem() - Method in class textractor.xml.pubmed.xml.AbstractText
Method getAbstractTextItem
getAbstractTextItem(int) - Method in class textractor.xml.pubmedabstracts.xml.AbstractText
Method getAbstractTextItem
getAbstractTextItem() - Method in class textractor.xml.pubmedabstracts.xml.AbstractText
Method getAbstractTextItem
getAbstractTextItemCount() - Method in class textractor.xml.pubmed.xml.AbstractText
Method getAbstractTextItemCount
getAbstractTextItemCount() - Method in class textractor.xml.pubmedabstracts.xml.AbstractText
Method getAbstractTextItemCount
getAccession(int) - Method in class textractor.xml.uniprot.xml.EntryType
Method getAccession
getAccession() - Method in class textractor.xml.uniprot.xml.EntryType
Method getAccession
getAccessionCode() - Method in class textractor.tools.genbank.GenbankParser
 
getAccessionCount() - Method in class textractor.xml.uniprot.xml.EntryType
Method getAccessionCount
getAccessionNumber(int) - Method in class textractor.xml.pubmed.xml.AccessionNumberList
Method getAccessionNumber
getAccessionNumber() - Method in class textractor.xml.pubmed.xml.AccessionNumberList
Method getAccessionNumber
getAccessionNumber(int) - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumberList
Method getAccessionNumber
getAccessionNumber() - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumberList
Method getAccessionNumber
getAccessionNumberCount() - Method in class textractor.xml.pubmed.xml.AccessionNumberList
Method getAccessionNumberCount
getAccessionNumberCount() - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumberList
Method getAccessionNumberCount
getAccessionNumberItem(int) - Method in class textractor.xml.pubmed.xml.AccessionNumber
Method getAccessionNumberItem
getAccessionNumberItem() - Method in class textractor.xml.pubmed.xml.AccessionNumber
Method getAccessionNumberItem
getAccessionNumberItem(int) - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumber
Method getAccessionNumberItem
getAccessionNumberItem() - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumber
Method getAccessionNumberItem
getAccessionNumberItemCount() - Method in class textractor.xml.pubmed.xml.AccessionNumber
Method getAccessionNumberItemCount
getAccessionNumberItemCount() - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumber
Method getAccessionNumberItemCount
getAccessionNumberList() - Method in class textractor.xml.pubmed.xml.DataBank
Returns the value of field 'accessionNumberList'.
getAccessionNumberList() - Method in class textractor.xml.pubmedabstracts.xml.DataBank
Returns the value of field 'accessionNumberList'.
getAccessMode() - Method in class textractor.acronyms.xml.AcronymDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.acronyms.xml.AcronymsDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.acronyms.xml.AcronymsItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.acronyms.xml.ExpansionDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.acronyms.xml.ExpansionsDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.acronyms.xml.ExpansionsItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.acronyms.xml.ShortFormDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AbstractDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AbstractTextDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AbstractTextItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AccessionNumberDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AccessionNumberItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AccessionNumberListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AcronymDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AcronymItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AffiliationDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AffiliationItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AgencyDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AgencyItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ArticleChoiceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ArticleDateDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ArticleDateSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ArticleDateSequenceSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ArticleDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ArticleTitleDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ArticleTitleItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AuthorChoiceChoiceSequenceChoiceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AuthorChoiceChoiceSequenceChoiceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AuthorChoiceChoiceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AuthorChoiceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AuthorDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.AuthorListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.BookDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.BroadJournalHeadingDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.BroadJournalHeadingItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.BroadJournalHeadingListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ChemicalDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ChemicalListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CitationSubsetDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CitationSubsetItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CodenDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CodenItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CollectionTitleDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CollectionTitleItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CollectiveNameDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CollectiveNameItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CommentInDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CommentOnDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CommentsCorrectionsDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CopyrightInformationDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CopyrightInformationItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CountryDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CountryItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CoverageDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.CoverageItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DataBankDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DataBankListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DataBankNameDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DataBankNameItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DateCompletedDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DateCompletedSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DateCompletedSequenceSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DateCreatedDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DateCreatedSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DateCreatedSequenceSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DateIssuedDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DateIssuedItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DateRevisedDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DateRevisedSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DateRevisedSequenceSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DatesAssociatedWithNameDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DatesAssociatedWithNameItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DatesOfSerialPublicationDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DatesOfSerialPublicationItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DayDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DayItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DeleteCitationDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DescriptorNameDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.DescriptorNameItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.EditionDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.EditionItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ElectronicPubDateDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.EndPageDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.EndPageItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ErratumForDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ErratumInDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.FirstNameDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.FirstNameItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ForeNameDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ForeNameItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.FrequencyDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.FrequencyItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.GeneralNoteDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.GeneralNoteItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.GeneSymbolDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.GeneSymbolItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.GeneSymbolListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.GrantDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.GrantIDDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.GrantIDItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.GrantListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.HourDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.HourItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ImprintDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ImprintItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.InitialsDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.InitialsItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.InvestigatorDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.InvestigatorListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.InvestigatorSequenceChoiceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.InvestigatorSequenceChoiceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.InvestigatorSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ISOAbbreviationDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ISOAbbreviationItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ISSNDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ISSNItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.IssueDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.IssueItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.JournalDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.JournalIssueDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.KeywordDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.KeywordItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.KeywordListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.LanguageDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.LanguageItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.LastNameDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.LastNameItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MedlineCitationDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MedlineCitationSetDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MedlineDateDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MedlineDateItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MedlineJournalInfoDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MedlinePgnDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MedlinePgnItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MedlineTADescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MedlineTAItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MeshHeadingDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MeshHeadingListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MiddleNameDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MiddleNameItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MinuteDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MinuteItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MonthDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.MonthItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.NameOfSubstanceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.NameOfSubstanceItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.NameQualifierDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.NameQualifierItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.NCBIArticleDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.NlmDcmsIDDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.NlmDcmsIDItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.NlmUniqueIDDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.NlmUniqueIDItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.NoteDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.NoteItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.NumberOfReferencesDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.NumberOfReferencesItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.OriginalReportInDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.OtherAbstractDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.OtherIDDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.OtherIDItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.OtherInformationDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.OtherInformationItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PaginationDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PaginationSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PersonalNameSubjectDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PersonalNameSubjectListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PersonalNameSubjectSequenceChoiceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PersonalNameSubjectSequenceChoiceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PersonalNameSubjectSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PlaceCodeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PlaceCodeItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PlaceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PlaceItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PMIDDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PMIDItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ProjectedPublicationDateDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ProjectedPublicationDateItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PubDateChoiceSequenceChoiceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PubDateChoiceSequenceChoiceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PubDateChoiceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PubDateDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PublicationEndYearDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PublicationEndYearItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PublicationFirstYearDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PublicationFirstYearItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PublicationInfoDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PublicationTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PublicationTypeItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PublicationTypeListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PublisherDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.PublisherItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.QualifierNameDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.QualifierNameItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.RefSourceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.RefSourceItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.RegistryNumberDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.RegistryNumberItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ReprintInDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.ReprintOfDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.RepublishedFromDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.RepublishedInDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.RetractionInDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.RetractionOfDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.SeasonDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.SeasonItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.SecondDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.SecondItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.SpaceFlightMissionDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.SpaceFlightMissionItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.StartPageDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.StartPageItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.SuffixDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.SuffixItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.SummaryForPatientsInDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.TitleAssociatedWithNameDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.TitleAssociatedWithNameItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.TitleDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.TitleItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.ArticlePubModelTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.AuthorListCompleteYNTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.AuthorValidYNTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.DataBankListCompleteYNTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.DescriptorNameItemMajorTopicYNTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.ElectronicPubDateOfficialDateYNTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.FrequencyItemFrequencyTypeTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.GeneralNoteItemOwnerTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.GrantListCompleteYNTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.KeywordItemMajorTopicYNTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.KeywordListOwnerTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.MedlineCitationOwnerTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.MedlineCitationStatusTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.OtherAbstractTypeTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.OtherIDItemSourceTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.PlaceItemImprintTypeTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.types.QualifierNameItemMajorTopicYNTypeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.UpdateInDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.UpdateOfDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.VernacularTitleDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.VernacularTitleItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.VolumeDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.VolumeItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.YearDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmed.xml.YearItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AbstractDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AbstractTextDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AbstractTextItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumberDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumberItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AccessionNumberListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AcronymDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AcronymItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AffiliationDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AffiliationItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AgencyDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AgencyItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.ArticleChoiceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.ArticleDateDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.ArticleDateSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.ArticleDateSequenceSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.ArticleDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.ArticleIdDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.ArticleIdItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.ArticleIdListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.ArticleTitleDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.ArticleTitleItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AuthorChoiceChoiceSequenceChoiceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AuthorChoiceChoiceSequenceChoiceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AuthorChoiceChoiceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AuthorChoiceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AuthorDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.AuthorListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.BookDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.BroadJournalHeadingDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.BroadJournalHeadingItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.BroadJournalHeadingListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.ChemicalDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.ChemicalListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CitationSubsetDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CitationSubsetItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CodenDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CodenItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CollectionTitleDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CollectionTitleItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CollectiveNameDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CollectiveNameItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CommentInDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CommentOnDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CommentsCorrectionsDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CopyrightInformationDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CopyrightInformationItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CountryDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CountryItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CoverageDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.CoverageItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DataBankDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DataBankListDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DataBankNameDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DataBankNameItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DateCompletedDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DateCompletedSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DateCompletedSequenceSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DateCreatedDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DateCreatedSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DateCreatedSequenceSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DateIssuedDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DateIssuedItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DateRevisedDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DateRevisedSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DateRevisedSequenceSequenceSequenceDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DatesAssociatedWithNameDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DatesAssociatedWithNameItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DatesOfSerialPublicationDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DatesOfSerialPublicationItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DayDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.DayItemDescriptor
Method getAccessMode
getAccessMode() - Method in class textractor.xml.pubmedabstracts.xml.