Serialized Form

Package psidev.psi.mi.jami.analysis.graph.model

Class psidev.psi.mi.jami.analysis.graph.model.BindingFeatureGraph extends org.jgrapht.graph.Pseudograph<T extends Feature,BindingPair<T extends Feature>> implements Serializable

Package psidev.psi.mi.jami.bridges.exception

Class psidev.psi.mi.jami.bridges.exception.BridgeFailedException extends Exception implements Serializable

Package psidev.psi.mi.jami.bridges.ols

Class psidev.psi.mi.jami.bridges.ols.LazyTermLoadingException extends RuntimeException implements Serializable

Package psidev.psi.mi.jami.bridges.uniprot.rest

Class psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClientException extends Exception implements Serializable

Package psidev.psi.mi.jami.enricher.exception

Class psidev.psi.mi.jami.enricher.exception.EnricherException extends Exception implements Serializable

Package psidev.psi.mi.jami.exception

Class psidev.psi.mi.jami.exception.ComplexExpansionException extends Exception implements Serializable

Class psidev.psi.mi.jami.exception.IllegalParameterException extends Exception implements Serializable

Class psidev.psi.mi.jami.exception.IllegalRangeException extends Exception implements Serializable

Class psidev.psi.mi.jami.exception.MIIOException extends RuntimeException implements Serializable

Package psidev.psi.mi.jami.model

Class psidev.psi.mi.jami.model.ParameterValue extends Number implements Serializable

Serialized Fields

base

short base

exponent

short exponent

factor

BigDecimal factor

Package psidev.psi.mi.jami.model.impl

Class psidev.psi.mi.jami.model.impl.AbstractFeature.FeatureIdentifierList extends AbstractListHavingProperties<Xref> implements Serializable

Package psidev.psi.mi.jami.tab.io.parser

Class psidev.psi.mi.jami.tab.io.parser.ParseException extends Exception implements Serializable

serialVersionUID:

1L

Serialized Fields

currentToken

Token currentToken

This is the last token that has been consumed successfully. If this object has been created due to a parse error, the token followng this token will (therefore) be the first error token.

eol

String eol

The end of line string for this machine.

expectedTokenSequences

int[][] expectedTokenSequences

Each entry in this array is an array of integers. Each array of integers represents a sequence of tokens (by their ordinal values) that is expected at this point of the parse.

tokenImage

String[] tokenImage

This is a reference to the "tokenImage" array of the generated parser within which the parse error occurred. This array is defined in the generated ...Constants interface.

Class psidev.psi.mi.jami.tab.io.parser.Token extends Object implements Serializable

serialVersionUID:

1L

Serialized Fields

beginColumn

int beginColumn

The column number of the first character of this Token.

beginLine

int beginLine

The line number of the first character of this Token.

endColumn

int endColumn

The column number of the last character of this Token.

endLine

int endLine

The line number of the last character of this Token.

image

String image

The string image of the token.

kind

int kind

An integer that describes the kind of this token. This numbering system is determined by JavaCCParser, and a table of these numbers is stored in the file ...Constants.java.

next

Token next

A reference to the next regular (non-special) token from the input stream. If this is the last token from the input stream, or if the token manager has not read tokens beyond this one, this field is set to null. This is true only if this token is also a regular token. Otherwise, see below for a description of the contents of this field.

specialToken

Token specialToken

This field is used to access special tokens that occur prior to this token, but after the immediately preceding regular (non-special) token. If there are no such special tokens, this field is set to null. When there are more than one such special token, this field refers to the last of these special tokens, which in turn refers to the next previous special token through its specialToken field, and so on until the first special token (whose specialToken field is null). The next fields of special tokens refer to other special tokens that immediately follow it (without an intervening regular token). If there is no such token, this field is null.

Class psidev.psi.mi.jami.tab.io.parser.TokenMgrError extends Error implements Serializable

serialVersionUID:

1L

Serialized Fields

errorCode

int errorCode

Indicates the reason why the exception is thrown. It will have one of the above 4 values.

Package psidev.psi.mi.jami.utils.checksum

Class psidev.psi.mi.jami.utils.checksum.SeguidException extends Exception implements Serializable

Package psidev.psi.mi.jami.utils.collection

Class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties extends ArrayList<T> implements Serializable

Package psidev.psi.mi.jami.xml.exception

Class psidev.psi.mi.jami.xml.exception.PsiXmlParserException extends Exception implements Serializable

Serialized Fields

locator

FileSourceLocator locator

Package psidev.psi.mi.jami.xml.model.extension.binary

Class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence.ExperimentalBinaryInteractionXrefList extends AbstractListHavingProperties<Xref> implements Serializable

Package psidev.psi.mi.jami.xml.model.extension.xml253

Class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList extends ArrayList<Annotation> implements Serializable

Class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer.JAXBSecondaryXrefList extends ArrayList<Xref> implements Serializable

Package psidev.psi.mi.jami.xml.model.extension.xml254

Class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList extends ArrayList<Annotation> implements Serializable

Class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer.JAXBSecondaryXrefList extends ArrayList<Xref> implements Serializable

Package psidev.psi.mi.jami.xml.model.extension.xml300

Class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList extends ArrayList<Annotation> implements Serializable

Class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer.JAXBSecondaryXrefList extends ArrayList<Xref> implements Serializable