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

Class AbstractXmlSource

java.lang.Object

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

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

All Implemented Interfaces:

com.sun.xml.bind.Locatable, FileSourceContext, CvTerm, Source, ExtendedPsiXmlSource

Direct Known Subclasses:

DefaultXmlSource, XmlSource

public abstract class AbstractXmlSource
extends AbstractXmlCvTerm
implements ExtendedPsiXmlSource

Desciption of the source of the entry, usually an organisation

Java class for source complex type.

The following schema fragment specifies the expected content contained within this class. The JAXB binding is designed to be read-only and is not designed for writing

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static class	AbstractXmlSource.JAXBAttributeWrapper

Field Summary

Fields

Modifier and Type	Field	Description
protected Locator	locator

Fields inherited from interface psidev.psi.mi.jami.model.CvTerm

PSI_MI, PSI_MI_MI, PSI_MOD, PSI_MOD_MI, PSI_PAR

Constructor Summary

Constructors

Constructor	Description
AbstractXmlSource()	Constructor for AbstractXmlSource.
AbstractXmlSource(String shortName)	Constructor for AbstractXmlSource.
AbstractXmlSource(String shortName, String miId)	Constructor for AbstractXmlSource.
AbstractXmlSource(String shortName, String fullName, String miId)	Constructor for AbstractXmlSource.
AbstractXmlSource(String shortName, String fullName, String miId, String url, String address, Publication bibRef)	Constructor for AbstractXmlSource.
AbstractXmlSource(String shortName, String miId, String url, String address, Publication bibRef)	Constructor for AbstractXmlSource.
AbstractXmlSource(String shortName, String url, String address, Publication bibRef)	Constructor for AbstractXmlSource.
AbstractXmlSource(String shortName, String fullName, Xref ontologyId)	Constructor for AbstractXmlSource.
AbstractXmlSource(String shortName, String fullName, Xref ontologyId, String url, String address, Publication bibRef)	Constructor for AbstractXmlSource.
AbstractXmlSource(String shortName, Xref ontologyId)	Constructor for AbstractXmlSource.
AbstractXmlSource(String shortName, Xref ontologyId, String url, String address, Publication bibRef)	Constructor for AbstractXmlSource.

Method Summary

Modifier and Type	Method	Description
protected AbstractXmlSource.JAXBAttributeWrapper	getAttributeWrapper()	getAttributeWrapper.
String	getPostalAddress()	getPostalAddress.
Publication	getPublication()	getPublication.
String	getRelease()	Gets the value of the release property.
XMLGregorianCalendar	getReleaseDate()	Gets the value of the releaseDate property.
FileSourceLocator	getSourceLocator()	Getter for the field sourceLocator.
String	getUrl()	getUrl.
protected void	initialiseAnnotationWrapper()	initialiseAnnotationWrapper.
void	setJAXBAttributeWrapper(AbstractXmlSource.JAXBAttributeWrapper wrapper)	setJAXBAttributeWrapper.
void	setJAXBBibRef(BibRef ref)	setJAXBBibRef.
void	setJAXBNames(NamesContainer value)	setJAXBNames.
void	setJAXBRelease(String value)	setJAXBRelease.
void	setJAXBReleaseDate(XMLGregorianCalendar value)	setJAXBReleaseDate.
void	setJAXBXref(CvTermXrefContainer value)	setJAXBXref.
void	setPostalAddress(String address)	Set the postal address
void	setPublication(Publication ref)	Set the bibliographical reference
void	setRelease(String value)	Sets the value of the release property.
void	setReleaseDate(XMLGregorianCalendar value)	Sets the value of the releaseDate property.
void	setUrl(String url)	Set the URL
String	toString()	toString

Methods inherited from class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm

equals, getAnnotations, getFullName, getIdentifiers, getMIIdentifier, getMODIdentifier, getNamesContainer, getPARIdentifier, getShortName, getSynonyms, getXrefContainer, getXrefs, hashCode, setAttributeWrapper, setFullName, setMIIdentifier, setMODIdentifier, setPARIdentifier, setShortName, setSourceLocator, sourceLocation

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Methods inherited from interface psidev.psi.mi.jami.model.CvTerm

getAnnotations, getFullName, getIdentifiers, getMIIdentifier, getMODIdentifier, getPARIdentifier, getShortName, getSynonyms, getXrefs, setFullName, setMIIdentifier, setMODIdentifier, setPARIdentifier, setShortName

Field Detail

locator

protected Locator locator

Constructor Detail

AbstractXmlSource

public AbstractXmlSource()

Constructor for AbstractXmlSource.

AbstractXmlSource

public AbstractXmlSource(String shortName)

Constructor for AbstractXmlSource.

Parameters:

shortName - a String object.

AbstractXmlSource

public AbstractXmlSource(String shortName,
                         Xref ontologyId)

Constructor for AbstractXmlSource.

Parameters:

shortName - a String object.

ontologyId - a Xref object.

AbstractXmlSource

public AbstractXmlSource(String shortName,
                         String fullName,
                         Xref ontologyId)

Constructor for AbstractXmlSource.

Parameters:

shortName - a String object.

fullName - a String object.

ontologyId - a Xref object.

AbstractXmlSource

public AbstractXmlSource(String shortName,
                         String url,
                         String address,
                         Publication bibRef)

Constructor for AbstractXmlSource.

Parameters:

shortName - a String object.

url - a String object.

address - a String object.

bibRef - a Publication object.

AbstractXmlSource

public AbstractXmlSource(String shortName,
                         Xref ontologyId,
                         String url,
                         String address,
                         Publication bibRef)

Constructor for AbstractXmlSource.

Parameters:

shortName - a String object.

ontologyId - a Xref object.

url - a String object.

address - a String object.

bibRef - a Publication object.

AbstractXmlSource

public AbstractXmlSource(String shortName,
                         String fullName,
                         Xref ontologyId,
                         String url,
                         String address,
                         Publication bibRef)

Constructor for AbstractXmlSource.

Parameters:

shortName - a String object.

fullName - a String object.

ontologyId - a Xref object.

url - a String object.

address - a String object.

bibRef - a Publication object.

AbstractXmlSource

public AbstractXmlSource(String shortName,
                         String miId)

Constructor for AbstractXmlSource.

Parameters:

shortName - a String object.

miId - a String object.

AbstractXmlSource

public AbstractXmlSource(String shortName,
                         String fullName,
                         String miId)

Constructor for AbstractXmlSource.

Parameters:

shortName - a String object.

fullName - a String object.

miId - a String object.

AbstractXmlSource

public AbstractXmlSource(String shortName,
                         String miId,
                         String url,
                         String address,
                         Publication bibRef)

Constructor for AbstractXmlSource.

Parameters:

shortName - a String object.

miId - a String object.

url - a String object.

address - a String object.

bibRef - a Publication object.

AbstractXmlSource

public AbstractXmlSource(String shortName,
                         String fullName,
                         String miId,
                         String url,
                         String address,
                         Publication bibRef)

Constructor for AbstractXmlSource.

Parameters:

shortName - a String object.

fullName - a String object.

miId - a String object.

url - a String object.

address - a String object.

bibRef - a Publication object.

Method Detail

getSourceLocator

public FileSourceLocator getSourceLocator()

Getter for the field sourceLocator.

Specified by:

getSourceLocator in interface FileSourceContext

Overrides:

getSourceLocator in class AbstractXmlCvTerm

Returns:

a FileSourceLocator object.

getUrl

public String getUrl()

getUrl.

Specified by:

getUrl in interface Source

Returns:

a String object.

setUrl

public void setUrl(String url)

Set the URL

Specified by:

setUrl in interface Source

Parameters:

url - : URL

getPostalAddress

public String getPostalAddress()

getPostalAddress.

Specified by:

getPostalAddress in interface Source

Returns:

a String object.

setPostalAddress

public void setPostalAddress(String address)

Set the postal address

Specified by:

setPostalAddress in interface Source

Parameters:

address - : postal Address

getPublication

public Publication getPublication()

getPublication.

Specified by:

getPublication in interface Source

Returns:

a Publication object.

setPublication

public void setPublication(Publication ref)

Set the bibliographical reference

Specified by:

setPublication in interface Source

Parameters:

ref - : publication reference

setJAXBBibRef

public void setJAXBBibRef(BibRef ref)

setJAXBBibRef.

Parameters:

ref - a BibRef object.

getRelease

public String getRelease()

Gets the value of the release property.

Specified by:

getRelease in interface ExtendedPsiXmlSource

Returns:

a String object.

setRelease

public void setRelease(String value)

Sets the value of the release property. Sets the value of the release property.

Specified by:

setRelease in interface ExtendedPsiXmlSource

Parameters:

value - allowed object is String

setJAXBRelease

public void setJAXBRelease(String value)

setJAXBRelease.

Parameters:

value - a String object.

getReleaseDate

public XMLGregorianCalendar getReleaseDate()

Gets the value of the releaseDate property.

Specified by:

getReleaseDate in interface ExtendedPsiXmlSource

Returns:

a XMLGregorianCalendar object.

setReleaseDate

public void setReleaseDate(XMLGregorianCalendar value)

Sets the value of the releaseDate property. Sets the value of the releaseDate property.

Specified by:

setReleaseDate in interface ExtendedPsiXmlSource

Parameters:

value - allowed object is XMLGregorianCalendar

setJAXBReleaseDate

public void setJAXBReleaseDate(XMLGregorianCalendar value)

setJAXBReleaseDate.

Parameters:

value - a XMLGregorianCalendar object.

setJAXBAttributeWrapper

public void setJAXBAttributeWrapper(AbstractXmlSource.JAXBAttributeWrapper wrapper)

setJAXBAttributeWrapper.

Parameters:

wrapper - a AbstractXmlSource.JAXBAttributeWrapper object.

getAttributeWrapper

protected AbstractXmlSource.JAXBAttributeWrapper getAttributeWrapper()

getAttributeWrapper.

Overrides:

getAttributeWrapper in class AbstractXmlCvTerm

Returns:

a AbstractXmlCvTerm.JAXBAttributeWrapper object.

initialiseAnnotationWrapper

protected void initialiseAnnotationWrapper()

initialiseAnnotationWrapper.

Overrides:

initialiseAnnotationWrapper in class AbstractXmlCvTerm

toString

public String toString()

toString

Specified by:

toString in interface FileSourceContext

Overrides:

toString in class AbstractXmlCvTerm

Returns:

the file source context as a String. If the source locator is not null, it should give the source locator properties

setJAXBNames

public void setJAXBNames(NamesContainer value)

setJAXBNames.

Sets the value of the names property.

Overrides:

setJAXBNames in class AbstractXmlCvTerm

Parameters:

value - a NamesContainer object.

setJAXBXref

public void setJAXBXref(CvTermXrefContainer value)

setJAXBXref.

Sets the value of the xrefContainer property.

Overrides:

setJAXBXref in class AbstractXmlCvTerm

Parameters:

value - a CvTermXrefContainer object.