Package psidev.psi.mi.jami.imex.actions.impl

Class PublicationIdentifierSynchronizerImpl

java.lang.Object

psidev.psi.mi.jami.imex.actions.impl.PublicationIdentifierSynchronizerImpl

All Implemented Interfaces:

PublicationIdentifierSynchronizer

public class PublicationIdentifierSynchronizerImpl
extends Object
implements PublicationIdentifierSynchronizer

Class which update identifiers in IMEx central if a submitted publication has been published in PubMed

Since:

29/03/12

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Field Summary

Fields inherited from interface psidev.psi.mi.jami.imex.actions.PublicationIdentifierSynchronizer

INTERNAL

Constructor Summary

Constructors

Constructor	Description
PublicationIdentifierSynchronizerImpl(ImexCentralClient client)	Constructor for PublicationIdentifierSynchronizerImpl.

Method Summary

Modifier and Type	Method	Description
boolean	areIdenticalPublications(ImexPublication p1, ImexPublication p2)	areIdenticalPublications.
ImexCentralClient	getImexCentralClient()	getImexCentralClient.
boolean	isPublicationIdentifierInSyncWithImexCentral(String pubId, String source, ImexPublication imexPublication)	It will look at all identifiers attached to the record in IMEx central and see if the publication identifier is also attached to the IMEx record
void	synchronizePublicationIdentifier(Publication publication, Publication imexPublication)	Update the IMEx record in case intact publication has a valid pubmed, unassigned or doi identifier that is not in IMEx central.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

PublicationIdentifierSynchronizerImpl

public PublicationIdentifierSynchronizerImpl(ImexCentralClient client)

Constructor for PublicationIdentifierSynchronizerImpl.

Parameters:

client - a ImexCentralClient object.

Method Detail

isPublicationIdentifierInSyncWithImexCentral

public boolean isPublicationIdentifierInSyncWithImexCentral(String pubId,
                                                            String source,
                                                            ImexPublication imexPublication)
                                                     throws BridgeFailedException

It will look at all identifiers attached to the record in IMEx central and see if the publication identifier is also attached to the IMEx record

Specified by:

isPublicationIdentifierInSyncWithImexCentral in interface PublicationIdentifierSynchronizer

Parameters:

pubId - a String object.

source - a String object.

imexPublication - a ImexPublication object.

Returns:

true if the publication identifier is in IMEx central, false otherwise

Throws:

BridgeFailedException - if any.

synchronizePublicationIdentifier

public void synchronizePublicationIdentifier(Publication publication,
                                             Publication imexPublication)
                                      throws EnricherException,
                                             BridgeFailedException

Update the IMEx record in case intact publication has a valid pubmed, unassigned or doi identifier that is not in IMEx central. It will not update the publication and it is possible that it will not update the IMEx record if the pubmed or doi identifier is different in IMEx central. The publication record in IMEx central should have a valid IMEx id.

Specified by:

synchronizePublicationIdentifier in interface PublicationIdentifierSynchronizer

Parameters:

publication - a Publication object.

imexPublication - a Publication object.

Throws:

EnricherException - : if the pubmed/doi identifier is different from the one in IMEx central

BridgeFailedException - : if record not found, idnetifier s not recognized or IMEx central is not responding

areIdenticalPublications

public boolean areIdenticalPublications(ImexPublication p1,
                                        ImexPublication p2)

areIdenticalPublications.

Parameters:

p1 - a ImexPublication object.

p2 - a ImexPublication object.

Returns:

a boolean.

getImexCentralClient

public ImexCentralClient getImexCentralClient()

getImexCentralClient.

Specified by:

getImexCentralClient in interface PublicationIdentifierSynchronizer

Returns:

a ImexCentralClient object.