uk.ac.ebi.intact.application.dataConversion.psiUpload.model.ParticipantDetectionTag java code examples

Common ways to obtain ParticipantDetectionTag

private void myMethod () {
 ParticipantDetectionTag p =Conversion.psiUpload.model.XrefTag psiDefinition;new ParticipantDetectionTag(psiDefinition)
Conversion.psiUpload.model.ExperimentDescriptionTag experimentDescriptionTag;experimentDescriptionTag.getParticipantDetection()
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}

  return false;
if ( !participantDetection.equals( experimentDescriptionTag.participantDetection ) ) {
  return false;

public int hashCode() {
  int result;
  result = shortlabel.hashCode();
  result = 29 * result + fullname.hashCode();
  result = 29 * result + bibRef.hashCode();
  result = 29 * result + hostOrganism.hashCode();
  result = 29 * result + interactionDetection.hashCode();
  result = 29 * result + participantDetection.hashCode();
  result = 29 * result + ( xrefs != null ? xrefs.hashCode() : 0 );
  result = 29 * result + ( annotations != null ? annotations.hashCode() : 0 );
  result = 29 * result + ( additionalBibRef != null ? additionalBibRef.hashCode() : 0 );
  return result;
}

  public static void check( final ParticipantDetectionTag participantDetection ) {

    final XrefTag psiDef = participantDetection.getPsiDefinition();
    XrefChecker.check( psiDef );

    final String id = psiDef.getId();

    if ( !cache.keySet().contains( id ) ) {
      CvIdentification cvIdentification = null;

      try {
        cvIdentification = IntactContext.getCurrentInstance().getCvContext().getByMiRef(CvIdentification.class,id);

        if ( cvIdentification == null ) {
          MessageHolder.getInstance().addCheckerMessage( new Message( "Could not find CvIdentification for the PSI definition: " + id ) );
        } else {
          System.out.println( "Found ParticipantDetection " + id + " as " + cvIdentification.getShortLabel() );
        }
      } catch ( IntactException e ) {
        MessageHolder.getInstance().addCheckerMessage( new Message( "An error occured while searching for CvInteraction " +
                                      "having the PSI definition: " + id ) );
        e.printStackTrace();
      }

      cache.put( id, cvIdentification );
    }
  }
}

                         CvDatabase.PSI_MI );
try {
  participantDetection = new ParticipantDetectionTag( participantXref );
} catch ( IllegalArgumentException e ) {
  MessageHolder.getInstance().addParserMessage( new Message( participantDetectionXrefElement,

  public static void check( final ParticipantDetectionTag participantDetection ) {

    final XrefTag psiDef = participantDetection.getPsiDefinition();
    XrefChecker.check( psiDef );

    final String id = psiDef.getId();

    if ( !cache.keySet().contains( id ) ) {
      CvIdentification cvIdentification = null;

      try {
        cvIdentification = IntactContext.getCurrentInstance().getCvContext().getByMiRef(CvIdentification.class,id);

        if ( cvIdentification == null ) {
          MessageHolder.getInstance().addCheckerMessage( new Message( "Could not find CvIdentification for the PSI definition: " + id ) );
        } else {
          System.out.println( "Found ParticipantDetection " + id + " as " + cvIdentification.getShortLabel() );
        }
      } catch ( IntactException e ) {
        MessageHolder.getInstance().addCheckerMessage( new Message( "An error occured while searching for CvInteraction " +
                                      "having the PSI definition: " + id ) );
        e.printStackTrace();
      }

      cache.put( id, cvIdentification );
    }
  }
}

                         CvDatabase.PSI_MI );
try {
  participantDetection = new ParticipantDetectionTag( participantXref );
} catch ( IllegalArgumentException e ) {
  MessageHolder.getInstance().addParserMessage( new Message( participantDetectionXrefElement,

  public static void check( final ParticipantDetectionTag participantDetection ) {

    final XrefTag psiDef = participantDetection.getPsiDefinition();
    XrefChecker.check( psiDef );

    final String id = psiDef.getId();

    if ( !cache.keySet().contains( id ) ) {
      CvIdentification cvIdentification = null;

      try {
        cvIdentification = IntactContext.getCurrentInstance().getDataContext().getDaoFactory().getCvObjectDao(CvIdentification.class).getByXref(id);

        if ( cvIdentification == null ) {
          MessageHolder.getInstance().addCheckerMessage( new Message( "Could not find CvIdentification for the PSI definition: " + id ) );
        } else {
          System.out.println( "Found ParticipantDetection " + id + " as " + cvIdentification.getShortLabel() );
        }
      } catch ( IntactException e ) {
        MessageHolder.getInstance().addCheckerMessage( new Message( "An error occured while searching for CvInteraction " +
                                      "having the PSI definition: " + id ) );
        e.printStackTrace();
      }

      cache.put( id, cvIdentification );
    }
  }
}

public int hashCode() {
  int result;
  result = shortlabel.hashCode();
  result = 29 * result + fullname.hashCode();
  result = 29 * result + bibRef.hashCode();
  result = 29 * result + hostOrganism.hashCode();
  result = 29 * result + interactionDetection.hashCode();
  result = 29 * result + participantDetection.hashCode();
  result = 29 * result + ( xrefs != null ? xrefs.hashCode() : 0 );
  result = 29 * result + ( annotations != null ? annotations.hashCode() : 0 );
  result = 29 * result + ( additionalBibRef != null ? additionalBibRef.hashCode() : 0 );
  return result;
}

  return false;
if ( !participantDetection.equals( experimentDescriptionTag.participantDetection ) ) {
  return false;

                         CvDatabase.PSI_MI );
try {
  participantDetection = new ParticipantDetectionTag( participantXref );
} catch ( IllegalArgumentException e ) {
  MessageHolder.getInstance().addParserMessage( new Message( participantDetectionXrefElement,

final String participantDetectionId = experimentDescription.getParticipantDetection().getPsiDefinition().getId();
final CvIdentification cvIdentification = ParticipantDetectionChecker.getCvIdentification( participantDetectionId );
experiment.setCvIdentification( cvIdentification );

public int hashCode() {
  int result;
  result = shortlabel.hashCode();
  result = 29 * result + fullname.hashCode();
  result = 29 * result + bibRef.hashCode();
  result = 29 * result + hostOrganism.hashCode();
  result = 29 * result + interactionDetection.hashCode();
  result = 29 * result + participantDetection.hashCode();
  result = 29 * result + ( xrefs != null ? xrefs.hashCode() : 0 );
  result = 29 * result + ( annotations != null ? annotations.hashCode() : 0 );
  result = 29 * result + ( additionalBibRef != null ? additionalBibRef.hashCode() : 0 );
  return result;
}

  return false;
if ( !participantDetection.equals( experimentDescriptionTag.participantDetection ) ) {
  return false;

final String participantDetectionId = experimentDescription.getParticipantDetection().getPsiDefinition().getId();
final CvIdentification cvIdentification = ParticipantDetectionChecker.getCvIdentification( participantDetectionId );
experiment.setCvIdentification( cvIdentification );

final String participantDetectionId = experimentDescription.getParticipantDetection().getPsiDefinition().getId();
final CvIdentification cvIdentification = ParticipantDetectionChecker.getCvIdentification( participantDetectionId );
experiment.setCvIdentification( cvIdentification );

Javadoc

That class .

 
<participantDetection> 
<names> 
<shortLabel>peptide massfingerpr</shortLabel> 
<fullName>peptide massfingerprinting</fullName> 
</names> 
<xref> 
<primaryRef db="pubmed" id="11752590" secondary="" version=""/> 
<secondaryRef db="psi-mi" id="MI:0082" secondary="" version=""/> 
<secondaryRef db="pubmed" id="10967324" secondary="" version=""/> 
</xref> 
</participantDetection>

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How to useParticipantDetectionTag in uk.ac.ebi.intact.application.dataConversion.psiUpload.model

Best Java code snippets using uk.ac.ebi.intact.application.dataConversion.psiUpload.model.ParticipantDetectionTag (Showing top 15 results out of 315)

How to use
ParticipantDetectionTag
in
uk.ac.ebi.intact.application.dataConversion.psiUpload.model