How to use

check

method

in

uk.ac.ebi.intact.application.dataConversion.psiUpload.checker.ProteinInteractorChecker

  public static void check( final ProteinParticipantTag proteinParticipant,
               final UpdateProteinsI proteinFactory,
               final BioSourceFactory bioSourceFactory ) {

    final String role = proteinParticipant.getRole();
    RoleChecker.check( role );

    final ProteinInteractorTag proteinInteractor = proteinParticipant.getProteinInteractor();
    ProteinInteractorChecker.check( proteinInteractor, proteinFactory, bioSourceFactory );

    final Collection features = proteinParticipant.getFeatures();
    for ( Iterator iterator = features.iterator(); iterator.hasNext(); ) {
      FeatureTag feature = (FeatureTag) iterator.next();

      FeatureChecker.ckeck( feature );
    }

    // check feature clustering (specific to PSI version 1)
    try {
      proteinParticipant.getClusteredFeatures();
    } catch ( IllegalArgumentException iae ) {
      MessageHolder.getInstance().addCheckerMessage( new Message( "An error occured while checking if the feature were clusterizable: " +
                                    iae.getMessage() ) );
    }

    // TODO check isOverExpressed
    // TODO check isTaggedProtein: as we have to create a Feature having CvFeatureType(tagged-protein) with undetermined range
  }
}

  public static void check( final ProteinParticipantTag proteinParticipant,
               final UpdateProteinsI proteinFactory,
               final BioSourceFactory bioSourceFactory ) {

    final String role = proteinParticipant.getRole();
    RoleChecker.check( role );

    final ProteinInteractorTag proteinInteractor = proteinParticipant.getProteinInteractor();
    ProteinInteractorChecker.check( proteinInteractor, proteinFactory, bioSourceFactory );

    final Collection features = proteinParticipant.getFeatures();
    for ( Iterator iterator = features.iterator(); iterator.hasNext(); ) {
      FeatureTag feature = (FeatureTag) iterator.next();

      FeatureChecker.ckeck( feature );
    }

    // check feature clustering (specific to PSI version 1)
    try {
      proteinParticipant.getClusteredFeatures();
    } catch ( IllegalArgumentException iae ) {
      MessageHolder.getInstance().addCheckerMessage( new Message( "An error occured while checking if the feature were clusterizable: " +
                                    iae.getMessage() ) );
    }

    // TODO check isOverExpressed
    // TODO check isTaggedProtein: as we have to create a Feature having CvFeatureType(tagged-protein) with undetermined range
  }
}

  public static void check( final ProteinParticipantTag proteinParticipant,
               final UpdateProteinsI proteinFactory,
               final BioSourceFactory bioSourceFactory ) {

    final String role = proteinParticipant.getRole();
    RoleChecker.check( role );

    final ProteinInteractorTag proteinInteractor = proteinParticipant.getProteinInteractor();
    ProteinInteractorChecker.check( proteinInteractor, proteinFactory, bioSourceFactory );

    final Collection features = proteinParticipant.getFeatures();
    for ( Iterator iterator = features.iterator(); iterator.hasNext(); ) {
      FeatureTag feature = (FeatureTag) iterator.next();

      FeatureChecker.ckeck( feature );
    }

    // check feature clustering (specific to PSI version 1)
    try {
      proteinParticipant.getClusteredFeatures();
    } catch ( IllegalArgumentException iae ) {
      MessageHolder.getInstance().addCheckerMessage( new Message( "An error occured while checking if the feature were clusterizable: " +
                                    iae.getMessage() ) );
    }

    // TODO check isOverExpressed
    // TODO check isTaggedProtein: as we have to create a Feature having CvFeatureType(tagged-protein) with undetermined range
  }
}

ProteinInteractorChecker.check( proteinInteractor, proteinFactory, bioSourceFactory );

ProteinInteractorChecker.check( proteinInteractor, proteinFactory, bioSourceFactory );

ProteinInteractorChecker.check( proteinInteractor, proteinFactory, bioSourceFactory );