How to use

getProteinId

method

in

uk.ac.ebi.intact.application.dataConversion.psiDownload.xmlGenerator.psi2.Protein2xmlPSI2

/**
 * Generates an proteinInteractorRef out of an IntAct Protein.
 *
 * @param session
 * @param parent  the Element to which we will add the proteinInteractorRef.
 * @param protein the IntAct Protein that we convert to PSI.
 *
 * @return the generated proteinInteractorRef Element.
 */
public Element createProteinInteracorReference( UserSessionDownload session, Element parent, Protein protein ) {
  // TODO test that.
  // 1. Checking...
  if ( session == null ) {
    throw new IllegalArgumentException( "You must give a non null UserSessionDownload." );
  }
  if ( parent == null ) {
    throw new IllegalArgumentException( "You must give a non null parent to build an " + PROTEIN_INTERACTOR_REF_TAG_NAME + "." );
  }
  if ( protein == null ) {
    throw new IllegalArgumentException( "You must give a non null protein to build an " + PROTEIN_INTERACTOR_REF_TAG_NAME + "." );
  }
  // 2. Initialising the element...
  Element element = session.createElement( PROTEIN_INTERACTOR_REF_TAG_NAME );
  element.setAttribute( "ref", getProteinId( session, protein ) );
  // 3. Attaching the newly created element to the parent...
  parent.appendChild( element );
  return element;
}

/**
 * Generates an proteinInteractorRef out of an IntAct Protein.
 *
 * @param session
 * @param parent  the Element to which we will add the proteinInteractorRef.
 * @param protein the IntAct Protein that we convert to PSI.
 *
 * @return the generated proteinInteractorRef Element.
 */
public Element createProteinInteracorReference( UserSessionDownload session, Element parent, Protein protein ) {
  // TODO test that.
  // 1. Checking...
  if ( session == null ) {
    throw new IllegalArgumentException( "You must give a non null UserSessionDownload." );
  }
  if ( parent == null ) {
    throw new IllegalArgumentException( "You must give a non null parent to build an " + PROTEIN_INTERACTOR_REF_TAG_NAME + "." );
  }
  if ( protein == null ) {
    throw new IllegalArgumentException( "You must give a non null protein to build an " + PROTEIN_INTERACTOR_REF_TAG_NAME + "." );
  }
  // 2. Initialising the element...
  Element element = session.createElement( PROTEIN_INTERACTOR_REF_TAG_NAME );
  element.setAttribute( "ref", getProteinId( session, protein ) );
  // 3. Attaching the newly created element to the parent...
  parent.appendChild( element );
  return element;
}

/**
 * Generates an proteinParticipantRef out of an IntAct Protein.
 *
 * @param session
 * @param parent  the Element to which we will add the proteinParticipantRef.
 * @param protein the IntAct Protein that we convert to PSI.
 *
 * @return the generated proteinParticipantRef Element.
 */
public Element createParticipantReference( UserSessionDownload session, Element parent, Protein protein ) {
  // TODO test that.
  // 1. Checking...
  if ( session == null ) {
    throw new IllegalArgumentException( "You must give a non null UserSessionDownload." );
  }
  if ( parent == null ) {
    throw new IllegalArgumentException( "You must give a non null parent to build an " + PROTEIN_PARTICIPANT_REF_TAG_NAME + "." );
  }
  if ( protein == null ) {
    throw new IllegalArgumentException( "You must give a non null protein to build an " + PROTEIN_PARTICIPANT_REF_TAG_NAME + "." );
  }
  // 2. Initialising the element...
  Element element = session.createElement( PROTEIN_PARTICIPANT_REF_TAG_NAME );
  element.setAttribute( "ref", getProteinId( session, protein ) );
  // 3. Attaching the newly created element to the parent...
  parent.appendChild( element );
  return element;
}

/**
 * Generates an proteinParticipantRef out of an IntAct Protein.
 *
 * @param session
 * @param parent  the Element to which we will add the proteinParticipantRef.
 * @param protein the IntAct Protein that we convert to PSI.
 *
 * @return the generated proteinParticipantRef Element.
 */
public Element createParticipantReference( UserSessionDownload session, Element parent, Protein protein ) {
  // TODO test that.
  // 1. Checking...
  if ( session == null ) {
    throw new IllegalArgumentException( "You must give a non null UserSessionDownload." );
  }
  if ( parent == null ) {
    throw new IllegalArgumentException( "You must give a non null parent to build an " + PROTEIN_PARTICIPANT_REF_TAG_NAME + "." );
  }
  if ( protein == null ) {
    throw new IllegalArgumentException( "You must give a non null protein to build an " + PROTEIN_PARTICIPANT_REF_TAG_NAME + "." );
  }
  // 2. Initialising the element...
  Element element = session.createElement( PROTEIN_PARTICIPANT_REF_TAG_NAME );
  element.setAttribute( "ref", getProteinId( session, protein ) );
  // 3. Attaching the newly created element to the parent...
  parent.appendChild( element );
  return element;
}

/**
 * Generates an proteinParticipantRef out of an IntAct Protein.
 *
 * @param session
 * @param parent  the Element to which we will add the proteinParticipantRef.
 * @param protein the IntAct Protein that we convert to PSI.
 *
 * @return the generated proteinParticipantRef Element.
 */
public Element createParticipantReference( UserSessionDownload session, Element parent, Protein protein ) {
  // TODO test that.
  // 1. Checking...
  if ( session == null ) {
    throw new IllegalArgumentException( "You must give a non null UserSessionDownload." );
  }
  if ( parent == null ) {
    throw new IllegalArgumentException( "You must give a non null parent to build an " + PROTEIN_PARTICIPANT_REF_TAG_NAME + "." );
  }
  if ( protein == null ) {
    throw new IllegalArgumentException( "You must give a non null protein to build an " + PROTEIN_PARTICIPANT_REF_TAG_NAME + "." );
  }
  // 2. Initialising the element...
  Element element = session.createElement( PROTEIN_PARTICIPANT_REF_TAG_NAME );
  element.setAttribute( "ref", getProteinId( session, protein ) );
  // 3. Attaching the newly created element to the parent...
  parent.appendChild( element );
  return element;
}

/**
 * Generates an proteinInteractorRef out of an IntAct Protein.
 *
 * @param session
 * @param parent  the Element to which we will add the proteinInteractorRef.
 * @param protein the IntAct Protein that we convert to PSI.
 *
 * @return the generated proteinInteractorRef Element.
 */
public Element createProteinInteracorReference( UserSessionDownload session, Element parent, Protein protein ) {
  // TODO test that.
  // 1. Checking...
  if ( session == null ) {
    throw new IllegalArgumentException( "You must give a non null UserSessionDownload." );
  }
  if ( parent == null ) {
    throw new IllegalArgumentException( "You must give a non null parent to build an " + PROTEIN_INTERACTOR_REF_TAG_NAME + "." );
  }
  if ( protein == null ) {
    throw new IllegalArgumentException( "You must give a non null protein to build an " + PROTEIN_INTERACTOR_REF_TAG_NAME + "." );
  }
  // 2. Initialising the element...
  Element element = session.createElement( PROTEIN_INTERACTOR_REF_TAG_NAME );
  element.setAttribute( "ref", getProteinId( session, protein ) );
  // 3. Attaching the newly created element to the parent...
  parent.appendChild( element );
  return element;
}

element.setAttribute( "id", getProteinId( session, protein ) );

element.setAttribute( "id", getProteinId( session, protein ) );

element.setAttribute( "id", getProteinId( session, protein ) );