uk.ac.ebi.intact.application.dataConversion.psiDownload.xmlGenerator.psi2.Feature2xmlPSI2 java code examples

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public Element createDNAFeatureReference( UserSessionDownload session, Element parent, Feature feature ) {
  // TODO test that.
  return createReference( session, parent, feature, DNA_FEATURE_REF_TAG_NAME );
}

createNames( session, element, feature );
createFeatureXrefs( session, element, feature );

  /**
   * Gives the right version of the Psi XML generator according to the user's session
   *
   * @param session the user session that will indicate which version of the Psi generator is required
   *
   * @return
   */
  public static Feature2xmlI getInstance( UserSessionDownload session ) {

    if ( session.getPsiVersion().equals( PsiVersion.VERSION_1 ) ) {

      return Feature2xmlPSI1.getInstance();

    } else if ( session.getPsiVersion().equals( PsiVersion.VERSION_2 ) ) {

      return Feature2xmlPSI2.getInstance();

    } else if ( session.getPsiVersion().equals( PsiVersion.VERSION_25 ) ) {

      return Feature2xmlPSI25.getInstance();

    } else {

      throw new IllegalStateException( "We do not support PSI version " + session.getPsiVersion() );
    }
  }
}

f2xml.createProteinFeatureReference( session, participantElement, feature );

createNames( session, element, feature );
createFeatureXrefs( session, element, feature );

  /**
   * Gives the right version of the Psi XML generator according to the user's session
   *
   * @param session the user session that will indicate which version of the Psi generator is required
   *
   * @return
   */
  public static Feature2xmlI getInstance( UserSessionDownload session ) {

    if ( session.getPsiVersion().equals( PsiVersion.VERSION_1 ) ) {

      return Feature2xmlPSI1.getInstance();

    } else if ( session.getPsiVersion().equals( PsiVersion.VERSION_2 ) ) {

      return Feature2xmlPSI2.getInstance();

    } else if ( session.getPsiVersion().equals( PsiVersion.VERSION_25 ) ) {

      return Feature2xmlPSI25.getInstance();

    } else {

      throw new IllegalStateException( "We do not support PSI version " + session.getPsiVersion() );
    }
  }
}

f2xml.createProteinFeatureReference( session, participantElement, feature );

createNames( session, element, feature );
createFeatureXrefs( session, element, feature );

public Element createRNAFeatureReference( UserSessionDownload session, Element parent, Feature feature ) {
  // TODO test that.
  return createReference( session, parent, feature, RNA_FEATURE_REF_TAG_NAME );
}

  /**
   * Gives the right version of the Psi XML generator according to the user's session
   *
   * @param session the user session that will indicate which version of the Psi generator is required
   *
   * @return
   */
  public static Feature2xmlI getInstance( UserSessionDownload session ) {

    if ( session.getPsiVersion().equals( PsiVersion.VERSION_1 ) ) {

      return Feature2xmlPSI1.getInstance();

    } else if ( session.getPsiVersion().equals( PsiVersion.VERSION_2 ) ) {

      return Feature2xmlPSI2.getInstance();

    } else if ( session.getPsiVersion().equals( PsiVersion.VERSION_25 ) ) {

      return Feature2xmlPSI25.getInstance();

    } else {

      throw new IllegalStateException( "We do not support PSI version " + session.getPsiVersion() );
    }
  }
}

f2xml.createProteinFeatureReference( session, participantElement, feature );

public Element createRNAFeatureReference( UserSessionDownload session, Element parent, Feature feature ) {
  // TODO test that.
  return createReference( session, parent, feature, RNA_FEATURE_REF_TAG_NAME );
}

public Element createProteinFeatureReference( UserSessionDownload session, Element parent, Feature feature ) {
  // TODO test that.
  return createReference( session, parent, feature, PROTEIN_FEATURE_REF_TAG_NAME );
}

public Element createDNAFeatureReference( UserSessionDownload session, Element parent, Feature feature ) {
  // TODO test that.
  return createReference( session, parent, feature, DNA_FEATURE_REF_TAG_NAME );
}

public Element createProteinFeatureReference( UserSessionDownload session, Element parent, Feature feature ) {
  // TODO test that.
  return createReference( session, parent, feature, PROTEIN_FEATURE_REF_TAG_NAME );
}

public Element createRNAFeatureReference( UserSessionDownload session, Element parent, Feature feature ) {
  // TODO test that.
  return createReference( session, parent, feature, RNA_FEATURE_REF_TAG_NAME );
}

public Element createProteinFeatureReference( UserSessionDownload session, Element parent, Feature feature ) {
  // TODO test that.
  return createReference( session, parent, feature, PROTEIN_FEATURE_REF_TAG_NAME );
}

public Element createDNAFeatureReference( UserSessionDownload session, Element parent, Feature feature ) {
  // TODO test that.
  return createReference( session, parent, feature, DNA_FEATURE_REF_TAG_NAME );
}

Javadoc

Process the common behaviour of an IntAct Experiment when exporting PSI version 2.

Most used methods

createFeatureXrefs
Generate and add to the given element the Xrefs of the feature.
createNames
createProteinFeatureReference
createReference
getInstance

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How to useFeature2xmlPSI2 in uk.ac.ebi.intact.application.dataConversion.psiDownload.xmlGenerator.psi2

Best Java code snippets using uk.ac.ebi.intact.application.dataConversion.psiDownload.xmlGenerator.psi2.Feature2xmlPSI2 (Showing top 18 results out of 315)

How to use
Feature2xmlPSI2
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uk.ac.ebi.intact.application.dataConversion.psiDownload.xmlGenerator.psi2