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AbstractAnnotatedObject2xml
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How to use
AbstractAnnotatedObject2xml
in
uk.ac.ebi.intact.application.dataConversion.psiDownload.xmlGenerator

Best Java code snippets using uk.ac.ebi.intact.application.dataConversion.psiDownload.xmlGenerator.AbstractAnnotatedObject2xml (Showing top 20 results out of 315)

origin: uk.ac.ebi.intact.util/data-conversion

/**
 * Generate an filled attributeList based upon the annotation of the given AnnotatedObject.
 *
 * @param session
 * @param parent  the Element to which we will attach the newly generated AttributeList.
 * @param object  the Annotated object from which we generate the attributes.
 *
 * @return a newly created attributeList or null if none were created.
 */
protected Element createAttributeList( UserSessionDownload session, Element parent, AnnotatedObject object ) {
  return createAttributeList( session, parent, object, null );
}
origin: uk.ac.ebi.intact.util/data-conversion

Collection interproXrefs = AbstractAnnotatedObject2xml.getXrefByDatabase( feature, CvDatabase.INTERPRO );
origin: uk.ac.ebi.intact.app/data-conversion

Collection identityXrefs = AbstractAnnotatedObject2xml.getXrefByQualifier( interactor, CvXrefQualifier.IDENTITY );
  identityXrefs = AbstractAnnotatedObject2xml.getXrefByQualifier( interactor, CvXrefQualifier.PRIMARY_REFERENCE );
origin: uk.ac.ebi.intact.dataexchange.psimi.legacy/data-conversion

Collection interproXrefs = AbstractAnnotatedObject2xml.getXrefByDatabase( feature, CvDatabase.INTERPRO );
origin: uk.ac.ebi.intact.app/data-conversion

Collection identityXrefs = AbstractAnnotatedObject2xml.getXrefByQualifier( protein, CvXrefQualifier.IDENTITY );
  identityXrefs = AbstractAnnotatedObject2xml.getXrefByQualifier( protein, CvXrefQualifier.PRIMARY_REFERENCE );
origin: uk.ac.ebi.intact.app/data-conversion

Collection interproXrefs = AbstractAnnotatedObject2xml.getXrefByDatabase( feature, CvDatabase.INTERPRO );
origin: uk.ac.ebi.intact.util/data-conversion

Collection identityXrefs = AbstractAnnotatedObject2xml.getXrefByQualifier( interactor, CvXrefQualifier.IDENTITY );
  identityXrefs = AbstractAnnotatedObject2xml.getXrefByQualifier( interactor, CvXrefQualifier.PRIMARY_REFERENCE );
origin: uk.ac.ebi.intact.dataexchange.psimi.legacy/data-conversion

/**
 * Generate an filled attributeList based upon the annotation of the given AnnotatedObject.
 *
 * @param session
 * @param parent  the Element to which we will attach the newly generated AttributeList.
 * @param object  the Annotated object from which we generate the attributes.
 *
 * @return a newly created attributeList or null if none were created.
 */
protected Element createAttributeList( UserSessionDownload session, Element parent, AnnotatedObject object ) {
  return createAttributeList( session, parent, object, null );
}
origin: uk.ac.ebi.intact.dataexchange.psimi.legacy/data-conversion

Collection uniprotXrefs = AbstractAnnotatedObject2xml.getXrefByDatabase( protein, CvDatabase.UNIPROT );
origin: uk.ac.ebi.intact.dataexchange.psimi.legacy/data-conversion

Collection identityXrefs = AbstractAnnotatedObject2xml.getXrefByQualifier( interactor, CvXrefQualifier.IDENTITY );
  identityXrefs = AbstractAnnotatedObject2xml.getXrefByQualifier( interactor, CvXrefQualifier.PRIMARY_REFERENCE );
origin: uk.ac.ebi.intact.app/data-conversion

/**
 * Generate an filled attributeList based upon the annotation of the given AnnotatedObject.
 *
 * @param session
 * @param parent  the Element to which we will attach the newly generated AttributeList.
 * @param object  the Annotated object from which we generate the attributes.
 *
 * @return a newly created attributeList or null if none were created.
 */
protected Element createAttributeList( UserSessionDownload session, Element parent, AnnotatedObject object ) {
  return createAttributeList( session, parent, object, null );
}
origin: uk.ac.ebi.intact.util/data-conversion

Collection uniprotXrefs = AbstractAnnotatedObject2xml.getXrefByDatabase( smallMolecule, CvDatabase.RESID );
origin: uk.ac.ebi.intact.util/data-conversion

Collection identityXrefs = AbstractAnnotatedObject2xml.getXrefByQualifier( protein, CvXrefQualifier.IDENTITY );
  identityXrefs = AbstractAnnotatedObject2xml.getXrefByQualifier( protein, CvXrefQualifier.PRIMARY_REFERENCE );
origin: uk.ac.ebi.intact.dataexchange.psimi.legacy/data-conversion

Collection uniprotXrefs = AbstractAnnotatedObject2xml.getXrefByDatabase( smallMolecule, CvDatabase.RESID );
origin: uk.ac.ebi.intact.dataexchange.psimi.legacy/data-conversion

Collection identityXrefs = AbstractAnnotatedObject2xml.getXrefByQualifier( protein, CvXrefQualifier.IDENTITY );
  identityXrefs = AbstractAnnotatedObject2xml.getXrefByQualifier( protein, CvXrefQualifier.PRIMARY_REFERENCE );
origin: uk.ac.ebi.intact.util/data-conversion

Collection uniprotXrefs = AbstractAnnotatedObject2xml.getXrefByDatabase( protein, CvDatabase.UNIPROT );
origin: uk.ac.ebi.intact.app/data-conversion

Collection uniprotXrefs = AbstractAnnotatedObject2xml.getXrefByDatabase( protein, CvDatabase.UNIPROT );
origin: uk.ac.ebi.intact.app/data-conversion

Collection uniprotXrefs = AbstractAnnotatedObject2xml.getXrefByDatabase( smallMolecule, CvDatabase.RESID );
origin: uk.ac.ebi.intact.dataexchange.psimi.legacy/data-conversion

Collection pubmedXrefs = AbstractAnnotatedObject2xml.getXrefByDatabase( experiment, CvDatabase.PUBMED );
origin: uk.ac.ebi.intact.util/data-conversion

Collection psiXrefs = AbstractAnnotatedObject2xml.getXrefByDatabase( cvObject, CvDatabase.PSI_MI );
uk.ac.ebi.intact.application.dataConversion.psiDownload.xmlGeneratorAbstractAnnotatedObject2xml

Javadoc

Process common attributes of all AnnotatedObject. eg. shortlabel, fullname, Annotations, Xrefs

Most used methods

  • createAttributeList
    Generate and fill an attributeList based upon the annotation of the given AnnotatedObject. We apply
  • getXrefByDatabase
    Based upon the given database name (db), select all Xref of the given AnnotatedObject having that sp
  • getXrefByQualifier
    Based upon the given CvXrefQualifier name (db), select all Xref of the given AnnotatedObject having

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