Class MMCifValidationParser

Method Details

• set

  public MMCifValidationParser set(AtomSetCollectionReader reader)

• finalizeValidations

  public String finalizeValidations(Viewer vwr, Map<String,Integer> modelMap)

  Create property_xxxx for each validation category.

  Parameters:

  vwr -

  modelMap -

  Returns:

  loading note

• finalizeRna3d

  public String finalizeRna3d(Map<String,Integer> modelMap)

• getRna3dMap

  private SV getRna3dMap(String addedData)

• mapAtomResIDs

  private void mapAtomResIDs(Map<String,Integer> modelMap)

  Map all atom and residue unit ids to atom indexes

  Parameters:

  modelMap -

• getModelAtomIndices

  private int[] getModelAtomIndices()

  prepare a list of starting atom indices for each model, adding one additional one to indicate 1 + last atom index

  Returns:

  array

• setProperties

  private String setProperties(javajs.util.Lst<Object> propList)

  Set property_xxx for atoms from list of name, data, modelIndex series.

  Parameters:

  propList -

  Returns:

  note string