Class PropertiesMap

Method Details

• size

  public int size()

• addProperty

  public void addProperty(Property property) throws IllegalArgumentException

  Throws:

  IllegalArgumentException

• asSimpleText

  public StringBuffer asSimpleText()

  Specified by:

  asSimpleText in interface PhylogenyData

• asText

  public StringBuffer asText()

  Specified by:

  asText in interface PhylogenyData

• copy

  public PhylogenyData copy()

  Description copied from interface: PhylogenyData

  Creates a new PhylogenyData object with identical values as this PhylogenyData. This ~should~ return a deep copy, but not there yet.

  Specified by:

  copy in interface PhylogenyData

  Returns:

  a ~deep~ copy of this PhylogenyData

• getProperties

  public SortedMap<String,Property> getProperties()

• getPropertiesArray

  public Property[] getPropertiesArray()

• getPropertiesWithGivenReferencePrefix

  public List<Property> getPropertiesWithGivenReferencePrefix(String ref_prefix) throws IllegalArgumentException

  Throws:

  IllegalArgumentException

• getProperty

  public Property getProperty(String ref) throws IllegalArgumentException

  Throws:

  IllegalArgumentException

• getPropertyRefs

  public String[] getPropertyRefs()

  Returns all property refs of this PhylogenyNode as String array.

• isEqual

  public boolean isEqual(PhylogenyData data)

  Description copied from interface: PhylogenyData

  Compares this PhylogenyData to PhylogenyData data. In general, this should return true if and only if all fiels are exactly identical.

  Specified by:

  isEqual in interface PhylogenyData

  Returns:

  in general, true if and only if all fiels are exactly identical, false otherwise

• refExists

  public boolean refExists(String ref)

• removeProperty

  public Property removeProperty(String ref) throws IllegalArgumentException

  Throws:

  IllegalArgumentException

• removePropertiesWithGivenReferencePrefix

  public List<String> removePropertiesWithGivenReferencePrefix(String ref_prefix) throws IllegalArgumentException

  Throws:

  IllegalArgumentException

• toNHX

  public StringBuffer toNHX()

  Specified by:

  toNHX in interface PhylogenyData

• toPhyloXML

  public void toPhyloXML(Writer writer, int level, String indentation) throws IOException

  Description copied from interface: PhylogenyData

  Writes a phyloXML representation of this phylogeny data.

  Specified by:

  toPhyloXML in interface PhylogenyData

  Throws:

  IOException

• toString

  public String toString()

  Overrides:

  toString in class Object