mesquite.cont.lib
Class MContinuousHistory

java.lang.Object
  mesquite.lib.characters.MCharactersStates
      mesquite.cont.lib.MContinuousStates
          mesquite.cont.lib.MContinuousDistribution
              mesquite.cont.lib.MContinuousAdjustable
                  mesquite.cont.lib.MContinuousHistory

All Implemented Interfaces:

ItemContainer, Annotatable, MAdjustableDistribution, MCharactersDistribution, MCharactersHistory, MCharactersStatesHolder, Listable, Renamable

public class MContinuousHistory
extends MContinuousAdjustable
implements MCharactersHistory

A class for an array of continuous character states for many characters, at each of the nodes.

Field Summary

Fields inherited from class mesquite.cont.lib.MContinuousAdjustable

firstMatrix, matrices

Fields inherited from class mesquite.lib.characters.MCharactersStates

data

Constructor Summary

MContinuousHistory(Taxa taxa)

MContinuousHistory(Taxa taxa, int numChars, int numNodes)

Method Summary

CharacterHistory	getCharacterHistory(int ic) extract the states of character ic and return as CharacterHistory
void	getMinMax(Tree tree, int root, int item, MesquiteDouble min, MesquiteDouble max)
void	transferFrom(int ic, CharacterHistory s) obtain the states of character ic from the given CharacterDistribution

Methods inherited from class mesquite.cont.lib.MContinuousAdjustable

addItem, addItem, deassignStates, establishItem, establishItem, getAnnotation, getCharacterDistribution, getItem, getItemName, getItemNumber, getNumberOfItems, getNumChars, getNumNodes, getNumTaxa, getState, getState, removeItem, setAnnotation, setCharacterState, setItemReference, setItemsAs, setParentData, setSize, setState, setState, setStates, setStates, tradeStatesBetweenTaxa, transferFrom

Methods inherited from class mesquite.cont.lib.MContinuousDistribution

adjustHistorySize, makeBlankAdjustable, makeCharacterData

Methods inherited from class mesquite.cont.lib.MContinuousStates

allCombinable, allCombinable, getCharacterDataClass, getCharacterState, getDataTypeName, getID, getItemReference, getItemReference, getMatrix, getNumItems, getStateClass, toString, userQueryItem

Methods inherited from class mesquite.lib.characters.MCharactersStates

checkIllegalNode, getBasisTree, getName, getParentData, getTaxa, isCurrentlyIncluded, matrixToString, setBasisTree, setName, setTaxa

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Methods inherited from interface mesquite.lib.characters.MAdjustableDistribution

deassignStates, setCharacterState, setParentData, setSize, setTaxa, tradeStatesBetweenTaxa, transferFrom

Methods inherited from interface mesquite.lib.characters.MCharactersDistribution

adjustHistorySize, getBasisTree, getCharacterDistribution, makeBlankAdjustable, makeCharacterData, setBasisTree

Methods inherited from interface mesquite.lib.characters.MCharactersStatesHolder

getCharacterDataClass, getCharacterState, getDataTypeName, getNumChars, getNumNodes, getNumTaxa, getParentData, getStateClass, getTaxa, isCurrentlyIncluded

Methods inherited from interface mesquite.lib.Listable

getName

Methods inherited from interface mesquite.lib.Renamable

setName

Methods inherited from interface mesquite.lib.Annotatable

getAnnotation, setAnnotation

Constructor Detail

MContinuousHistory

public MContinuousHistory(Taxa taxa,
                          int numChars,
                          int numNodes)

MContinuousHistory

public MContinuousHistory(Taxa taxa)

Method Detail

getCharacterHistory

public CharacterHistory getCharacterHistory(int ic)

extract the states of character ic and return as CharacterHistory

Specified by:

getCharacterHistory in interface MCharactersHistory

transferFrom

public void transferFrom(int ic,
                         CharacterHistory s)

obtain the states of character ic from the given CharacterDistribution

Specified by:

transferFrom in interface MCharactersHistory

getMinMax

public void getMinMax(Tree tree,
                      int root,
                      int item,
                      MesquiteDouble min,
                      MesquiteDouble max)