com.banda.chemistry.domain

Class AcSpeciesSet

java.lang.Object

com.banda.core.domain.DomainObject<Long>

com.banda.core.domain.TechnicalDomainObject

com.banda.chemistry.domain.AcVariableSet<AcSpecies>

com.banda.chemistry.domain.AcSpeciesSet

All Implemented Interfaces:

AcVariableGroupIF<AcSpecies>, AcVariableSetIF<AcSpecies>, KeyHolder<Long>, Serializable

Direct Known Subclasses:

AcDNAStrandSpeciesSet

public class AcSpeciesSet
extends AcVariableSet<AcSpecies>

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class com.banda.core.domain.DomainObject

DomainObject.DomainObjectKeyComparator<K extends Serializable & Comparable<K>>

Constructor Summary

Constructors

Constructor and Description
AcSpeciesSet()

Method Summary

Methods

Modifier and Type	Method and Description
void	addSpeciesToGroup(AcSpeciesType type, AcSpecies species)
Collection<AcSpecies>	getInternalSpecies()
int	getLevel()
Integer	getNextVarSequenceNum()
Collection<AcSpecies>	getNonInputFeedbackSpecies()
Collection<AcSpecies>	getNonInternalSpecies()
Collection<AcSpecies>	getOwnAndInheritedSpecies(AcSpeciesType type)
Collection<AcSpecies>	getOwnAndInheritedVariables()
AcParameterSet	getParameterSet()
AcSpeciesSet	getParentSpeciesSet()
Collection<AcSpecies>	getSpecies(AcSpeciesType type)
AcSpeciesGroup	getSpeciesGroup(AcSpeciesType type)
Map<String,AcSpeciesGroup>	getSpeciesGroupMap()
int	getSpeciesNumber(AcSpeciesType type)
int	getVariablesNumber()
Integer	getVarSequenceNum()
boolean	hasParentSpeciesSet()
boolean	hasSpecies(AcSpeciesType type)
void	initVarSequenceNum()
static void	main(String[] args)
void	setParameterSet(AcParameterSet parameterSet)
void	setParentSpeciesSet(AcSpeciesSet parentSpeciesSet)
void	setSpeciesGroupMap(Map<String,AcSpeciesGroup> speciesGroupMap)
void	setVarSequenceNum(Integer sequenceNum)

Methods inherited from class com.banda.chemistry.domain.AcVariableSet

addVariable, addVariables, containsVariable, getCreatedBy, getCreateTime, getName, getOwnAndInheritedVariablesSorted, getVariables, getVariablesSorted, hasOwnVariables, initVariables, removeVariable, setCreatedBy, setCreateTime, setName, setVariables, toString

Methods inherited from class com.banda.core.domain.TechnicalDomainObject

getId, getKey, getVersion, setId, setKey, setVersion

Methods inherited from class com.banda.core.domain.DomainObject

copyFrom, equals, hashCode

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Constructor Detail

AcSpeciesSet

public AcSpeciesSet()

Method Detail

getParameterSet

public AcParameterSet getParameterSet()

setParameterSet

public void setParameterSet(AcParameterSet parameterSet)

getVarSequenceNum

public Integer getVarSequenceNum()

setVarSequenceNum

public void setVarSequenceNum(Integer sequenceNum)

getParentSpeciesSet

public AcSpeciesSet getParentSpeciesSet()

setParentSpeciesSet

public void setParentSpeciesSet(AcSpeciesSet parentSpeciesSet)

hasParentSpeciesSet

public boolean hasParentSpeciesSet()

getLevel

public int getLevel()

getSpeciesGroupMap

public Map<String,AcSpeciesGroup> getSpeciesGroupMap()

setSpeciesGroupMap

public void setSpeciesGroupMap(Map<String,AcSpeciesGroup> speciesGroupMap)

getOwnAndInheritedVariables

public Collection<AcSpecies> getOwnAndInheritedVariables()

Specified by:

getOwnAndInheritedVariables in interface AcVariableSetIF<AcSpecies>

Overrides:

getOwnAndInheritedVariables in class AcVariableSet<AcSpecies>

getVariablesNumber

public int getVariablesNumber()

Overrides:

getVariablesNumber in class AcVariableSet<AcSpecies>

initVarSequenceNum

public void initVarSequenceNum()

getNextVarSequenceNum

public Integer getNextVarSequenceNum()

getSpeciesGroup

public AcSpeciesGroup getSpeciesGroup(AcSpeciesType type)

addSpeciesToGroup

public void addSpeciesToGroup(AcSpeciesType type,
                     AcSpecies species)

getSpecies

public Collection<AcSpecies> getSpecies(AcSpeciesType type)

getOwnAndInheritedSpecies

public Collection<AcSpecies> getOwnAndInheritedSpecies(AcSpeciesType type)

getSpeciesNumber

public int getSpeciesNumber(AcSpeciesType type)

hasSpecies

public boolean hasSpecies(AcSpeciesType type)

getNonInputFeedbackSpecies

public Collection<AcSpecies> getNonInputFeedbackSpecies()

getNonInternalSpecies

public Collection<AcSpecies> getNonInternalSpecies()

getInternalSpecies

public Collection<AcSpecies> getInternalSpecies()

main

public static void main(String[] args)