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java.lang.Object jp.sbi.celldesigner.plugin.PluginSBase jp.sbi.celldesigner.plugin.PluginSpecies
public class PluginSpecies
This class wraps org.sbml.libsbml.Species for the plug-in.
Field Summary |
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Fields inherited from class jp.sbi.celldesigner.plugin.PluginSBase |
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sbase |
Constructor Summary | |
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protected |
PluginSpecies()
Constructor |
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PluginSpecies(java.lang.String type,
java.lang.String name)
Constructor |
Method Summary | |
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void |
addSpeciesAlias(PluginSpeciesAlias alias)
Adds the PluginSpeciesAlias to this Species. |
boolean |
getBoundaryCondition()
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int |
getCharge()
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java.lang.String |
getCompartment()
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boolean |
getConstant()
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boolean |
getHasOnlySubstanceUnits()
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java.lang.String |
getId()
|
double |
getInitialAmount()
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double |
getInitialConcentration()
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PluginListOf |
getListOfSpeciesAlias()
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java.lang.String |
getName()
|
int |
getNumSpeciesAlias()
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java.lang.String |
getPositionToCompartment()
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java.lang.String |
getSpatialSizeUnits()
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PluginSpeciesAlias |
getSpeciesAlias(int index)
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PluginSpeciesAlias |
getSpeciesAlias(java.lang.String aliasId)
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java.lang.String |
getSpeciesType()
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java.lang.String |
getSubstanceUnits()
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java.lang.String |
getUnits()
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boolean |
isSetInitialAmount()
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boolean |
isSetInitialConcentration()
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void |
removeSpeciesAlias(int index)
Removes PluginSpeciesAlias from this Species. |
void |
removeSpeciesAlias(java.lang.String aliasId)
Removes PluginSpeciesAlias from this Species. |
void |
setBoundaryCondition(boolean boundaryCondition)
Sets the boundaryCondition of this PluginSpecies. |
void |
setCharge(int charge)
Sets the charge of this PluginSpecies. |
void |
setCompartment(java.lang.String compartment)
Sets the compartment of this PluginSpecies. |
void |
setConstant(boolean constant)
Sets the constant of this PluginSpecies. |
void |
setHasOnlySubstanceUnits(boolean hasOnlySubstanceUnits)
Sets the HasOnlySubstanceUnits of this PluginSpecies. |
protected void |
setId(java.lang.String id)
Sets the id of this PluginSpecies. |
void |
setInitialAmount(double initialAmount)
Sets the InitialAmount of this PluginSpecies. |
void |
setInitialConcentration(double initialConcentration)
Sets the initialConcentration of this PluginSpecies. |
void |
setListOfSpeciesAlias(PluginListOf listOfPluginSpeciesAlias)
Sets listOfPluginSpeciesAlias of this PluginSpecies. |
protected void |
setName(java.lang.String name)
Sets the name of this PluginSpecies. |
protected void |
setPositionToCompartment(java.lang.String positionToCompartment)
Sets the position of this PluginSpecies |
void |
setSpatialSizeUnits(java.lang.String spatialSizeUnits)
Sets the spatialSizeUnits of this PluginSpecies. |
void |
setSpeciesType(java.lang.String strSpeciesType)
|
void |
setSubstanceUnits(java.lang.String substanceUnits)
Sets the hasOnlySubstanceUnits field of this PluginSpecies. |
void |
setUnits(java.lang.String units)
Sets the units of this PluginSpecies |
void |
update(PluginSpecies species)
Update all properties of this PluginSpecies to the same as the given PluginSpecies. |
Methods inherited from class jp.sbi.celldesigner.plugin.PluginSBase |
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addCVTerm, ChangeCVTermToMiriamDefinition, getAnnotation, getAnnotationString, getCVTerm, getNotes, getNotesString, getNumCVTerms, getParentSBase, getRelationFromCVTerm, setAnnotation, setAnnotationString, setCVTerm, setNotes, setNotes, setParentSBase, toSBML |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
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public PluginSpecies(java.lang.String type, java.lang.String name)
type
- the one of the field of PluginSpeciesSymbolTypename
- protected PluginSpecies()
Method Detail |
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public void update(PluginSpecies species)
species
- public java.lang.String getId()
protected void setId(java.lang.String id)
id
- public java.lang.String getName()
protected void setName(java.lang.String name)
name
- public java.lang.String getSpeciesType()
public void setSpeciesType(java.lang.String strSpeciesType)
public java.lang.String getCompartment()
public void setCompartment(java.lang.String compartment)
compartment
- public double getInitialAmount()
public void setInitialAmount(double initialAmount)
initialAmount
- public double getInitialConcentration()
public void setInitialConcentration(double initialConcentration)
initialConcentration
- public boolean isSetInitialAmount()
public boolean isSetInitialConcentration()
public boolean getBoundaryCondition()
public void setBoundaryCondition(boolean boundaryCondition)
boundaryCondition
- public int getCharge()
public void setCharge(int charge)
charge
- public boolean getConstant()
public void setConstant(boolean constant)
constant
- public boolean getHasOnlySubstanceUnits()
public void setHasOnlySubstanceUnits(boolean hasOnlySubstanceUnits)
hasOnlySubstanceUnits
- public java.lang.String getSubstanceUnits()
public void setSubstanceUnits(java.lang.String substanceUnits)
substanceUnits
- public java.lang.String getSpatialSizeUnits()
public void setSpatialSizeUnits(java.lang.String spatialSizeUnits)
spatialSizeUnits
- public java.lang.String getUnits()
public void setUnits(java.lang.String units)
units
- public java.lang.String getPositionToCompartment()
protected void setPositionToCompartment(java.lang.String positionToCompartment)
positionToCompartment
- public int getNumSpeciesAlias()
public PluginListOf getListOfSpeciesAlias()
public PluginSpeciesAlias getSpeciesAlias(int index)
index
- the index of PluginSpeciesAlias.
public PluginSpeciesAlias getSpeciesAlias(java.lang.String aliasId)
aliasId
- the id of the PluginSpeciesAlias.
public void addSpeciesAlias(PluginSpeciesAlias alias)
alias
- the PluginSpeciesAliaspublic void removeSpeciesAlias(int index)
index
- the index of the PluginSpeciesAlias to remove.public void removeSpeciesAlias(java.lang.String aliasId)
aliasId
- the id of the PluginSpeciesAlias to remove.public void setListOfSpeciesAlias(PluginListOf listOfPluginSpeciesAlias)
listOfPluginSpeciesAlias
-
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