ur_rna.RNAstructure.backend

Class Thermodynamics

java.lang.Object

ur_rna.RNAstructure.backend.Thermodynamics

Direct Known Subclasses:

RNA

public class Thermodynamics
extends java.lang.Object

Field Summary

Fields

Modifier and Type	Field and Description
protected boolean	swigCMemOwn
private long	swigCPtr

Constructor Summary

Constructors

Modifier	Constructor and Description
	Thermodynamics()
	Thermodynamics(boolean isRNA)
	Thermodynamics(boolean isRNA, java.lang.String alphabetName)
	Thermodynamics(boolean isRNA, java.lang.String alphabetName, double temperature)
protected	Thermodynamics(long cPtr, boolean cMemoryOwn)
	Thermodynamics(Thermodynamics copyThermo)

Method Summary

Modifier and Type	Method and Description
void	ClearEnergies()
void	ClearEnthalpies()
void	delete()
protected void	finalize()
java.lang.String	GetAlphabetName()
protected static long	getCPtr(Thermodynamics obj)
datatable	GetDatatable()
boolean	GetEnergyRead()
datatable	GetEnthalpyTable()
datatable	GetEnthalpyTable(java.lang.String alphabet)
boolean	getIsrna()
double	GetTemperature()
boolean	IsAlphabetRead()
int	ReadThermodynamic()
int	ReadThermodynamic(java.lang.String directory)
int	ReadThermodynamic(java.lang.String directory, java.lang.String alphabet)
int	ReadThermodynamic(java.lang.String directory, java.lang.String alphabet, double temperature)
int	ReloadDataTables()
int	ReloadDataTables(double new_temperature)
void	setIsrna(boolean value)
int	SetTemperature(double temperature)
boolean	VerifyThermodynamic()

Methods inherited from class java.lang.Object

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

Field Detail

swigCMemOwn

protected transient boolean swigCMemOwn

swigCPtr

private transient long swigCPtr

Constructor Detail

Thermodynamics

public Thermodynamics()

Thermodynamics

public Thermodynamics(boolean isRNA)

Thermodynamics

public Thermodynamics(boolean isRNA,
                      java.lang.String alphabetName)

Thermodynamics

public Thermodynamics(boolean isRNA,
                      java.lang.String alphabetName,
                      double temperature)

Thermodynamics

protected Thermodynamics(long cPtr,
                         boolean cMemoryOwn)

Thermodynamics

public Thermodynamics(Thermodynamics copyThermo)

Method Detail

ClearEnergies

public void ClearEnergies()

ClearEnthalpies

public void ClearEnthalpies()

delete

public void delete()

finalize

protected void finalize()

Overrides:

finalize in class java.lang.Object

GetAlphabetName

public java.lang.String GetAlphabetName()

getCPtr

protected static long getCPtr(Thermodynamics obj)

GetDatatable

public datatable GetDatatable()

GetEnergyRead

public boolean GetEnergyRead()

GetEnthalpyTable

public datatable GetEnthalpyTable()

GetEnthalpyTable

public datatable GetEnthalpyTable(java.lang.String alphabet)

getIsrna

public boolean getIsrna()

GetTemperature

public double GetTemperature()

IsAlphabetRead

public boolean IsAlphabetRead()

ReadThermodynamic

public int ReadThermodynamic()

ReadThermodynamic

public int ReadThermodynamic(java.lang.String directory)

ReadThermodynamic

public int ReadThermodynamic(java.lang.String directory,
                             java.lang.String alphabet)

ReadThermodynamic

public int ReadThermodynamic(java.lang.String directory,
                             java.lang.String alphabet,
                             double temperature)

ReloadDataTables

public int ReloadDataTables()

ReloadDataTables

public int ReloadDataTables(double new_temperature)

setIsrna

public void setIsrna(boolean value)

SetTemperature

public int SetTemperature(double temperature)

VerifyThermodynamic

public boolean VerifyThermodynamic()