org.biojava.nbio.structure.align.fatcat

Class FatCatUserArgumentProcessor.FatCatStartupParams

java.lang.Object

org.biojava.nbio.structure.align.ce.StartupParameters

org.biojava.nbio.structure.align.fatcat.FatCatUserArgumentProcessor.FatCatStartupParams

Enclosing class:

FatCatUserArgumentProcessor

protected class FatCatUserArgumentProcessor.FatCatStartupParams
extends StartupParameters

Constructor Summary

Constructors

Constructor and Description
FatCatUserArgumentProcessor.FatCatStartupParams()

Method Summary

Methods

Modifier and Type	Method and Description
double	getDisCut()
int	getFragLen()
int	getMaxTra()
Double	getRmsdCut()
boolean	isFlexible()
void	setDisCut(double disCut)
void	setFlexible(boolean flexible)
void	setFragLen(int fragLen)
void	setMaxTra(int maxTra)
void	setRmsdCut(Double rmsdCut)

Methods inherited from class org.biojava.nbio.structure.align.ce.StartupParameters

getAlignPairs, getCacheFilePath, getFile1, getFile2, getNrCPU, getOutFile, getPdb1, getPdb2, getPdbFilePath, getSaveOutputDir, getSearchFile, getShowDBresult, isAutoFetch, isDomainSplit, isOutputPDB, isPdbDirSplit, isPrintCE, isPrintFatCat, isPrintXML, isShow3d, isShowMenu, setAlignPairs, setAutoFetch, setCacheFilePath, setDomainSplit, setFile1, setFile2, setNrCPU, setOutFile, setOutputPDB, setPdb1, setPdb2, setPdbDirSplit, setPdbFilePath, setPrintCE, setPrintFatCat, setPrintXML, setSaveOutputDir, setSearchFile, setShow3d, setShowDBresult, setShowMenu, toString

Methods inherited from class java.lang.Object

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

Constructor Detail

FatCatUserArgumentProcessor.FatCatStartupParams

public FatCatUserArgumentProcessor.FatCatStartupParams()

Method Detail

getFragLen

public int getFragLen()

setFragLen

public void setFragLen(int fragLen)

getRmsdCut

public Double getRmsdCut()

setRmsdCut

public void setRmsdCut(Double rmsdCut)

getDisCut

public double getDisCut()

setDisCut

public void setDisCut(double disCut)

getMaxTra

public int getMaxTra()

setMaxTra

public void setMaxTra(int maxTra)

isFlexible

public boolean isFlexible()

setFlexible

public void setFlexible(boolean flexible)