org.biojava.nbio.structure.align.ce.CeCPUserArgumentProcessor.CeCPStartupParams

Enclosing class:: CeCPUserArgumentProcessor

protected class CeCPUserArgumentProcessor.CeCPStartupParams extends CeUserArgumentProcessor.CeStartupParams

Field Summary

Fields

Modifier and Type

Field

Description

protected CECPParameters.DuplicationHint

duplicationHint

protected Integer

minCPLength

Fields inherited from class org.biojava.nbio.structure.align.ce.CeUserArgumentProcessor.CeStartupParams
gapExtension, gapOpen, maxGapSize, maxOptRMSD, scoringStrategy, showAFPRanges, winSize
Constructor Summary

Constructors

Constructor

Description

CeCPStartupParams()
Method Summary

Modifier and Type

Method

Description

CECPParameters.DuplicationHint

getDuplicationHint()

Integer

getMinCPLength()

void

setDuplicationHint(CECPParameters.DuplicationHint duplicationHint)

void

setMinCPLength(Integer minCPLength)

String

toString()

Methods inherited from class org.biojava.nbio.structure.align.ce.CeUserArgumentProcessor.CeStartupParams
getGapExtension, getGapOpen, getMaxGapSize, getMaxOptRMSD, getScoringStrategy, getWinSize, isShowAFPRanges, setGapExtension, setGapOpen, setMaxGapSize, setMaxOptRMSD, setScoringStrategy, setShowAFPRanges, setWinSize

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

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Details
- duplicationHint
  
  protected CECPParameters.DuplicationHint duplicationHint
- minCPLength
  
  protected Integer minCPLength
Constructor Details
- CeCPStartupParams
  
  public CeCPStartupParams()
Method Details
- getDuplicationHint
  
  public CECPParameters.DuplicationHint getDuplicationHint()
- setDuplicationHint
  
  public void setDuplicationHint(CECPParameters.DuplicationHint duplicationHint)
- getMinCPLength
  
  public Integer getMinCPLength()
- setMinCPLength
  
  public void setMinCPLength(Integer minCPLength)
- toString
  
  public String toString()
  
  Overrides:
  
  toString in class CeUserArgumentProcessor.CeStartupParams

Class CeCPUserArgumentProcessor.CeCPStartupParams

Field Summary

Fields inherited from class org.biojava.nbio.structure.align.ce.CeUserArgumentProcessor.CeStartupParams

Constructor Summary

Method Summary

Methods inherited from class org.biojava.nbio.structure.align.ce.CeUserArgumentProcessor.CeStartupParams

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

Methods inherited from class java.lang.Object

Field Details

duplicationHint

minCPLength

Constructor Details

CeCPStartupParams

Method Details

getDuplicationHint

setDuplicationHint

getMinCPLength

setMinCPLength

toString