no.uio.labmed.pdb
Class PDBformat

java.lang.Object
  |
  +--no.uio.labmed.pdb.PDBformat
Direct Known Subclasses:
PDBreader

public abstract class PDBformat
extends java.lang.Object

Abstract class defining the methods needed to define or redefine for a PDBreader in order to process the data.


Constructor Summary
PDBformat()
           
 
Method Summary
 void end()
           
 void endConnectivityAnnotationSection()
           
 void endHeterogenSection()
           
 void endMiscellaneousFeaturesSection()
           
 void endModel(int count)
           
 void endPrimaryStructureSection()
           
 void endSecondaryStructureSection()
           
 void endTitleSection()
           
 java.lang.String getChainId()
           
protected  void ifNewChainId(java.lang.String t)
           
 void newAuthor(java.lang.String t)
           
 void newCaveat(java.lang.String t)
           
 void newChainId(java.lang.String t)
           
 void newCompnd(java.lang.String t)
           
 void newExpdta(java.lang.String t)
           
 void newHeader(java.lang.String t)
           
 void newHelix()
           
 void newJrnl(java.lang.String t)
           
 void newKeywds(java.lang.String t)
           
 void newModel()
           
 void newObslte(java.lang.String t)
           
 void newRemark(java.lang.String t)
           
 void newResidue(java.lang.String t)
           
 void newRevdat(java.lang.String t)
           
 void newSheet()
           
 void newSource(java.lang.String t)
           
 void newSprsde(java.lang.String t)
           
 void newTitle(java.lang.String t)
           
 void newTurn()
           
 void startConnectivityAnnotationSection()
           
 void startHeterogenSection()
           
 void startMiscellaneousFeaturesSection()
           
 void startPDBparse()
           
 void startPrimaryStructureSection()
           
 void startSecondaryStructureSection()
           
 void startTitleSection()
           
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

PDBformat

public PDBformat()
Method Detail

ifNewChainId

protected final void ifNewChainId(java.lang.String t)

getChainId

public java.lang.String getChainId()

startPDBparse

public void startPDBparse()

startTitleSection

public void startTitleSection()

newHeader

public void newHeader(java.lang.String t)

newObslte

public void newObslte(java.lang.String t)

newTitle

public void newTitle(java.lang.String t)

newCaveat

public void newCaveat(java.lang.String t)

newCompnd

public void newCompnd(java.lang.String t)

newSource

public void newSource(java.lang.String t)

newKeywds

public void newKeywds(java.lang.String t)

newExpdta

public void newExpdta(java.lang.String t)

newAuthor

public void newAuthor(java.lang.String t)

newRevdat

public void newRevdat(java.lang.String t)

newSprsde

public void newSprsde(java.lang.String t)

newJrnl

public void newJrnl(java.lang.String t)

newRemark

public void newRemark(java.lang.String t)

endTitleSection

public void endTitleSection()

startPrimaryStructureSection

public void startPrimaryStructureSection()

newChainId

public void newChainId(java.lang.String t)

newResidue

public void newResidue(java.lang.String t)

endPrimaryStructureSection

public void endPrimaryStructureSection()

startHeterogenSection

public void startHeterogenSection()

endHeterogenSection

public void endHeterogenSection()

startSecondaryStructureSection

public void startSecondaryStructureSection()

newHelix

public void newHelix()

newSheet

public void newSheet()

newTurn

public void newTurn()

endSecondaryStructureSection

public void endSecondaryStructureSection()

startConnectivityAnnotationSection

public void startConnectivityAnnotationSection()

newModel

public void newModel()

endModel

public void endModel(int count)

endConnectivityAnnotationSection

public void endConnectivityAnnotationSection()

startMiscellaneousFeaturesSection

public void startMiscellaneousFeaturesSection()

endMiscellaneousFeaturesSection

public void endMiscellaneousFeaturesSection()

end

public void end()