HappyDoc Generated Documentation ./Rotamers

. / Rotamers 

Functions   
  registerLibrary 
registerLibrary ( importName )
  getRotamers 
getRotamers (
        res,
        phi=None,
        psi=None,
        cisTrans=None,
        resType=None,
        lib=None,
        log=None,
        )
Exceptions   

LimitationError( "N, CA, or C missing from %s:" " needed to position CB" % res )

  pruneByChis 
pruneByChis (
        rots,
        res,
        log=None,
        )
  processClashes 
processClashes (
        residue,
        rotamers,
        overlap,
        hbondAllow,
        scoreMethod,
        makePBs,
        pbColor,
        pbWidth,
        ignoreOthers,
        )
  extractResInfo 
extractResInfo ( res )
  nukeGroup 
nukeGroup ( groupName )
  getRotamerParams 
getRotamerParams (
        res,
        phi=None,
        psi=None,
        cisTrans=None,
        lib=None,
        )
  processVolume 
processVolume (
        rotamers,
        columnName,
        volume,
        )
  useRotamer 
useRotamer (
        oldRes,
        rot,
        log=None,
        )
Exceptions   

LimitationError( "N or CA missing from rotamer:" " cannot matchup with original residue" )
LimitationError( "N, CA, or C missing from %s:" " needed for side-chain pruning algorithm" % oldRes )

  useBestRotamers 
useBestRotamers (
        resType,
        targets,
        criteria=None,
        lib=None,
        preserve=None,
        overlapCutoff=None,
        hbondAllowance=None,
        scoreMethod=None,
        ignoreOtherModels=None,
        relax=None,
        distSlop=None,
        angleSlop=None,
        density=None,
        log=None,
        )
Exceptions   

MidasError( "No volume models in" " specified model numbers" )
MidasError( "No rotamer library named '%s'" % lib )
MidasError( "Density criteria requested" " but no density model specified" )
MidasError( "Multiple volume models in" " specified model numbers" )

  processHbonds 
processHbonds (
        residue,
        rotamers,
        drawHbonds,
        bondColor,
        lineWidth,
        relax,
        distSlop,
        angleSlop,
        twoColors,
        relaxColor,
        groupName,
        ignoreOtherModels,
        cacheDA=None,
        )
Classes   

NoResidueRotamersError

RotamerParams

RotamerLibraryInfo

Python files   

ChimeraExtension.py

ClashDialog.py

HbondDialog.py

VolumeDialog.py

data.py

gui.py

prefs.py

Subdirectories   

Dunbrack

Richardson


This document was automatically generated Wed Jul 9 15:49:00 2008 by HappyDoc version 3.1