ProtoMol - an object-oriented component based framework for Molecular Dynamics simulations.
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ProtoMol::iSGIntegrator Member List

This is the complete list of members for ProtoMol::iSGIntegrator, including all inherited members.
addModifierAfterInitialize()ProtoMol::iSGIntegrator [protected, virtual]
addModifierBeforeInitialize()ProtoMol::iSGIntegrator [protected, virtual]
adjustAlias(T *obj) const ProtoMol::Makeable [inline, protected]
adjustWithDefaultParameters(std::vector< Value > &values, const Configuration *) const ProtoMol::Makeable [inline, virtual]
adoptMediForceModifier(Modifier *modifier)ProtoMol::Integrator
adoptPostDriftOrNextModifier(Modifier *modifier)ProtoMol::Integrator
adoptPostForceModifier(Modifier *modifier)ProtoMol::Integrator
adoptPostStepModifier(Modifier *modifier)ProtoMol::Integrator
adoptPreDriftOrNextModifier(Modifier *modifier)ProtoMol::Integrator
adoptPreForceModifier(Modifier *modifier)ProtoMol::Integrator
adoptPreStepModifier(Modifier *modifier)ProtoMol::Integrator
anyMediForceModify() const ProtoMol::Integrator [inline, protected]
anyPostDriftOrNextModify() const ProtoMol::Integrator [inline, protected]
anyPostForceModify() const ProtoMol::Integrator [inline, protected]
anyPostStepModify() const ProtoMol::Integrator [inline, protected]
anyPreDriftOrNextModify() const ProtoMol::Integrator [inline, protected]
anyPreForceModify() const ProtoMol::Integrator [inline, protected]
anyPreStepModify() const ProtoMol::Integrator [inline, protected]
AveCQProtoMol::iSGIntegrator [private]
AveCQSqProtoMol::iSGIntegrator [private]
AveDeltaMuProtoMol::iSGIntegrator [private]
backward()ProtoMol::Integrator
bottom()ProtoMol::Integrator
bottom() const ProtoMol::Integrator
calculateForces()ProtoMol::STSIntegrator [protected, virtual]
checkForTransformation(const std::vector< iSGPAR::Bond > &, const std::vector< iSGPAR::Angle > &, const std::vector< iSGPAR::Dihedral > &, const std::vector< iSGPAR::Improper > &, const std::vector< iSGPAR::AtomType > &, const std::vector< ModifierISG::TransformMap > &)ProtoMol::iSGIntegrator [protected]
checkParameters(std::string &errMsg, const std::vector< Value > &values) const ProtoMol::Makeable
checkParameters(const std::vector< Value > &values) const ProtoMol::Makeable
checkParameterTypes(const std::vector< Value > &values) const ProtoMol::Makeable
copy(T *obj)ProtoMol::Makeable [inline, static]
createRattleModifier(Real eps, int maxIter)ProtoMol::iSGIntegrator [virtual]
createShakeModifier(Real eps, int maxIter)ProtoMol::iSGIntegrator [virtual]
deleteExternalModifiers()ProtoMol::Integrator
deleteInternalModifiers()ProtoMol::Integrator [protected]
do2ndHalfKick()ProtoMol::iSGIntegrator [private]
doDrift()ProtoMol::iSGIntegrator [protected, virtual]
doDriftOrNextIntegrator()ProtoMol::STSIntegrator [protected, virtual]
doHalfKick()ProtoMol::iSGIntegrator [protected, virtual]
doKick()ProtoMol::StandardIntegrator [protected, virtual]
doMake(std::string &, const std::vector< Value > &values, ForceGroup *fg) const ProtoMol::iSGIntegrator [private, virtual]
FinalTypeProtoMol::iSGIntegrator [private]
forward()ProtoMol::Integrator
getAlias() const ProtoMol::Makeable
getAveDeltaMu(int NumSteps)ProtoMol::iSGIntegrator [inline]
getBottomTimestep() const ProtoMol::Integrator [inline]
getDefinition() const ProtoMol::Makeable [virtual]
getEpsilonVel() const ProtoMol::iSGIntegrator [inline]
getEtaVel() const ProtoMol::iSGIntegrator [inline]
getForceGroup() const ProtoMol::Integrator [inline]
getForces() const ProtoMol::Integrator [inline]
getId() const ProtoMol::Makeable
getIdNoAlias() const ProtoMol::iSGIntegrator [inline, virtual]
getIntegratorDefinition() const ProtoMol::Integrator
getIntegratorDefinitionAll() const ProtoMol::Integrator
getNumAtoms() const ProtoMol::iSGIntegrator [inline]
getParameters(std::vector< Parameter > &parameters) const ProtoMol::iSGIntegrator [virtual]
ProtoMol::StandardIntegrator::getParameters() const ProtoMol::Makeable
getParameterSize() const ProtoMol::iSGIntegrator [inline, virtual]
getScope() const ProtoMol::Integrator [inline, virtual]
getText() const ProtoMol::Makeable [inline, virtual]
getTimestep() const ProtoMol::STSIntegrator [inline, virtual]
getXSC() const ProtoMol::iSGIntegrator
initialize(GenericTopology *topo, Vector3DBlock *positions, Vector3DBlock *velocities, ScalarStructure *energies)ProtoMol::iSGIntegrator [virtual]
initializeForces()ProtoMol::StandardIntegrator [protected, virtual]
initializeModifiers()ProtoMol::Integrator [protected]
Integrator()ProtoMol::Integrator
Integrator(ForceGroup *forceGroup)ProtoMol::Integrator
isforward() const ProtoMol::Integrator [inline]
iSGIntegrator()ProtoMol::iSGIntegrator
iSGIntegrator(Real timestep, unsigned int numComp, Real temperature, Real pressure, const std::vector< Real > &fugacityFrac, Real tauT, Real tauV, Real tauP, Real tauD, ForceGroup *overloadedForces)ProtoMol::iSGIntegrator
iSGModifierPostForceChemostat classProtoMol::iSGIntegrator [friend]
iSGModifierPreForceChemostat classProtoMol::iSGIntegrator [friend]
kbTProtoMol::iSGIntegrator [private]
keywordProtoMol::iSGIntegrator [static]
level() const ProtoMol::Integrator
make(std::string &errMsg, const std::vector< Value > &values, ForceGroup *fg) const ProtoMol::STSIntegrator
mediForceModify()ProtoMol::Integrator [protected]
ModifierISG classProtoMol::iSGIntegrator [friend]
ModifierPostForceBarostat classProtoMol::iSGIntegrator [friend]
ModifierPostForceThermostat classProtoMol::iSGIntegrator [friend]
ModifierPreForceBarostat classProtoMol::iSGIntegrator [friend]
ModifierPreForceThermostat classProtoMol::iSGIntegrator [friend]
modifyForces(const std::vector< iSGPAR::Bond > &, const std::vector< iSGPAR::Angle > &, const std::vector< iSGPAR::Dihedral > &, const std::vector< iSGPAR::Improper > &, const std::vector< iSGPAR::AtomType > &, const std::vector< ModifierISG::TransformMap > &)ProtoMol::iSGIntegrator [protected]
myDeltaMuIGProtoMol::iSGIntegrator [private]
myDMuIGProtoMol::iSGIntegrator [private]
myEnergiesProtoMol::Integrator [protected]
myEpsilonVelProtoMol::iSGIntegrator [private]
myEtaProtoMol::iSGIntegrator [private]
myEtaVProtoMol::iSGIntegrator [private]
myEtaVelProtoMol::iSGIntegrator [private]
myEtaVolVelProtoMol::iSGIntegrator [private]
myForcesProtoMol::Integrator [protected]
myForcesToEvaluateProtoMol::Integrator [protected]
myForwardProtoMol::Integrator [protected]
myFugacityFracProtoMol::iSGIntegrator [private]
myLambdaProtoMol::iSGIntegrator [private]
myLambdaVelProtoMol::iSGIntegrator [private]
mylnMassRatioProtoMol::iSGIntegrator [private]
myNumCompProtoMol::iSGIntegrator [private]
myNumFreeProtoMol::iSGIntegrator [private]
myNumStagesProtoMol::iSGIntegrator [private]
myPositionsProtoMol::Integrator [protected]
myPreviousIntegratorProtoMol::StandardIntegrator [protected]
myTargetDeltaMuProtoMol::iSGIntegrator [private]
myTargetMuProtoMol::iSGIntegrator [private]
myTargetPresProtoMol::iSGIntegrator [private]
myTargetTempProtoMol::iSGIntegrator [private]
myTauDProtoMol::iSGIntegrator [private]
myTauPProtoMol::iSGIntegrator [private]
myTauTProtoMol::iSGIntegrator [private]
myTauVProtoMol::iSGIntegrator [private]
myTopoProtoMol::Integrator [protected]
myVelocitiesProtoMol::Integrator [protected]
myVolumeProtoMol::iSGIntegrator [private]
NProtoMol::iSGIntegrator [private]
NewTypeProtoMol::iSGIntegrator [private]
next()ProtoMol::STSIntegrator [inline, virtual]
next() const ProtoMol::STSIntegrator [inline, virtual]
NumAtomsProtoMol::iSGIntegrator [private]
NumMolsProtoMol::iSGIntegrator [private]
NumTransStepsProtoMol::iSGIntegrator [private]
OldTypeProtoMol::iSGIntegrator [private]
postDriftOrNextModify()ProtoMol::Integrator [protected]
PostForceBarostat()ProtoMol::iSGIntegrator [private]
PostForceChemostat()ProtoMol::iSGIntegrator [private]
postForceModify()ProtoMol::Integrator [protected]
PostForceThermostat()ProtoMol::iSGIntegrator [private]
postStepModify()ProtoMol::Integrator [protected]
preDriftOrNextModify()ProtoMol::Integrator [protected]
PreForceBarostat()ProtoMol::iSGIntegrator [private]
PreForceChemostat()ProtoMol::iSGIntegrator [private]
preForceModify()ProtoMol::Integrator [protected]
PreForceThermostat()ProtoMol::iSGIntegrator [private]
preStepModify()ProtoMol::Integrator [protected]
previous()ProtoMol::StandardIntegrator [virtual]
previous() const ProtoMol::StandardIntegrator [virtual]
QdProtoMol::iSGIntegrator [private]
QoProtoMol::iSGIntegrator [private]
QvProtoMol::iSGIntegrator [private]
removeModifier(const Modifier *modifier)ProtoMol::Integrator
run(int numTimesteps)ProtoMol::iSGIntegrator [virtual]
scopeProtoMol::Integrator [static]
setAlias(const std::string &id)ProtoMol::Makeable
size() const ProtoMol::Integrator [inline]
StandardIntegrator()ProtoMol::StandardIntegrator
StandardIntegrator(ForceGroup *forceGroup)ProtoMol::StandardIntegrator
STSIntegrator()ProtoMol::STSIntegrator
STSIntegrator(Real timestep, ForceGroup *overloadedForces)ProtoMol::STSIntegrator
TProtoMol::iSGIntegrator [private]
thisStageProtoMol::iSGIntegrator [private]
top()ProtoMol::Integrator
top() const ProtoMol::Integrator
TransformedProtoMol::iSGIntegrator [private]
uncache()ProtoMol::Integrator
WProtoMol::iSGIntegrator [private]
~Integrator()ProtoMol::Integrator [virtual]
~Makeable()ProtoMol::Makeable [inline, virtual]
Last update: . GNU GENERAL PUBLIC LICENSE, copyrighted by the University of Notre Dame and the University of Bergen, Norway.