SimParameters Member List

This is the complete list of members for SimParameters, including all inherited members.
aaAngleExpSimParameters
accelMDalphaSimParameters
accelMDDebugOnSimParameters
accelMDdiheSimParameters
accelMDdualSimParameters
accelMDESimParameters
accelMDFirstStepSimParameters
accelMDGSimParameters
accelMDGcMDPrepStepsSimParameters
accelMDGcMDStepsSimParameters
accelMDGEquiPrepStepsSimParameters
accelMDGEquiStepsSimParameters
accelMDGiESimParameters
accelMDGresetVaftercmdSimParameters
accelMDGRestartSimParameters
accelMDGRestartFileSimParameters
accelMDGSigma0DSimParameters
accelMDGSigma0PSimParameters
accelMDGStatWindowSimParameters
accelMDLastStepSimParameters
accelMDOnSimParameters
accelMDOutFreqSimParameters
accelMDTalphaSimParameters
accelMDTESimParameters
adaptTempAutoDtSimParameters
adaptTempBinsSimParameters
adaptTempCgammaSimParameters
adaptTempDebugSimParameters
adaptTempDtSimParameters
adaptTempFirstStepSimParameters
adaptTempFreqSimParameters
adaptTempInFileSimParameters
adaptTempLangevinSimParameters
adaptTempLastStepSimParameters
adaptTempOnSimParameters
adaptTempOutFreqSimParameters
adaptTempRandomSimParameters
adaptTempRescaleSimParameters
adaptTempRestartFileSimParameters
adaptTempRestartFreqSimParameters
adaptTempTmaxSimParameters
adaptTempTminSimParameters
alchBondDecoupleSimParameters
alchBondLambdaEndSimParameters
alchDecoupleSimParameters
alchElecLambdaStartSimParameters
alchEnsembleAvgSimParameters
alchEquilStepsSimParameters
alchFepOnSimParameters
alchFepOnAtStartupSimParameters
alchIDWSFreqSimParameters
alchLambdaSimParameters
alchLambda2SimParameters
alchLambdaFreqSimParameters
alchLambdaIDWSSimParameters
alchMethodSimParameters
alchOnSimParameters
alchOnAtStartupSimParameters
alchOutFileSimParameters
alchOutFreqSimParameters
alchRepLambdaEndSimParameters
alchTempSimParameters
alchThermIntOnSimParameters
alchThermIntOnAtStartupSimParameters
alchVdwLambdaEndSimParameters
alchVdwShiftCoeffSimParameters
alchWCAOnSimParameters
alpha_cutoffSimParameters
alpha_maxSimParameters
amberOnSimParameters
auxFilenameSimParameters
benchTimestepSimParameters
berendsenPressureCompressibilitySimParameters
berendsenPressureFreqSimParameters
berendsenPressureOnSimParameters
berendsenPressureRelaxationTimeSimParameters
berendsenPressureTargetSimParameters
binaryOutputSimParameters
binaryRestartSimParameters
binAtomFileSimParameters
binCoorFileSimParameters
binRefFileSimParameters
binVelFileSimParameters
bondedCUDASimParameters
cellBasisVector1SimParameters
cellBasisVector2SimParameters
cellBasisVector3SimParameters
cellOriginSimParameters
close_dcdfile()SimParameters
close_veldcdfile()SimParameters
COLDOnSimParameters
COLDRateSimParameters
COLDTempSimParameters
colvarsOnSimParameters
commOnlySimParameters
comMoveSimParameters
computeMapFilenameSimParameters
consForceFileSimParameters
consForceOnSimParameters
consForceScalingSimParameters
consTorqueAxisFileSimParameters
consTorqueFileSimParameters
consTorqueGlobValSimParameters
consTorqueOnSimParameters
consTorquePivotFileSimParameters
consTorqueValFileSimParameters
constraintExpSimParameters
constraintScalingSimParameters
constraintsOnSimParameters
constrXOnSimParameters
constrYOnSimParameters
constrZOnSimParameters
cosAnglesSimParameters
coulomb_radius_offsetSimParameters
cutoffSimParameters
cylindricalBCAxisSimParameters
cylindricalBCexp1SimParameters
cylindricalBCexp2SimParameters
cylindricalBCk1SimParameters
cylindricalBCk2SimParameters
cylindricalBCl1SimParameters
cylindricalBCl2SimParameters
cylindricalBCOnSimParameters
cylindricalBCr1SimParameters
cylindricalBCr2SimParameters
cylindricalCenterSimParameters
daCutoffDistSimParameters
daOffDistSimParameters
daOnDistSimParameters
dcdFilenameSimParameters
dcdFrequencySimParameters
dcdUnitCellSimParameters
dhaCutoffAngleSimParameters
dhaOffAngleSimParameters
dhaOnAngleSimParameters
dielectricSimParameters
dihedralOnSimParameters
disableTopologySimParameters
distAttExpSimParameters
distRepExpSimParameters
drudeBondConstSimParameters
drudeBondLenSimParameters
drudeDampingSimParameters
drudeHardWallOnSimParameters
drudeNbtholeCutSimParameters
drudeOnSimParameters
drudeTempSimParameters
dtSimParameters
eFieldSimParameters
eFieldFreqSimParameters
eFieldNormalizedSimParameters
eFieldOnSimParameters
eFieldPhaseSimParameters
excludeSimParameters
excludeFromPressureSimParameters
extCoordFilenameSimParameters
extForceFilenameSimParameters
extForcesCommandSimParameters
extForcesOnSimParameters
extraBondsCosAnglesSimParameters
extraBondsCosAnglesSetByUserSimParameters
extraBondsOnSimParameters
FFTWEstimateSimParameters
FFTWPatientSimParameters
FFTWUseWisdomSimParameters
FFTWWisdomFileSimParameters
FFTWWisdomStringSimParameters
firstLdbStepSimParameters
firstTimestepSimParameters
fixCellDimsSimParameters
fixCellDimXSimParameters
fixCellDimYSimParameters
fixCellDimZSimParameters
fixedAtomsForceOutputSimParameters
fixedAtomsForcesSimParameters
fixedAtomsOnSimParameters
FMAFFTBlockSimParameters
FMAFFTOnSimParameters
FMALevelsSimParameters
FMAMpSimParameters
FMAOnSimParameters
fmaThetaSimParameters
FMMLevelsSimParameters
FMMOnSimParameters
FMMPaddingSimParameters
forceDcdFilenameSimParameters
forceDcdFrequencySimParameters
freeEnergyOnSimParameters
fsMaxSimParameters
fullDirectOnSimParameters
fullElectFrequencySimParameters
gbis_betaSimParameters
gbis_deltaSimParameters
gbis_gammaSimParameters
GBISOnSimParameters
GBISserOnSimParameters
genCompressedPsfSimParameters
getBondLambda(const BigReal)SimParameters
getCurrentLambda(const int)SimParameters
getCurrentLambda2(const int)SimParameters
getElecLambda(const BigReal)SimParameters
getfromparseopts(const char *name, char *outbuf)SimParameters
getLambdaDelta(void)SimParameters
getRepLambda(const BigReal)SimParameters
getVdwLambda(const BigReal)SimParameters
globalForcesOnSimParameters
globalOnSimParameters
goCoordinatesSimParameters
goForcesOnSimParameters
goGroPairSimParameters
goMethodSimParameters
goParametersSimParameters
gridforcechecksizeSimParameters
gridforceContA1SimParameters
gridforceContA2SimParameters
gridforceContA3SimParameters
gridforceLiteSimParameters
gridforceOnSimParameters
gridforceScaleSimParameters
gridforceVOffsetSimParameters
gridforceVoltsSimParameters
gromacsOnSimParameters
haAngleExpSimParameters
hgroupCutoffSimParameters
hybridGroupSizeSimParameters
HydrogenBondsSimParameters
ignoreMassSimParameters
IMDfreqSimParameters
IMDignoreSimParameters
IMDignoreForcesSimParameters
IMDonSimParameters
IMDportSimParameters
IMDwaitSimParameters
initialize_config_data(ConfigList *, char *&cwd)SimParameters
initialTempSimParameters
ion_concentrationSimParameters
isRecvSpanningTreeOn()SimParameters [inline]
isRecvSpanningTreeUnset()SimParameters [inline]
isSendSpanningTreeOn()SimParameters [inline]
isSendSpanningTreeUnset()SimParameters [inline]
issetinparseopts(const char *name)SimParameters
istrueinparseopts(const char *name)SimParameters
kappaSimParameters
langevin_useBAOABSimParameters
langevinDampingSimParameters
langevinHydrogenSimParameters
langevinOnSimParameters
langevinOnAtStartupSimParameters
langevinPistonBarrierSimParameters
langevinPistonDecaySimParameters
langevinPistonOnSimParameters
langevinPistonPeriodSimParameters
langevinPistonTargetSimParameters
langevinPistonTempSimParameters
langevinTempSimParameters
lastLdbStepSimParameters
latticeSimParameters
LCPOOnSimParameters
ldBalancerSimParameters
ldbBackgroundScalingSimParameters
ldbHomeBackgroundScalingSimParameters
ldbPeriodSimParameters
ldbPMEBackgroundScalingSimParameters
ldbRelativeGrainsizeSimParameters
ldbStrategySimParameters
ldbUnloadOneSimParameters
ldbUnloadOutputPEsSimParameters
ldbUnloadPMESimParameters
ldbUnloadZeroSimParameters
lesFactorSimParameters
lesOnSimParameters
lesReduceMassSimParameters
lesReduceTempSimParameters
limitDistSimParameters
LJcorrectionSimParameters
loadComputeMapSimParameters
lonepairsSimParameters
longSplittingSimParameters
loweAndersenCutoffSimParameters
loweAndersenOnSimParameters
loweAndersenRateSimParameters
loweAndersenTempSimParameters
mallocTestSimParameters
marginSimParameters
martiniDielAllowSimParameters
martiniSwitchingSimParameters
maxExclusionFlagsSimParameters
maximumMoveSimParameters
maxPairPartSimParameters
maxPatchesSimParameters
maxSelfPartSimParameters
mergeCrosstermsSimParameters
mgridforcelistSimParameters
mgridforceOnSimParameters
mic_deviceThresholdSimParameters
mic_hostSplitSimParameters
mic_numParts_pair_p1SimParameters
mic_numParts_pair_p2SimParameters
mic_numParts_self_p1SimParameters
mic_singleKernelSimParameters
mic_unloadMICPEsSimParameters
minAtomsPerPatchSimParameters
minBabyStepSimParameters
minimizeCGOnSimParameters
minimizeOnSimParameters
minLineGoalSimParameters
minTinyStepSimParameters
minVerboseSimParameters
miscForcesOnSimParameters
mollyIterSimParameters
mollyOnSimParameters
mollyTolSimParameters
movDragFileSimParameters
movDragGlobVelSimParameters
movDragOnSimParameters
movDragVelFileSimParameters
movingConstraintsOnSimParameters
movingConsVelSimParameters
MSMApproxSimParameters
MSMBlockSizeXSimParameters
MSMBlockSizeYSimParameters
MSMBlockSizeZSimParameters
MSMGridSpacingSimParameters
MSMLevelsSimParameters
MSMOnSimParameters
MSMPaddingSimParameters
MSMQualitySimParameters
MsmSerialOnSimParameters
MSMSplitSimParameters
MSMxmaxSimParameters
MSMxminSimParameters
MSMymaxSimParameters
MSMyminSimParameters
MSMzmaxSimParameters
MSMzminSimParameters
MTSAlgorithmSimParameters
multigratorNoseHooverChainLengthSimParameters
multigratorOnSimParameters
multigratorPressureFreqSimParameters
multigratorPressureRelaxationTimeSimParameters
multigratorPressureTargetSimParameters
multigratorTemperatureFreqSimParameters
multigratorTemperatureRelaxationTimeSimParameters
multigratorTemperatureTargetSimParameters
NSimParameters
nonbonded_select()SimParameters [static]
nonbondedFrequencySimParameters
nonbondedScalingSimParameters
noPatchesOnOneSimParameters
noPatchesOnOutputPEsSimParameters
noPatchesOnZeroSimParameters
numAtomsPairSimParameters
numAtomsPair2SimParameters
numAtomsSelfSimParameters
numAtomsSelf2SimParameters
numinputprocsSimParameters
numoutputprocsSimParameters
numoutputwrtsSimParameters
numTraceStepsSimParameters
outputCudaTimingSimParameters
outputEnergiesSimParameters
outputFilenameSimParameters
outputMapsSimParameters
outputMomentaSimParameters
outputPairlistsSimParameters
outputPatchDetailsSimParameters
outputPressureSimParameters
outputTimingSimParameters
pairInteractionGroup1SimParameters
pairInteractionGroup2SimParameters
pairInteractionOnSimParameters
pairInteractionSelfSimParameters
pairlistDistSimParameters
pairlistGrowSimParameters
pairlistMinProcsSimParameters
pairlistShrinkSimParameters
pairlistsPerCycleSimParameters
pairlistTriggerSimParameters
paraTypeCharmmOnSimParameters
paraTypeXplorOnSimParameters
patchDimensionSimParameters
pme_select()SimParameters [static]
PMEBarrierSimParameters
PMEEwaldCoefficientSimParameters
PMEGridSizeXSimParameters
PMEGridSizeYSimParameters
PMEGridSizeZSimParameters
PMEGridSpacingSimParameters
PMEInterpOrderSimParameters
PMEMinPointsSimParameters
PMEMinSlicesSimParameters
PMEOffloadSimParameters
PMEOnSimParameters
PMEPencilsSimParameters
PMEPencilsXSimParameters
PMEPencilsXLayoutSimParameters
PMEPencilsYSimParameters
PMEPencilsYLayoutSimParameters
PMEPencilsZSimParameters
PMEProcessorsSimParameters
PMESendOrderSimParameters
PMEToleranceSimParameters
pressureProfileAtomTypesSimParameters
pressureProfileEwaldOnSimParameters
pressureProfileEwaldXSimParameters
pressureProfileEwaldYSimParameters
pressureProfileEwaldZSimParameters
pressureProfileFreqSimParameters
pressureProfileOnSimParameters
pressureProfileSlabsSimParameters
printBadContactsSimParameters
printExclusionsSimParameters
proxyRecvSpanningTreeSimParameters
proxySendSpanningTreeSimParameters
proxyTreeBranchFactorSimParameters
qmBaseDirSimParameters
qmBondColumnSimParameters
qmBondDistSimParameters
qmBondOnSimParameters
qmBondSchemeSimParameters
qmBondSchemeSSimParameters
qmBondValTypeSimParameters
qmBondValueTypeSSimParameters
qmChrgFromPSFSimParameters
qmChrgModeSimParameters
qmChrgModeSSimParameters
qmColumnSimParameters
qmCSMDSimParameters
qmCSMDFileSimParameters
qmCustomPCSelSimParameters
qmElecEmbedSimParameters
qmEnergyOutFreqSimParameters
qmExecPathSimParameters
qmForcesOnSimParameters
qmFormatSimParameters
qmLSSFreqSimParameters
qmLSSModeSimParameters
qmLSSModeSSimParameters
qmLSSOnSimParameters
qmLSSResnameSimParameters
qmMOPACAddConfigChrgSimParameters
qmNoPCSimParameters
qmOutFreqSimParameters
qmParamPDBSimParameters
qmParamPDBDefinedSimParameters
qmPCSchemeSimParameters
qmPCSchemeSSimParameters
qmPCSelFreqSimParameters
qmPCSwitchOnSimParameters
qmPCSwitchTypeSimParameters
qmPCSwitchTypeSSimParameters
qmPosOutFreqSimParameters
qmPrepProcSimParameters
qmPrepProcOnSimParameters
qmReplaceAllSimParameters
qmSecProcSimParameters
qmSecProcOnSimParameters
qmSimsPerNodeSimParameters
qmSoftwareSimParameters
qmVDWSimParameters
randomSeedSimParameters
readExclusionsSimParameters
readExtendedSystem(const char *filename, Lattice *latptr=0)SimParameters
reassignFreqSimParameters
reassignHoldSimParameters
reassignIncrSimParameters
reassignTempSimParameters
receive_SimParameters(MIStream *)SimParameters
replicaUniformPatchGridsSimParameters
rescaleFreqSimParameters
rescaleTempSimParameters
restartFilenameSimParameters
restartFrequencySimParameters
restartSaveSimParameters
restartSaveDcdSimParameters
rigidBondsSimParameters
rigidDieSimParameters
rigidIterSimParameters
rigidTolSimParameters
rotConsAxisSimParameters
rotConsPivotSimParameters
rotConstraintsOnSimParameters
rotConsVelSimParameters
rotDragAxisFileSimParameters
rotDragFileSimParameters
rotDragGlobVelSimParameters
rotDragOnSimParameters
rotDragPivotFileSimParameters
rotDragVelFileSimParameters
scale14SimParameters
scriptArg1SimParameters
scriptArg2SimParameters
scriptArg3SimParameters
scriptArg4SimParameters
scriptArg5SimParameters
scriptIntArg1SimParameters
scriptIntArg2SimParameters
scriptSet(const char *, const char *)SimParameters
scriptStringArg1SimParameters
scriptStringArg2SimParameters
selectConstraintsOnSimParameters
send_SimParameters(MOStream *)SimParameters
setupIDWS()SimParameters
SimParameters()SimParameters [inline]
SimParameters(ConfigList *c, char *&cwd)SimParameters [inline]
simulatedNodeSizeSimParameters
simulatedPEsSimParameters
simulateInitialMappingSimParameters
SMDDirSimParameters
SMDFileSimParameters
SMDkSimParameters
SMDk2SimParameters
SMDOnSimParameters
SMDOutputFreqSimParameters
SMDVelSimParameters
soluteScalingAllSimParameters
soluteScalingFactorSimParameters
soluteScalingFactorChargeSimParameters
soluteScalingFactorVdwSimParameters
soluteScalingOnSimParameters
solvent_dielectricSimParameters
sphericalBCexp1SimParameters
sphericalBCexp2SimParameters
sphericalBCk1SimParameters
sphericalBCk2SimParameters
sphericalBCOnSimParameters
sphericalBCr1SimParameters
sphericalBCr2SimParameters
sphericalCenterSimParameters
sphericalConstraintsOnSimParameters
sphericalConstrCenterSimParameters
splitPatchSimParameters
staticAtomAssignmentSimParameters
statsOnSimParameters
stepsPerCycleSimParameters
stirAxisSimParameters
stirFilenameSimParameters
stirKSimParameters
stirOnSimParameters
stirPivotSimParameters
stirStartingThetaSimParameters
stirVelSimParameters
stochRescaleFreqSimParameters
stochRescaleHeatSimParameters
stochRescaleOnSimParameters
stochRescalePeriodSimParameters
stochRescaleTempSimParameters
storeComputeMapSimParameters
strainRateSimParameters
strainRate2SimParameters
surface_tensionSimParameters
surfaceTensionTargetSimParameters
switchingActiveSimParameters
switchingDistSimParameters
symmetryFileSimParameters
symmetryFirstFullStepSimParameters
symmetryFirstStepSimParameters
symmetrykSimParameters
symmetrykfileSimParameters
symmetryLastFullStepSimParameters
symmetryLastStepSimParameters
symmetryMatrixFileSimParameters
symmetryOnSimParameters
symmetryScaleForcesSimParameters
tableInterpTypeSimParameters
tableMaxDistSimParameters
tableNumTypesSimParameters
tableSpacingSimParameters
tabulatedEnergiesSimParameters
tabulatedEnergiesFileSimParameters
tclBCArgsSimParameters
tclBCOnSimParameters
tclBCScriptSimParameters
tclForcesOnSimParameters
tclIsThreadedSimParameters
tCoupleOnSimParameters
tCoupleTempSimParameters
testOnSimParameters
TMDDiffRMSDSimParameters
TMDFileSimParameters
TMDFile2SimParameters
TMDFinalRMSDSimParameters
TMDFirstStepSimParameters
TMDInitialRMSDSimParameters
TMDkSimParameters
TMDLastStepSimParameters
TMDOnSimParameters
TMDOutputFreqSimParameters
totalAtomsSimParameters
traceStartStepSimParameters
twoAwayXSimParameters
twoAwayYSimParameters
twoAwayZSimParameters
useAntecedentSimParameters
useCkLoopSimParameters
useCompressedPsfSimParameters
useConstantAreaSimParameters
useConstantRatioSimParameters
useCUDA2SimParameters
useCUDAdisableSimParameters
useDPMESimParameters
useFlexibleCellSimParameters
useGroupPressureSimParameters
usePairlistsSimParameters
usePluginIOSimParameters
usePMECUDASimParameters
useSettleSimParameters
vdwForceSwitchingSimParameters
vdwGeometricSigmaSimParameters
vdwscale14SimParameters
velDcdFilenameSimParameters
velDcdFrequencySimParameters
verboseTopologySimParameters
watmodelSimParameters
wrapAllSimParameters
wrapNearestSimParameters
wrapWaterSimParameters
xstFilenameSimParameters
xstFrequencySimParameters
zeroMomentumSimParameters
zeroMomentumAltSimParameters
~SimParameters()SimParameters [inline]

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