PYGAMD
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General introduction
Introduction
Installation
Usage
Units
Modules (NUMBA)
System info
Application
Force field
Integration
Modules
Modules (CUDA)
Data
System
Application
Force field
Integration
Constraint
External field
Modules
Plug-Ins
molgen
dataTackle
Announcement
License
PYGAMD
Index
Edit on GitHub
Index
A
|
B
|
C
|
D
|
E
|
F
|
G
|
I
|
L
|
M
|
N
|
O
|
P
|
R
|
S
|
T
|
V
|
X
|
Z
A
AllInfo (built-in class)
AllInfo.addAngleType()
built-in function
AllInfo.addAngleTypeByPairs()
built-in function
AllInfo.addBondType()
built-in function
AllInfo.addBondTypeByPairs()
built-in function
AllInfo.addParticleType()
built-in function
AllInfo.setNDimensions()
built-in function
AndersenNVT (built-in class)
AndersenNVT.setT()
built-in function
,
[1]
AngleForceCos (built-in class)
AngleForceCos.setParams()
built-in function
AngleForceHarmonic (built-in class)
,
[1]
AngleForceHarmonic.setParams()
built-in function
AngleForceHarmonicCos (built-in class)
,
[1]
AngleForceHarmonicCos.setParams()
built-in function
AngleForceLnExp (built-in class)
AngleForceLnExp.setParams()
built-in function
AngleForceTable (built-in class)
AngleForceTable.setParams()
built-in function
AngleForceTable.setPotential()
built-in function
,
[1]
AniForce (built-in class)
AniForce.setParams()
built-in function
AniForce.setPatches()
built-in function
Application (built-in class)
Application.add()
built-in function
Application.clear()
built-in function
application.dynamics (built-in class)
application.dynamics.add()
built-in function
application.dynamics.remove()
built-in function
application.dynamics.run()
built-in function
Application.remove()
built-in function
Application.run()
built-in function
Application.setDt()
built-in function
AxialStretching (built-in class)
AxialStretching.setBoxLength()
built-in function
B
BerendsenAniNVT (built-in class)
BerendsenAniNVT.setT()
built-in function
,
[1]
BerendsenAniNVT.setTau()
built-in function
BerendsenNVT (built-in class)
BerendsenNVT.setT()
built-in function
,
[1]
BinaryDump (built-in class)
BinaryDump.enableCompression()
built-in function
BinaryDump.setOutput()
built-in function
BinaryDump.setOutputAll()
built-in function
BinaryDump.setOutputForRestart()
built-in function
BinaryReader (built-in class)
BondConstraint (built-in class)
,
[1]
BondConstraint.setExpansionOrder()
built-in function
,
[1]
BondConstraint.setNumIters()
built-in function
,
[1]
BondConstraint.setParams()
built-in function
BondForceAni (built-in class)
BondForceAni.setParams()
built-in function
BondForceFENE (built-in class)
BondForceFENE.setConsiderDiameter()
built-in function
BondForceFENE.setParams()
built-in function
,
[1]
,
[2]
BondForceHarmonic (built-in class)
,
[1]
BondForceHarmonic.setParams()
built-in function
BondForceMorse (built-in class)
BondForceMorse.setParams()
built-in function
BondForcePolynomial (built-in class)
BondForcePolynomial.setParams()
built-in function
BondForceTable (built-in class)
BondForceTable.setParams()
built-in function
BondForceTable.setPotential()
built-in function
,
[1]
BounceBackConstrain (built-in class)
BounceBackConstrain.addCylinder()
built-in function
BounceBackConstrain.addSphere()
built-in function
BounceBackConstrain.addWall()
built-in function
BounceBackConstrain.clcearWall()
built-in function
BounceBackConstrain.clearCylinder()
built-in function
BounceBackConstrain.clearSphere()
built-in function
built-in function
AllInfo.addAngleType()
AllInfo.addAngleTypeByPairs()
AllInfo.addBondType()
AllInfo.addBondTypeByPairs()
AllInfo.addParticleType()
AllInfo.setNDimensions()
AndersenNVT.setT()
,
[1]
AngleForceCos.setParams()
AngleForceHarmonic.setParams()
AngleForceHarmonicCos.setParams()
AngleForceLnExp.setParams()
AngleForceTable.setParams()
AngleForceTable.setPotential()
,
[1]
AniForce.setParams()
AniForce.setPatches()
Application.add()
Application.clear()
application.dynamics.add()
application.dynamics.remove()
application.dynamics.run()
Application.remove()
Application.run()
Application.setDt()
AxialStretching.setBoxLength()
BerendsenAniNVT.setT()
,
[1]
BerendsenAniNVT.setTau()
BerendsenNVT.setT()
,
[1]
BinaryDump.enableCompression()
BinaryDump.setOutput()
BinaryDump.setOutputAll()
BinaryDump.setOutputForRestart()
BondConstraint.setExpansionOrder()
,
[1]
BondConstraint.setNumIters()
,
[1]
BondConstraint.setParams()
BondForceAni.setParams()
BondForceFENE.setConsiderDiameter()
BondForceFENE.setParams()
,
[1]
,
[2]
BondForceHarmonic.setParams()
BondForceMorse.setParams()
BondForcePolynomial.setParams()
BondForceTable.setParams()
BondForceTable.setPotential()
,
[1]
BounceBackConstrain.addCylinder()
BounceBackConstrain.addSphere()
BounceBackConstrain.addWall()
BounceBackConstrain.clcearWall()
BounceBackConstrain.clearCylinder()
BounceBackConstrain.clearSphere()
CCPMD.setParams()
CCPMD.setWall()
CellList.setDataReproducibility()
CellList.setNominalDim()
CellList.setNominalWidth()
CenterForce.setPreNextShift()
ChangeType.setInterface()
ChangeType.setNPTargetType()
ChangeType.setPr()
ChangeType.setSite()
ChangeType.setWall()
ComputeInfo.setNdof()
DCDDump.unpbc()
DCDDump.unwrap()
DePolymerization.setChangeTypeInReaction()
DePolymerization.setCountUnbonds()
DePolymerization.setCrisQualify()
DePolymerization.setDegradeAngle()
DePolymerization.setDegradeDihedral()
DePolymerization.setParams()
DePolymerization.setT()
,
[1]
DihedralForceAmberCosine.setParams()
DihedralForceHarmonic.setCosFactor()
DihedralForceHarmonic.setParams()
,
[1]
,
[2]
DihedralForceOPLSCosine.setParams()
,
[1]
DihedralForceRyckaertBellemans.setParams()
DihedralForceTable.setParams()
DihedralForceTable.setPotential()
,
[1]
DPDEwaldForce.setBeta()
DPDEwaldForce.setParams()
,
[1]
DPDForce.setDPDVV()
DPDForce.setParams()
DPDForce.setT()
,
[1]
DPDGWVV.setLambda()
DumpInfo.dumpAnisotropy()
DumpInfo.dumpBoxSize()
DumpInfo.dumpParticleForce()
DumpInfo.dumpParticlePosition()
DumpInfo.dumpPotential()
DumpInfo.dumpPressTensor()
DumpInfo.dumpTypeTemp()
DumpInfo.dumpVirial()
DumpInfo.dumpVirialMatrix()
DumpInfo.setPeriod()
ENUFForce.setParams()
EwaldForce.setParams()
,
[1]
ExternalForce.setForce()
,
[1]
ExternalForce.setParams()
,
[1]
force.angle.setParams()
force.bond.setParams()
force.dihedral.setCosFactor()
force.dihedral.setParams()
force.dpd.setParams()
force.nonbonded.setParams()
force.nonbonded_c.setParams()
GBForce.setParams()
GEMForce.setParams()
,
[1]
Generators.addMolecule()
Generators.outPutMol2()
Generators.outPutMST()
Generators.outPutXML()
Generators.setDimension()
Generators.setMinimumDistance()
,
[1]
Generators.setParam()
integration.bd.setParams()
integration.nvt.setT()
,
[1]
LangevinNVT.setGamma()
,
[1]
LangevinNVT.setT()
,
[1]
LangevinNVTRigid.setGamma()
,
[1]
LangevinNVTRigid.setT()
,
[1]
LJConstrainForce.addCylinder()
LJConstrainForce.addSphere()
LJConstrainForce.addWall()
LJConstrainForce.clcearWall()
LJConstrainForce.clearCylinder()
LJConstrainForce.clearSphere()
LJConstrainForce.setParams()
LJEwaldForce.setDispVirialCorr()
,
[1]
LJEwaldForce.setEnergy_shift()
,
[1]
LJEwaldForce.setParams()
,
[1]
LJForce.setDispVirialCorr()
LJForce.setEnergy_shift()
LJForce.setParams()
,
[1]
LZWForce.setMethod()
LZWForce.setParams()
MDSCFForce.setNewVersion()
MDSCFForce.setParams()
MDSCFForce.setPeriodScf()
MOL2Dump.deleteBoundaryBond()
MOL2Dump.setChangeFreeType()
Molecule.setAngleDegree()
,
[1]
Molecule.setBody()
,
[1]
,
[2]
Molecule.setBodyEvacuation()
Molecule.setBondLength()
,
[1]
Molecule.setBox()
,
[1]
Molecule.setCharge()
,
[1]
,
[2]
Molecule.setCris()
,
[1]
,
[2]
Molecule.setCylinder()
Molecule.setDiameter()
,
[1]
,
[2]
Molecule.setDihedralDegree()
,
[1]
Molecule.setInert()
,
[1]
,
[2]
Molecule.setInit()
,
[1]
,
[2]
Molecule.setIsotactic()
Molecule.setMass()
,
[1]
,
[2]
Molecule.setMolecule()
,
[1]
,
[2]
Molecule.setOrientation()
,
[1]
,
[2]
Molecule.setParticleTypes()
Molecule.setQuaternion()
,
[1]
,
[2]
Molecule.setSphere()
Molecule.setTopology()
NeighborList.addExclusionsFromAngles()
NeighborList.addExclusionsFromBodies()
NeighborList.addExclusionsFromBonds()
NeighborList.addExclusionsFromDihedrals()
NeighborList.setDataReproducibility()
NeighborList.setFilterDiameters()
NeighborList.setNsq()
NeighborList.setRCut()
NeighborList.setRCutPair()
NoseHooverNVT.setT()
,
[1]
NPT.setP()
NPT.setT()
,
[1]
NPTMTK.setAnisotropic()
NPTMTK.setSemiisotropic()
,
[1]
NPTMTK.setT()
,
[1]
NPTMTKRigid.setAnisotropic()
NPTMTKRigid.setSemiisotropic()
,
[1]
NPTMTKRigid.setT()
,
[1]
NPTRigid.setP()
NPTRigid.setT()
,
[1]
NVE.setZeroForce()
NVTRigid.setT()
,
[1]
Object.setRadius()
PairForce.setParams()
PairForce.setShiftParams()
PairForceTable.setParams()
PairForceTable.setPotential()
,
[1]
ParticleSet.getNumMembers()
PBGBForce.setAspheres()
PBGBForce.setGUM()
PBGBForce.setParams()
PBGBForce.setPatches()
PFMEForce.setNewVersion()
PFMEForce.setPeriodPFME()
Polymerization.generateAngle()
Polymerization.generateDihedral()
Polymerization.initExPoint()
Polymerization.setChangeTypeInReaction()
Polymerization.setEnergyBar()
Polymerization.setExchangePr()
Polymerization.setExchMode()
Polymerization.setFrpMode()
Polymerization.setFuncReactRule()
Polymerization.setInitDieProb()
Polymerization.setInitInitReaction()
Polymerization.setInsertionMode()
Polymerization.setInsertionPr()
Polymerization.setMaxCris()
Polymerization.setMinDisReactRule()
Polymerization.setNewAngleType()
Polymerization.setNewAngleTypeByPairs()
Polymerization.setNewBondType()
Polymerization.setNewBondTypeByPairs()
Polymerization.setNewDihedralType()
Polymerization.setPr()
,
[1]
Polymerization.setPrFactor()
,
[1]
Polymerization.setSgapMode()
PPPMForce.setParams()
,
[1]
RNEMD.setPeriod()
RNEMD.setProfVelPeriod()
RNEMD.setSwapGroup()
RNEMD.setSwapPeriod()
RNEMD.setVelProfile()
setHead()
setPrecision()
SLJForce.setEnergy_shift()
SLJForce.setParams()
,
[1]
TranRigid.setRotDimension()
TranRigid.setTraDimension()
VariantLinear.setPoint()
VariantSin.setPoint()
VariantWell.setPoint()
Vsite.setParams()
XMLDump.setOutput()
XMLDump.setOutputAngle()
XMLDump.setOutputBody()
XMLDump.setOutputBond()
XMLDump.setOutputCharge()
XMLDump.setOutputConstraint()
XMLDump.setOutputCris()
XMLDump.setOutputDiameter()
XMLDump.setOutputDihedral()
XMLDump.setOutputEllipsoid()
,
[1]
,
[2]
XMLDump.setOutputForce()
XMLDump.setOutputImage()
XMLDump.setOutputInert()
XMLDump.setOutputInit()
XMLDump.setOutputLocalForce()
XMLDump.setOutputLocalVirial()
XMLDump.setOutputLocalVirialMatrix()
XMLDump.setOutputMass()
XMLDump.setOutputOrientation()
XMLDump.setOutputPatch()
XMLDump.setOutputPosition()
XMLDump.setOutputPotential()
XMLDump.setOutputQuaternion()
XMLDump.setOutputRotangle()
XMLDump.setOutputRotation()
XMLDump.setOutputTorque()
XMLDump.setOutputType()
XMLDump.setOutputVelocity()
XMLDump.setOutputVirial()
XMLDump.setOutputVsite()
C
CCPMD (built-in class)
CCPMD.setParams()
built-in function
CCPMD.setWall()
built-in function
CellList (built-in class)
CellList.setDataReproducibility()
built-in function
CellList.setNominalDim()
built-in function
CellList.setNominalWidth()
built-in function
CenterForce (built-in class)
CenterForce.setPreNextShift()
built-in function
ChangeType (built-in class)
ChangeType.setInterface()
built-in function
ChangeType.setNPTargetType()
built-in function
ChangeType.setPr()
built-in function
ChangeType.setSite()
built-in function
ChangeType.setWall()
built-in function
chare.particle_set (built-in class)
ComputeInfo (built-in class)
ComputeInfo.setNdof()
built-in function
D
DCDDump (built-in class)
,
[1]
DCDDump.unpbc()
built-in function
DCDDump.unwrap()
built-in function
DePolymerization (built-in class)
DePolymerization.setChangeTypeInReaction()
built-in function
DePolymerization.setCountUnbonds()
built-in function
DePolymerization.setCrisQualify()
built-in function
DePolymerization.setDegradeAngle()
built-in function
DePolymerization.setDegradeDihedral()
built-in function
DePolymerization.setParams()
built-in function
DePolymerization.setT()
built-in function
,
[1]
DihedralForceAmberCosine (built-in class)
,
[1]
DihedralForceAmberCosine.setParams()
built-in function
DihedralForceHarmonic (built-in class)
,
[1]
,
[2]
DihedralForceHarmonic.setCosFactor()
built-in function
DihedralForceHarmonic.setParams()
built-in function
,
[1]
,
[2]
DihedralForceOPLSCosine (built-in class)
DihedralForceOPLSCosine.setParams()
built-in function
,
[1]
DihedralForceRyckaertBellemans (built-in class)
DihedralForceRyckaertBellemans.setParams()
built-in function
DihedralForceTable (built-in class)
DihedralForceTable.setParams()
built-in function
DihedralForceTable.setPotential()
built-in function
,
[1]
DPDEwaldForce (built-in class)
DPDEwaldForce.setBeta()
built-in function
DPDEwaldForce.setParams()
built-in function
,
[1]
DPDForce (built-in class)
,
[1]
DPDForce.setDPDVV()
built-in function
DPDForce.setParams()
built-in function
DPDForce.setT()
built-in function
,
[1]
DPDGWVV (built-in class)
DPDGWVV.setLambda()
built-in function
dump.data (built-in class)
dump.mst (built-in class)
dump.xml (built-in class)
DumpInfo (built-in class)
DumpInfo.dumpAnisotropy()
built-in function
DumpInfo.dumpBoxSize()
built-in function
DumpInfo.dumpParticleForce()
built-in function
DumpInfo.dumpParticlePosition()
built-in function
DumpInfo.dumpPotential()
built-in function
DumpInfo.dumpPressTensor()
built-in function
DumpInfo.dumpTypeTemp()
built-in function
DumpInfo.dumpVirial()
built-in function
DumpInfo.dumpVirialMatrix()
built-in function
DumpInfo.setPeriod()
built-in function
DynamicParticleSet (built-in class)
,
[1]
E
ENUFForce (built-in class)
ENUFForce.setParams()
built-in function
EwaldForce (built-in class)
EwaldForce.setParams()
built-in function
,
[1]
ExternalForce (built-in class)
ExternalForce.setForce()
built-in function
,
[1]
ExternalForce.setParams()
built-in function
,
[1]
F
force.angle (built-in class)
force.angle.setParams()
built-in function
force.bond (built-in class)
force.bond.setParams()
built-in function
force.dihedral (built-in class)
force.dihedral.setCosFactor()
built-in function
force.dihedral.setParams()
built-in function
force.dpd (built-in class)
force.dpd.setParams()
built-in function
force.nonbonded (built-in class)
force.nonbonded.setParams()
built-in function
force.nonbonded_c (built-in class)
force.nonbonded_c.setParams()
built-in function
G
GBForce (built-in class)
GBForce.setParams()
built-in function
GEMForce (built-in class)
GEMForce.setParams()
built-in function
,
[1]
Generators (built-in class)
Generators.addMolecule()
built-in function
Generators.outPutMol2()
built-in function
Generators.outPutMST()
built-in function
Generators.outPutXML()
built-in function
Generators.setDimension()
built-in function
Generators.setMinimumDistance()
built-in function
,
[1]
Generators.setParam()
built-in function
I
integration.bd (built-in class)
integration.bd.setParams()
built-in function
integration.gwvv (built-in class)
,
[1]
integration.nvt (built-in class)
integration.nvt.setT()
built-in function
,
[1]
L
LangevinNVT (built-in class)
LangevinNVT.setGamma()
built-in function
,
[1]
LangevinNVT.setT()
built-in function
,
[1]
LangevinNVTRigid (built-in class)
LangevinNVTRigid.setGamma()
built-in function
,
[1]
LangevinNVTRigid.setT()
built-in function
,
[1]
LJConstrainForce (built-in class)
LJConstrainForce.addCylinder()
built-in function
LJConstrainForce.addSphere()
built-in function
LJConstrainForce.addWall()
built-in function
LJConstrainForce.clcearWall()
built-in function
LJConstrainForce.clearCylinder()
built-in function
LJConstrainForce.clearSphere()
built-in function
LJConstrainForce.setParams()
built-in function
LJCoulombShiftForce (built-in class)
LJEwaldForce (built-in class)
,
[1]
LJEwaldForce.setDispVirialCorr()
built-in function
,
[1]
LJEwaldForce.setEnergy_shift()
built-in function
,
[1]
LJEwaldForce.setParams()
built-in function
,
[1]
LJForce (built-in class)
LJForce.setDispVirialCorr()
built-in function
LJForce.setEnergy_shift()
built-in function
LJForce.setParams()
built-in function
,
[1]
LZWForce (built-in class)
LZWForce.setMethod()
built-in function
LZWForce.setParams()
built-in function
M
MDSCFForce (built-in class)
MDSCFForce.setNewVersion()
built-in function
MDSCFForce.setParams()
built-in function
MDSCFForce.setPeriodScf()
built-in function
MOL2Dump (built-in class)
MOL2Dump.deleteBoundaryBond()
built-in function
MOL2Dump.setChangeFreeType()
built-in function
Molecule (built-in class)
,
[1]
Molecule.setAngleDegree()
built-in function
,
[1]
Molecule.setBody()
built-in function
,
[1]
,
[2]
Molecule.setBodyEvacuation()
built-in function
Molecule.setBondLength()
built-in function
,
[1]
Molecule.setBox()
built-in function
,
[1]
Molecule.setCharge()
built-in function
,
[1]
,
[2]
Molecule.setCris()
built-in function
,
[1]
,
[2]
Molecule.setCylinder()
built-in function
Molecule.setDiameter()
built-in function
,
[1]
,
[2]
Molecule.setDihedralDegree()
built-in function
,
[1]
Molecule.setInert()
built-in function
,
[1]
,
[2]
Molecule.setInit()
built-in function
,
[1]
,
[2]
Molecule.setIsotactic()
built-in function
Molecule.setMass()
built-in function
,
[1]
,
[2]
Molecule.setMolecule()
built-in function
,
[1]
,
[2]
Molecule.setOrientation()
built-in function
,
[1]
,
[2]
Molecule.setParticleTypes()
built-in function
Molecule.setQuaternion()
built-in function
,
[1]
,
[2]
Molecule.setSphere()
built-in function
Molecule.setTopology()
built-in function
N
NeighborList (built-in class)
NeighborList.addExclusionsFromAngles()
built-in function
NeighborList.addExclusionsFromBodies()
built-in function
NeighborList.addExclusionsFromBonds()
built-in function
NeighborList.addExclusionsFromDihedrals()
built-in function
NeighborList.setDataReproducibility()
built-in function
NeighborList.setFilterDiameters()
built-in function
NeighborList.setNsq()
built-in function
NeighborList.setRCut()
built-in function
NeighborList.setRCutPair()
built-in function
NoseHooverNVT (built-in class)
NoseHooverNVT.setT()
built-in function
,
[1]
NPT (built-in class)
NPT.setP()
built-in function
NPT.setT()
built-in function
,
[1]
NPTMTK (built-in class)
NPTMTK.setAnisotropic()
built-in function
NPTMTK.setSemiisotropic()
built-in function
,
[1]
NPTMTK.setT()
built-in function
,
[1]
NPTMTKRigid (built-in class)
NPTMTKRigid.setAnisotropic()
built-in function
NPTMTKRigid.setSemiisotropic()
built-in function
,
[1]
NPTMTKRigid.setT()
built-in function
,
[1]
NPTRigid (built-in class)
NPTRigid.setP()
built-in function
NPTRigid.setT()
built-in function
,
[1]
NVE (built-in class)
NVE.setZeroForce()
built-in function
NVERigid (built-in class)
NVTRigid (built-in class)
NVTRigid.setT()
built-in function
,
[1]
O
Object (built-in class)
,
[1]
Object.setRadius()
built-in function
P
PairForce (built-in class)
PairForce.setParams()
built-in function
PairForce.setShiftParams()
built-in function
PairForceTable (built-in class)
PairForceTable.setParams()
built-in function
PairForceTable.setPotential()
built-in function
,
[1]
ParticleSet (built-in class)
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[1]
,
[2]
,
[3]
ParticleSet.getNumMembers()
built-in function
PBGBForce (built-in class)
PBGBForce.setAspheres()
built-in function
PBGBForce.setGUM()
built-in function
PBGBForce.setParams()
built-in function
PBGBForce.setPatches()
built-in function
PerformConfig (built-in class)
PFMEForce (built-in class)
PFMEForce.setNewVersion()
built-in function
PFMEForce.setPeriodPFME()
built-in function
Polymerization (built-in class)
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[1]
Polymerization.generateAngle()
built-in function
Polymerization.generateDihedral()
built-in function
Polymerization.initExPoint()
built-in function
Polymerization.setChangeTypeInReaction()
built-in function
Polymerization.setEnergyBar()
built-in function
Polymerization.setExchangePr()
built-in function
Polymerization.setExchMode()
built-in function
Polymerization.setFrpMode()
built-in function
Polymerization.setFuncReactRule()
built-in function
Polymerization.setInitDieProb()
built-in function
Polymerization.setInitInitReaction()
built-in function
Polymerization.setInsertionMode()
built-in function
Polymerization.setInsertionPr()
built-in function
Polymerization.setMaxCris()
built-in function
Polymerization.setMinDisReactRule()
built-in function
Polymerization.setNewAngleType()
built-in function
Polymerization.setNewAngleTypeByPairs()
built-in function
Polymerization.setNewBondType()
built-in function
Polymerization.setNewBondTypeByPairs()
built-in function
Polymerization.setNewDihedralType()
built-in function
Polymerization.setPr()
built-in function
,
[1]
Polymerization.setPrFactor()
built-in function
,
[1]
Polymerization.setSgapMode()
built-in function
PPPMForce (built-in class)
PPPMForce.setParams()
built-in function
,
[1]
R
Reader (built-in class)
RNEMD (built-in class)
RNEMD.setPeriod()
built-in function
RNEMD.setProfVelPeriod()
built-in function
RNEMD.setSwapGroup()
built-in function
RNEMD.setSwapPeriod()
built-in function
RNEMD.setVelProfile()
built-in function
S
setHead()
built-in function
setPrecision()
built-in function
SLJForce (built-in class)
SLJForce.setEnergy_shift()
built-in function
SLJForce.setParams()
built-in function
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[1]
snapshot (built-in class)
snapshot.read (built-in class)
Sort (built-in class)
T
TranRigid (built-in class)
TranRigid.setRotDimension()
built-in function
TranRigid.setTraDimension()
built-in function
V
VariantConst (built-in class)
VariantLinear (built-in class)
VariantLinear.setPoint()
built-in function
VariantSin (built-in class)
VariantSin.setPoint()
built-in function
VariantWell (built-in class)
VariantWell.setPoint()
built-in function
Vsite (built-in class)
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[1]
Vsite.setParams()
built-in function
X
XMLDump (built-in class)
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[1]
XMLDump.setOutput()
built-in function
XMLDump.setOutputAngle()
built-in function
XMLDump.setOutputBody()
built-in function
XMLDump.setOutputBond()
built-in function
XMLDump.setOutputCharge()
built-in function
XMLDump.setOutputConstraint()
built-in function
XMLDump.setOutputCris()
built-in function
XMLDump.setOutputDiameter()
built-in function
XMLDump.setOutputDihedral()
built-in function
XMLDump.setOutputEllipsoid()
built-in function
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[1]
,
[2]
XMLDump.setOutputForce()
built-in function
XMLDump.setOutputImage()
built-in function
XMLDump.setOutputInert()
built-in function
XMLDump.setOutputInit()
built-in function
XMLDump.setOutputLocalForce()
built-in function
XMLDump.setOutputLocalVirial()
built-in function
XMLDump.setOutputLocalVirialMatrix()
built-in function
XMLDump.setOutputMass()
built-in function
XMLDump.setOutputOrientation()
built-in function
XMLDump.setOutputPatch()
built-in function
XMLDump.setOutputPosition()
built-in function
XMLDump.setOutputPotential()
built-in function
XMLDump.setOutputQuaternion()
built-in function
XMLDump.setOutputRotangle()
built-in function
XMLDump.setOutputRotation()
built-in function
XMLDump.setOutputTorque()
built-in function
XMLDump.setOutputType()
built-in function
XMLDump.setOutputVelocity()
built-in function
XMLDump.setOutputVirial()
built-in function
XMLDump.setOutputVsite()
built-in function
XMLReader (built-in class)
Z
ZeroMomentum (built-in class)
,
[1]
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