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- builtins.object
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- CDSList_CSAPot_Restraint
- CDSList_FloatPair
- CSAPot
- EnsemblePot
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- CSAPot_LetterClass
- Modified
- ModifiedBase
- Restraint_CSAPot
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- CSAPot_Restraint
- VarEnsWeights
- rc_EnsemblePot
- rc_ptr_CSAPot_Restraint
class CDSList_CSAPot_Restraint(builtins.object) |
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CDSList_CSAPot_Restraint(*args)
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Methods defined here:
- __delitem__(self, *args, **kwargs) -> 'void'
- __getitem__(self, *args) -> 'CDSList< CDS::rc_ptr< CSAPot_Restraint > >'
- __getslice__(self, *args, **kwargs) -> 'CDSList< CDS::rc_ptr< CSAPot_Restraint > >'
- __init__(self, *args)
- Initialize self. See help(type(self)) for accurate signature.
- __len__(self, *args, **kwargs) -> 'int'
- __repr__ = _swig_repr(self)
- __setitem__(self, *args, **kwargs) -> 'void'
- append(self, *args, **kwargs) -> 'void'
- help(self, *args, **kwargs) -> 'String'
- remove(self, *args, **kwargs) -> 'void'
- removeAll(self, *args, **kwargs) -> 'void'
Static methods defined here:
- __swig_destroy__ = delete_CDSList_CSAPot_Restraint(...)
Data descriptors defined here:
- __dict__
dictionary for instance variables (if defined)
- __weakref__
list of weak references to the object (if defined)
- thisown
The membership flag
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class CDSList_FloatPair(builtins.object) |
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CDSList_FloatPair(*args)
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Methods defined here:
- __delitem__(self, *args, **kwargs) -> 'void'
- __getitem__(self, *args) -> 'CDSList< Pair< double,double > >'
- __getslice__(self, *args, **kwargs) -> 'CDSList< Pair< double,double > >'
- __init__(self, *args)
- Initialize self. See help(type(self)) for accurate signature.
- __len__(self, *args, **kwargs) -> 'int'
- __repr__ = _swig_repr(self)
- __setitem__(self, *args, **kwargs) -> 'void'
- append(self, *args, **kwargs) -> 'void'
- help(self, *args, **kwargs) -> 'String'
- remove(self, *args, **kwargs) -> 'void'
- removeAll(self, *args, **kwargs) -> 'void'
Static methods defined here:
- __swig_destroy__ = delete_CDSList_FloatPair(...)
Data descriptors defined here:
- __dict__
dictionary for instance variables (if defined)
- __weakref__
list of weak references to the object (if defined)
- thisown
The membership flag
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class CSAPot_LetterClass(EnsemblePot) |
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CSAPot_LetterClass(*args, **kwargs)
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- Method resolution order:
- CSAPot_LetterClass
- EnsemblePot
- builtins.object
Methods defined here:
- DaScale(self, *args, **kwargs) -> 'float_type const'
- __init__(self, *args, **kwargs)
- Initialize self. See help(type(self)) for accurate signature.
- __repr__ = _swig_repr(self)
- addRestraints(self, *args, **kwargs) -> 'void'
- atomOrder(self, *args, **kwargs) -> 'CSAPot::CSAAtomOrder'
- beta(self, *args, **kwargs) -> 'float_type'
- deviation(self, *args, **kwargs) -> 'double'
- energyMaybeDerivs0(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivs1(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivsPost(self, *args, **kwargs) -> 'float_type'
- gamma(self, *args, **kwargs) -> 'float_type'
- info(self, *args, **kwargs) -> 'String'
- numRestraints(self, *args, **kwargs) -> 'int'
- potType(self, *args, **kwargs) -> 'CSAPot::CSAPotType'
- pyXplorHelp(self, *args, **kwargs) -> 'String'
- rawRestraints(self, *args, **kwargs) -> 'CDSList< CDS::rc_ptr< CSAPot_Restraint > >'
- removeRestraint(self, *args, **kwargs) -> 'void'
- restraints(self, *args, **kwargs) -> 'CDSList< CDS::rc_ptr< CSAPot_Restraint > >'
- rms(self, *args, **kwargs) -> 'double'
- setAtomOrder(self, *args, **kwargs) -> 'void'
- setBeta(self, *args, **kwargs) -> 'void'
- setDaScale(self, *args, **kwargs) -> 'void'
- setGamma(self, *args, **kwargs) -> 'void'
- setPotType(self, *args, **kwargs) -> 'void'
- setShowAllRestraints(self, *args, **kwargs) -> 'void'
- setSigma(self, *args, **kwargs) -> 'void'
- setTensorClass(self, *args, **kwargs) -> 'void'
- setVerbose(self, *args, **kwargs) -> 'void'
- showAllRestraints(self, *args, **kwargs) -> 'bool const'
- showRestraints(self, *args, **kwargs) -> 'String'
- showViolations(self, *args, **kwargs) -> 'String'
- sigma(self, *args, **kwargs) -> 'Vec3 const'
- simulation(self, *args, **kwargs) -> 'EnsembleSimulationBase const *'
- tensorClass(self, *args, **kwargs) -> 'CSAPot::CSATensorClass'
- verbose(self, *args, **kwargs) -> 'bool const'
- violations(self, *args, **kwargs) -> 'float_type'
Static methods defined here:
- __swig_destroy__ = delete_CSAPot_LetterClass(...)
Data descriptors defined here:
- oTensor
- thisown
The membership flag
Data and other attributes defined here:
- BISECT = 1
- BOND = 0
- HARMONIC = 0
- LINEAR = 2
- LINEARSQUARE = 3
- ORDER_123 = 0
- ORDER_132 = 1
- ORDER_231 = 2
- SQUARE = 1
Methods inherited from EnsemblePot:
- addEnsWeights(self, *args, **kwargs) -> 'void'
- calcEnergy(self, *args, **kwargs) -> 'float_type'
- calcEnergyAndDerivs(self, *args, **kwargs) -> 'float_type'
- calcWDerivs(self, *args, **kwargs) -> 'bool const'
- clearEnsWeights(self, *args, **kwargs) -> 'void'
- energyMaybeDerivs2(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivs3(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivs4(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivsPre(self, *args, **kwargs) -> 'float_type'
- ensWeight(self, *args, **kwargs) -> 'float_type'
- ensWeights(self, *args, **kwargs) -> 'CDSList< float_type >'
- ensWeightsInfo(self, *args, **kwargs) -> 'String'
- getEnsWeights(self, *args, **kwargs) -> 'CDSList< VarEnsWeights > &'
- setCalcWDerivs(self, *args, **kwargs) -> 'void'
- setEnsWeights(self, *args, **kwargs) -> 'void'
- setUseSimEnsWeights(self, *args, **kwargs) -> 'void'
- updateEnsWeights(self, *args, **kwargs) -> 'void'
- useSimEnsWeights(self, *args, **kwargs) -> 'bool const'
Data descriptors inherited from EnsemblePot:
- __dict__
dictionary for instance variables (if defined)
- __weakref__
list of weak references to the object (if defined)
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class CSAPot_Restraint(Restraint_CSAPot) |
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CSAPot_Restraint(*args, **kwargs)
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- Method resolution order:
- CSAPot_Restraint
- Restraint_CSAPot
- builtins.object
Methods defined here:
- Selection1(self, *args, **kwargs) -> 'AtomSel'
- Selection2(self, *args, **kwargs) -> 'AtomSel'
- Selection3(self, *args, **kwargs) -> 'AtomSel'
- __init__(self, *args, **kwargs)
- Initialize self. See help(type(self)) for accurate signature.
- __repr__ = _swig_repr(self)
- calcd(self, *args, **kwargs) -> 'double'
- calcd_contrib(self, *args, **kwargs) -> 'CDSList< double >'
- deriv(self, *args, **kwargs) -> 'void'
- deviation(self, *args, **kwargs) -> 'double'
- eigenMatrix(self, *args, **kwargs) -> 'Mat3'
- minusErr(self, *args, **kwargs) -> 'double'
- name(self, *args, **kwargs) -> 'String'
- obs(self, *args, **kwargs) -> 'double'
- ok(self, *args, **kwargs) -> 'int'
- plusErr(self, *args, **kwargs) -> 'double'
- setObs(self, *args, **kwargs) -> 'void'
- tensor(self, *args, **kwargs) -> 'Mat3'
Static methods defined here:
- __swig_destroy__ = delete_CSAPot_Restraint(...)
Data descriptors defined here:
- thisown
The membership flag
- verbose
Methods inherited from Restraint_CSAPot:
- diff(self, *args, **kwargs) -> 'float_type'
- setName(self, *args, **kwargs) -> 'void'
- violated(self, *args, **kwargs) -> 'bool'
Data descriptors inherited from Restraint_CSAPot:
- __dict__
dictionary for instance variables (if defined)
- __weakref__
list of weak references to the object (if defined)
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class EnsemblePot(builtins.object) |
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EnsemblePot(*args, **kwargs)
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Methods defined here:
- __init__(self, *args, **kwargs)
- Initialize self. See help(type(self)) for accurate signature.
- __repr__ = _swig_repr(self)
- addEnsWeights(self, *args, **kwargs) -> 'void'
- calcEnergy(self, *args, **kwargs) -> 'float_type'
- calcEnergyAndDerivs(self, *args, **kwargs) -> 'float_type'
- calcWDerivs(self, *args, **kwargs) -> 'bool const'
- clearEnsWeights(self, *args, **kwargs) -> 'void'
- energyMaybeDerivs0(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivs1(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivs2(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivs3(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivs4(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivsPost(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivsPre(self, *args, **kwargs) -> 'float_type'
- ensWeight(self, *args, **kwargs) -> 'float_type'
- ensWeights(self, *args, **kwargs) -> 'CDSList< float_type >'
- ensWeightsInfo(self, *args, **kwargs) -> 'String'
- getEnsWeights(self, *args, **kwargs) -> 'CDSList< VarEnsWeights > &'
- setCalcWDerivs(self, *args, **kwargs) -> 'void'
- setEnsWeights(self, *args, **kwargs) -> 'void'
- setUseSimEnsWeights(self, *args, **kwargs) -> 'void'
- simulation(self, *args) -> 'EnsembleSimulationBase const *'
- updateEnsWeights(self, *args, **kwargs) -> 'void'
- useSimEnsWeights(self, *args, **kwargs) -> 'bool const'
Static methods defined here:
- __swig_destroy__ = delete_EnsemblePot(...)
Data descriptors defined here:
- __dict__
dictionary for instance variables (if defined)
- __weakref__
list of weak references to the object (if defined)
- thisown
The membership flag
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class Modified(builtins.object) |
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Modified(*args, **kwargs)
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Methods defined here:
- __call__(self, *args, **kwargs) -> 'int'
- Call self as a function.
- __init__(self, *args, **kwargs)
- Initialize self. See help(type(self)) for accurate signature.
- __repr__ = _swig_repr(self)
- asString(self, *args, **kwargs) -> 'String'
- assertClear(self, *args, **kwargs) -> 'void'
- clear(self, *args, **kwargs) -> 'void'
- set(self, *args, **kwargs) -> 'void'
- update(self, *args, **kwargs) -> 'void'
- value(self, *args, **kwargs) -> 'int'
Static methods defined here:
- __swig_destroy__ = delete_Modified(...)
Data descriptors defined here:
- __dict__
dictionary for instance variables (if defined)
- __weakref__
list of weak references to the object (if defined)
- thisown
The membership flag
Data and other attributes defined here:
- MOD_SELF = 1
- MOD_SIMULATION = 2
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class ModifiedBase(builtins.object) |
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ModifiedBase(*args, **kwargs)
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Methods defined here:
- __init__(self, *args, **kwargs)
- Initialize self. See help(type(self)) for accurate signature.
- __repr__ = _swig_repr(self)
- registerTo(self, *args, **kwargs) -> 'void'
- unRegister(self, *args, **kwargs) -> 'void'
- updateValues(self, *args, **kwargs) -> 'void'
Static methods defined here:
- __swig_destroy__ = delete_ModifiedBase(...)
Data descriptors defined here:
- __dict__
dictionary for instance variables (if defined)
- __weakref__
list of weak references to the object (if defined)
- modified
- registeredSimulations
- thisown
The membership flag
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class Restraint_CSAPot(builtins.object) |
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Restraint_CSAPot(*args, **kwargs)
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Methods defined here:
- __init__(self, *args, **kwargs)
- Initialize self. See help(type(self)) for accurate signature.
- __repr__ = _swig_repr(self)
- diff(self, *args, **kwargs) -> 'float_type'
- name(self, *args, **kwargs) -> 'String const'
- setName(self, *args, **kwargs) -> 'void'
- violated(self, *args, **kwargs) -> 'bool'
Static methods defined here:
- __swig_destroy__ = delete_Restraint_CSAPot(...)
Data descriptors defined here:
- __dict__
dictionary for instance variables (if defined)
- __weakref__
list of weak references to the object (if defined)
- thisown
The membership flag
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class VarEnsWeights(builtins.object) |
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VarEnsWeights(*args, **kwargs)
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Methods defined here:
- __init__(self, *args, **kwargs)
- Initialize self. See help(type(self)) for accurate signature.
- __repr__ = _swig_repr(self)
Static methods defined here:
- __swig_destroy__ = delete_VarEnsWeights(...)
Data descriptors defined here:
- __dict__
dictionary for instance variables (if defined)
- __weakref__
list of weak references to the object (if defined)
- ensWeights
- mult
- thisown
The membership flag
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class rc_EnsemblePot(builtins.object) |
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rc_EnsemblePot(*args, **kwargs)
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Methods defined here:
- __init__(self, *args, **kwargs)
- Initialize self. See help(type(self)) for accurate signature.
- __repr__ = _swig_repr(self)
Static methods defined here:
- __swig_destroy__ = delete_rc_EnsemblePot(...)
Data descriptors defined here:
- __dict__
dictionary for instance variables (if defined)
- __weakref__
list of weak references to the object (if defined)
- thisown
The membership flag
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class rc_ptr_CSAPot_Restraint(builtins.object) |
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rc_ptr_CSAPot_Restraint(*args)
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Methods defined here:
- Selection1(self, *args, **kwargs) -> 'AtomSel'
- Selection2(self, *args, **kwargs) -> 'AtomSel'
- Selection3(self, *args, **kwargs) -> 'AtomSel'
- __deref__(self, *args, **kwargs) -> 'CSAPot_Restraint *'
- __init__(self, *args)
- Initialize self. See help(type(self)) for accurate signature.
- __ref__(self, *args, **kwargs) -> 'CSAPot_Restraint &'
- __repr__ = _swig_repr(self)
- calcd(self, *args, **kwargs) -> 'double'
- calcd_contrib(self, *args, **kwargs) -> 'CDSList< double >'
- count(self, *args, **kwargs) -> 'int'
- decr(self, *args, **kwargs) -> 'void'
- deriv(self, *args, **kwargs) -> 'void'
- deviation(self, *args, **kwargs) -> 'double'
- diff(self, *args, **kwargs) -> 'float_type'
- eigenMatrix(self, *args, **kwargs) -> 'Mat3'
- forceDelete(self, *args, **kwargs) -> 'void'
- incr(self, *args, **kwargs) -> 'void'
- minusErr(self, *args, **kwargs) -> 'double'
- name(self, *args, **kwargs) -> 'String'
- obs(self, *args, **kwargs) -> 'double'
- ok(self, *args, **kwargs) -> 'int'
- plusErr(self, *args, **kwargs) -> 'double'
- ptr(self, *args, **kwargs) -> 'CSAPot_Restraint *'
- release(self, *args, **kwargs) -> 'CSAPot_Restraint *'
- reset(self, *args, **kwargs) -> 'void'
- setName(self, *args, **kwargs) -> 'void'
- setObs(self, *args, **kwargs) -> 'void'
- tensor(self, *args, **kwargs) -> 'Mat3'
- violated(self, *args, **kwargs) -> 'bool'
Static methods defined here:
- __swig_destroy__ = delete_rc_ptr_CSAPot_Restraint(...)
Data descriptors defined here:
- __dict__
dictionary for instance variables (if defined)
- __weakref__
list of weak references to the object (if defined)
- thisown
The membership flag
- verbose
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realCSAPot = class CSAPot(builtins.object) |
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realCSAPot(*args)
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Methods defined here:
- DaScale(self, *args, **kwargs) -> 'float_type const'
- __deref__(self, *args, **kwargs) -> 'CSAPot *'
- __init__(self, *args)
- __oldinit__ = __init__(self, *args, **kwargs)
- __ref__(self, *args, **kwargs) -> 'CSAPot &'
- __repr__ = _swig_repr(self)
- addEnsWeights(self, *args, **kwargs) -> 'void'
- addRestraints(self, *args, **kwargs) -> 'void'
- atomOrder(self, *args, **kwargs) -> 'CSAPot::CSAAtomOrder'
- beta(self, *args, **kwargs) -> 'float_type'
- calcEnergy(self, *args, **kwargs) -> 'float_type'
- calcEnergyAndDerivs(self, *args, **kwargs) -> 'float_type'
- calcWDerivs(self, *args, **kwargs) -> 'bool const'
- clearEnsWeights(self, *args, **kwargs) -> 'void'
- decrRefCnt(self, *args, **kwargs) -> 'void'
- deviation(self, *args, **kwargs) -> 'double'
- energyMaybeDerivs0(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivs1(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivs2(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivs3(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivs4(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivsPost(self, *args, **kwargs) -> 'float_type'
- energyMaybeDerivsPre(self, *args, **kwargs) -> 'float_type'
- ensWeight(self, *args, **kwargs) -> 'float_type'
- ensWeights(self, *args, **kwargs) -> 'CDSList< float_type >'
- ensWeightsInfo(self, *args, **kwargs) -> 'String'
- gamma(self, *args, **kwargs) -> 'float_type'
- getEnsWeights(self, *args, **kwargs) -> 'CDSList< VarEnsWeights > &'
- incrRefCnt(self, *args, **kwargs) -> 'void'
- info(self, *args, **kwargs) -> 'String'
- instanceData(self, *args, **kwargs) -> 'PyObject *'
- instanceName(self, *args, **kwargs) -> 'char const *'
- numRestraints(self, *args, **kwargs) -> 'int'
- potName(self, *args, **kwargs) -> 'char const *'
- potType(self, *args, **kwargs) -> 'CSAPot::CSAPotType'
- pyXplorHelp(self, *args, **kwargs) -> 'String'
- rawRestraints(self, *args, **kwargs) -> 'CDSList< CDS::rc_ptr< CSAPot_Restraint > >'
- refCnt(self, *args, **kwargs) -> 'int'
- registerInstanceData(self, *args, **kwargs) -> 'void'
- registerTo(self, *args, **kwargs) -> 'void'
- removeRestraint(self, *args, **kwargs) -> 'void'
- resetInstanceName(self, *args, **kwargs) -> 'void'
- resetPotName(self, *args, **kwargs) -> 'void'
- restraints(self, *args, **kwargs) -> 'CDSList< CDS::rc_ptr< CSAPot_Restraint > >'
- rms(self, *args, **kwargs) -> 'double'
- scale(self, *args, **kwargs) -> 'float_type const'
- setAtomOrder(self, *args, **kwargs) -> 'void'
- setBeta(self, *args, **kwargs) -> 'void'
- setCalcWDerivs(self, *args, **kwargs) -> 'void'
- setDaScale(self, *args, **kwargs) -> 'void'
- setEnsWeights(self, *args, **kwargs) -> 'void'
- setGamma(self, *args, **kwargs) -> 'void'
- setPotType(self, *args, **kwargs) -> 'void'
- setScale(self, *args, **kwargs) -> 'void'
- setShowAllRestraints(self, *args, **kwargs) -> 'void'
- setSigma(self, *args, **kwargs) -> 'void'
- setTensorClass(self, *args, **kwargs) -> 'void'
- setThreshold(self, *args, **kwargs) -> 'void'
- setUseSimEnsWeights(self, *args, **kwargs) -> 'void'
- setVerbose(self, *args, **kwargs) -> 'void'
- showAllRestraints(self, *args, **kwargs) -> 'bool const'
- showRestraints(self, *args, **kwargs) -> 'String'
- showViolations(self, *args, **kwargs) -> 'String'
- sigma(self, *args, **kwargs) -> 'Vec3 const'
- simulation(self, *args, **kwargs) -> 'EnsembleSimulationBase const *'
- tensorClass(self, *args, **kwargs) -> 'CSAPot::CSATensorClass'
- threshold(self, *args, **kwargs) -> 'float_type const'
- unRegister(self, *args, **kwargs) -> 'void'
- updateDelta(self, *args, **kwargs) -> 'void'
- updateEnsWeights(self, *args, **kwargs) -> 'void'
- updateValues(self, *args, **kwargs) -> 'void'
- useSimEnsWeights(self, *args, **kwargs) -> 'bool const'
- verbose(self, *args, **kwargs) -> 'bool const'
- violations(self, *args, **kwargs) -> 'float_type'
Static methods defined here:
- __swig_destroy__ = delete_CSAPot(...)
Data descriptors defined here:
- __dict__
dictionary for instance variables (if defined)
- __weakref__
list of weak references to the object (if defined)
- instanceDataCleanup
- instanceDataCreate
- instanceData_
- modified
- oTensor
- registeredSimulations
- thisown
The membership flag
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