PLMD::generic::WrapAround Member List

This is the complete list of members for PLMD::generic::WrapAround, including all inherited members.

Action(const ActionOptions &)PLMD::Actionexplicit
Action(const Action &a)=deletePLMD::Actionprivate
ActionAtomistic(const ActionOptions &ao)PLMD::ActionAtomisticexplicit
actionHasForces() overridePLMD::generic::WrapAroundinlinevirtual
ActionPilot(const ActionOptions &)PLMD::ActionPilotexplicit
activate()PLMD::Actionvirtual
activePLMD::Actionprivate
addDependency(Action *)PLMD::Action
addForce(const std::pair< std::size_t, std::size_t > &a, const Vector &f)PLMD::ActionAtomisticinline
afterPLMD::Actionprivate
apply() overridePLMD::generic::WrapAroundinlinevirtual
atom_value_indPLMD::ActionAtomisticprivate
atom_value_ind_groupedPLMD::ActionAtomisticprivate
beforeUpdate()PLMD::Actioninlinevirtual
boxValuePLMD::ActionAtomisticprivate
calculate() overridePLMD::generic::WrapAroundvirtual
calculateAtomicNumericalDerivatives(ActionWithValue *a, const unsigned &startnum)PLMD::ActionAtomistic
calculateFromPDB(const PDB &)PLMD::Action
PLMD::calculateNumericalDerivatives(ActionWithValue *a=NULL)PLMD::Actionvirtual
PLMD::ActionAtomistic::calculateNumericalDerivatives(ActionWithValue *a=NULL) overridePLMD::ActionAtomisticvirtual
PLMD::castToActionAtomistic() noexceptPLMD::Actioninlinevirtual
PLMD::ActionAtomistic::castToActionAtomistic() noexcept finalPLMD::ActionAtomisticinlinevirtual
castToActionForInterface() noexceptPLMD::Actioninlinevirtual
castToActionShortcut() noexceptPLMD::Actioninlinevirtual
castToActionToGetData() noexceptPLMD::Actioninlinevirtual
castToActionToPutData() noexceptPLMD::Actioninlinevirtual
castToActionWithArguments() noexceptPLMD::Actioninlinevirtual
castToActionWithValue() noexceptPLMD::Actioninlinevirtual
castToActionWithVirtualAtom() noexceptPLMD::Actioninlinevirtual
castToDomainDecomposition() noexceptPLMD::Actioninlinevirtual
castToPbcAction() noexceptPLMD::Actioninlinevirtual
changeBox(const Tensor &newbox)PLMD::ActionAtomistic
chargesPLMD::ActionAtomisticprivate
chargesWereSetPLMD::ActionAtomisticprotected
chargevPLMD::ActionAtomisticprivate
checkForDependency(Action *)PLMD::Action
checkNeedsGradients() constPLMD::Actioninlinevirtual
checkNumericalDerivatives() constPLMD::Actioninlinevirtual
checkRead()PLMD::Action
checkUpdate() constPLMD::Action
cite(const std::string &s)PLMD::Action
clearDependencies()PLMD::Action
clearOptions()PLMD::Actionvirtual
commPLMD::Action
deactivate()PLMD::Actioninlinevirtual
defaultsPLMD::Actionprivate
Dependencies typedefPLMD::Action
doCheckPointPLMD::Actionprivate
doNotForce()PLMD::ActionAtomisticinline
donotforcePLMD::ActionAtomisticprivate
doNotRetrieve()PLMD::ActionAtomisticinline
donotretrievePLMD::ActionAtomisticprivate
energyPLMD::ActionAtomisticprivate
error(const std::string &msg) constPLMD::Action
exit(int c=0)PLMD::Action
fclose(FILE *fp)PLMD::Action
fflush()PLMD::Action
filesPLMD::Action
fopen(const char *path, const char *mode)PLMD::Action
forceOnEnergyPLMD::ActionAtomisticprivate
forceOnExtraCVPLMD::ActionAtomisticprivate
forcesPLMD::ActionAtomisticprivate
getAbsoluteIndex(int i) constPLMD::ActionAtomisticinline
getAbsoluteIndexes() constPLMD::ActionAtomisticinlinevirtual
getBox() constPLMD::ActionAtomisticinline
getCharge(int i) constPLMD::ActionAtomisticinline
getCPT() constPLMD::Action
getDefaultString() constPLMD::Actioninline
getDependencies() constPLMD::Actioninline
getEnergy() constPLMD::ActionAtomisticinline
getExchangeStep() constPLMD::Action
getForce(const std::pair< std::size_t, std::size_t > &a) constPLMD::ActionAtomisticinline
getGlobalPosition(const std::pair< std::size_t, std::size_t > &) constPLMD::ActionAtomisticinline
getGradient(const unsigned &ind, Vector &deriv, std::map< AtomNumber, Vector > &gradients) constPLMD::ActionAtomistic
getKBoltzmann() constPLMD::Actionprotected
getkBT()PLMD::Action
getKeyword(const std::string &key)PLMD::Action
getLabel() constPLMD::Actioninline
getMass(int i) constPLMD::ActionAtomisticinline
getName() constPLMD::Actioninline
getNumberOfAtoms() constPLMD::ActionAtomisticinline
getPbc() constPLMD::ActionAtomisticinline
getPosition(int) constPLMD::ActionAtomisticinline
getPositions() constPLMD::ActionAtomisticinline
getRestart() constPLMD::Actioninline
getStep() constPLMD::Action
getStride() constPLMD::ActionPilot
getTime() constPLMD::Action
getTimeStep() constPLMD::Action
getTotAtoms() constPLMD::ActionAtomistic
getUnique() constPLMD::ActionAtomisticinline
getUniqueLocal() constPLMD::ActionAtomisticinline
getUnits() constPLMD::Actionprotected
getValueIndices(const AtomNumber &i) constPLMD::ActionAtomisticprotected
getVirial() constPLMD::ActionAtomistic
groupbyPLMD::generic::WrapAroundprivate
indexesPLMD::ActionAtomisticprivate
interpretAtomList(std::vector< std::string > &strings, std::vector< AtomNumber > &t)PLMD::ActionAtomistic
isActive() constPLMD::Actioninline
isOptionOn(const std::string &s) constPLMD::Actioninline
keywordsPLMD::Action
labelPLMD::Actionprivate
linePLMD::Actionprivate
lockRequestAtomsPLMD::ActionAtomisticprivate
PLMD::lockRequests()PLMD::Actioninlinevirtual
PLMD::ActionAtomistic::lockRequests() overridePLMD::ActionAtomisticinlinevirtual
logPLMD::Action
makeWhole()PLMD::ActionAtomistic
massesPLMD::ActionAtomisticprivate
masvPLMD::ActionAtomisticprivate
modifyForceOnEnergy()PLMD::ActionAtomisticinline
multi_sim_commPLMD::Action
namePLMD::Actionprivate
never_activatePLMD::Actionprivate
onStep() constPLMD::ActionPilotvirtual
operator=(const Action &a)=deletePLMD::Actionprivate
optionsPLMD::Actionprivate
p_atomsPLMD::generic::WrapAroundprivate
p_referencePLMD::generic::WrapAroundprivate
pair_PLMD::generic::WrapAroundprivate
parse(const std::string &key, T &t)PLMD::Action
parseAtomList(const std::string &key, std::vector< AtomNumber > &t)PLMD::ActionAtomistic
parseAtomList(const std::string &key, const int num, std::vector< AtomNumber > &t)PLMD::ActionAtomistic
parseFlag(const std::string &key, bool &t)PLMD::Action
parseNumbered(const std::string &key, const int no, T &t)PLMD::Action
parseNumberedVector(const std::string &key, const int no, std::vector< T > &t)PLMD::Action
parseVector(const std::string &key, std::vector< T > &t)PLMD::Action
pbcPLMD::ActionAtomisticprivate
pbc_fwdPLMD::ActionAtomisticprivate
pbcApply(std::vector< Vector > &dlist, unsigned max_index=0) constPLMD::ActionAtomistic
pbcDistance(const Vector &, const Vector &) constPLMD::ActionAtomisticinline
plumedPLMD::Action
positionsPLMD::ActionAtomisticprivate
prepare()PLMD::Actionvirtual
PLMD::readAtomsFromPDB(const PDB &)PLMD::Actioninlinevirtual
PLMD::ActionAtomistic::readAtomsFromPDB(const PDB &pdb) overridePLMD::ActionAtomisticvirtual
refatomsPLMD::generic::WrapAroundprivate
registerKeywords(Keywords &keys)PLMD::generic::WrapAroundstatic
replica_indexPLMD::Actionprivate
requestAtoms(const std::vector< AtomNumber > &a, const bool clearDep=true)PLMD::ActionAtomistic
restartPLMD::Actionprivate
retrieveAtoms(const bool &force=false)PLMD::ActionAtomisticvirtual
runFinalJobs()PLMD::Actioninlinevirtual
setExtraCV(const std::string &name)PLMD::ActionAtomisticprotected
setForcesOnAtoms(const std::vector< double > &forcesToApply, unsigned &ind)PLMD::ActionAtomistic
setForcesOnCell(const std::vector< double > &forcesToApply, unsigned &ind)PLMD::ActionAtomistic
setForcesOnCell(const double *forcesToApply, std::size_t size, unsigned &ind)PLMD::ActionAtomistic
setGlobalPosition(const std::pair< std::size_t, std::size_t > &, const Vector &pos)PLMD::ActionAtomisticinline
setOption(const std::string &s)PLMD::Actionvirtual
setStride(const int &n)PLMD::ActionPilot
setupConstantValues(const bool &have_atoms)PLMD::Action
stridePLMD::ActionPilotprivate
timestepPLMD::Actionprivate
uniquePLMD::ActionAtomisticprivate
unique_localPLMD::ActionAtomisticprivate
unique_local_needs_updatePLMD::ActionAtomisticprivate
PLMD::unlockRequests()PLMD::Actioninlinevirtual
PLMD::ActionAtomistic::unlockRequests() overridePLMD::ActionAtomisticinlinevirtual
update()PLMD::Actioninlinevirtual
update_fromPLMD::Actionprivate
update_untilPLMD::Actionprivate
updateUniqueLocal(const bool &useunique, const std::vector< int > &g2l)PLMD::ActionAtomisticprivate
usingNaturalUnits() constPLMD::Actionprotected
value_dependsPLMD::ActionAtomisticprivate
warning(const std::string &msg)PLMD::Action
WrapAround(const ActionOptions &ao)PLMD::generic::WrapAroundexplicit
writeInGraph() constPLMD::Actionvirtual
xposPLMD::ActionAtomisticprivate
yposPLMD::ActionAtomisticprivate
zposPLMD::ActionAtomisticprivate
~Action()PLMD::Actionvirtual
~ActionAtomistic()PLMD::ActionAtomistic
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