PLMD::generic::DumpPDB Member List

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

Action(const ActionOptions &)PLMD::Actionexplicit
Action(const Action &a)=deletePLMD::Actionprivate
ActionPilot(const ActionOptions &)PLMD::ActionPilotexplicit
ActionWithArguments(const ActionOptions &)PLMD::ActionWithArgumentsexplicit
activate()PLMD::Actionvirtual
activePLMD::Actionprivate
addDependency(Action *)PLMD::Action
addForcesOnArguments(const unsigned &argstart, const std::vector< double > &forces, unsigned &ind, const std::string &c)PLMD::ActionWithArguments
afterPLMD::Actionprivate
apply() overridePLMD::generic::DumpPDBinlinevirtual
argnamesPLMD::generic::DumpPDBprivate
argumentsPLMD::ActionWithArgumentsprivate
beforeUpdate()PLMD::Actioninlinevirtual
bringBackInPbc(int i, double d1) constPLMD::ActionWithArgumentsinline
buildArgnames()PLMD::generic::DumpPDBprivate
calculate() overridePLMD::generic::DumpPDBinlinevirtual
calculateConstantValues(const bool &have_atoms)PLMD::ActionWithArgumentsvirtual
calculateFromPDB(const PDB &)PLMD::Action
calculateNumericalDerivatives(ActionWithValue *a=NULL) overridePLMD::ActionWithArgumentsvirtual
castToActionAtomistic() noexceptPLMD::Actioninlinevirtual
castToActionForInterface() noexceptPLMD::Actioninlinevirtual
castToActionShortcut() noexceptPLMD::Actioninlinevirtual
castToActionToGetData() noexceptPLMD::Actioninlinevirtual
castToActionToPutData() noexceptPLMD::Actioninlinevirtual
castToActionWithArguments() noexcept finalPLMD::ActionWithArgumentsinlinevirtual
castToActionWithValue() noexceptPLMD::Actioninlinevirtual
castToActionWithVirtualAtom() noexceptPLMD::Actioninlinevirtual
castToDomainDecomposition() noexceptPLMD::Actioninlinevirtual
castToPbcAction() noexceptPLMD::Actioninlinevirtual
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
descriptionPLMD::generic::DumpPDBprivate
difference(int, double, double) constPLMD::ActionWithArgumentsinline
doCheckPointPLMD::Actionprivate
DumpPDB(const ActionOptions &)PLMD::generic::DumpPDBexplicit
error(const std::string &msg) constPLMD::Action
exit(int c=0)PLMD::Action
expandArgKeywordInPDB(const PDB &pdb)PLMD::ActionWithArgumentsprotected
fclose(FILE *fp)PLMD::Action
fflush()PLMD::Action
filePLMD::generic::DumpPDBprivate
filesPLMD::Action
fmtPLMD::generic::DumpPDBprivate
fopen(const char *path, const char *mode)PLMD::Action
getArgument(const unsigned n) constPLMD::ActionWithArgumentsinline
getArguments() constPLMD::ActionWithArgumentsinlinevirtual
getCPT() constPLMD::Action
getDefaultString() constPLMD::Actioninline
getDependencies() constPLMD::Actioninline
getExchangeStep() constPLMD::Action
getKBoltzmann() constPLMD::Actionprotected
getkBT()PLMD::Action
getKeyword(const std::string &key)PLMD::Action
getLabel() constPLMD::Actioninline
getName() constPLMD::Actioninline
getNumberOfArguments() constPLMD::ActionWithArgumentsinlinevirtual
getPntrToArgument(const unsigned n) constPLMD::ActionWithArgumentsinline
getProjection(unsigned i, unsigned j) constPLMD::ActionWithArguments
getRestart() constPLMD::Actioninline
getStep() constPLMD::Action
getStride() constPLMD::ActionPilot
getTime() constPLMD::Action
getTimeStep() constPLMD::Action
getUnits() constPLMD::Actionprotected
interpretArgumentList(const std::vector< std::string > &c, const ActionSet &as, Action *action, std::vector< Value * > &arg)PLMD::ActionWithArgumentsstatic
isActive() constPLMD::Actioninline
isOptionOn(const std::string &s) constPLMD::Actioninline
keywordsPLMD::Action
labelPLMD::Actionprivate
linePLMD::Actionprivate
lockRequestArgumentsPLMD::ActionWithArgumentsprivate
lockRequests() overridePLMD::ActionWithArgumentsinlinevirtual
logPLMD::Action
multi_sim_commPLMD::Action
namePLMD::Actionprivate
never_activatePLMD::Actionprivate
onStep() constPLMD::ActionPilotvirtual
operator=(const Action &a)=deletePLMD::Actionprivate
optionsPLMD::Actionprivate
parse(const std::string &key, T &t)PLMD::Action
parseArgumentList(const std::string &key, std::vector< Value * > &args)PLMD::ActionWithArguments
parseArgumentList(const std::string &key, int i, std::vector< Value * > &args)PLMD::ActionWithArguments
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
pdb_atom_indicesPLMD::generic::DumpPDBprivate
plumedPLMD::Action
prepare()PLMD::Actionvirtual
printAtom(OFile &opdbf, const unsigned &anum, const Vector &pos, const double &m, const double &q) constPLMD::generic::DumpPDBprivate
readAtomsFromPDB(const PDB &)PLMD::Actioninlinevirtual
registerKeywords(Keywords &keys)PLMD::generic::DumpPDBstatic
replica_indexPLMD::Actionprivate
requestArguments(const std::vector< Value * > &arg)PLMD::ActionWithArguments
requestExtraDependencies(const std::vector< Value * > &extra)PLMD::ActionWithArguments
restartPLMD::Actionprivate
runFinalJobs()PLMD::Actioninlinevirtual
setGradients(Value *myval, unsigned &start) constPLMD::ActionWithArguments
setOption(const std::string &s)PLMD::Actionvirtual
setStride(const int &n)PLMD::ActionPilot
setupConstantValues(const bool &have_atoms)PLMD::Action
stridePLMD::ActionPilotprivate
timestepPLMD::Actionprivate
unlockRequests() overridePLMD::ActionWithArgumentsinlinevirtual
update() overridePLMD::generic::DumpPDBvirtual
update_fromPLMD::Actionprivate
update_untilPLMD::Actionprivate
usingNaturalUnits() constPLMD::Actionprotected
warning(const std::string &msg)PLMD::Action
writeInGraph() constPLMD::Actionvirtual
~Action()PLMD::Actionvirtual
~ActionWithArguments()PLMD::ActionWithArgumentsinlinevirtual
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