Action(const ActionOptions &) | PLMD::Action | explicit |
Action(const Action &a)=delete | PLMD::Action | private |
ActionShortcut(const ActionOptions &ao) | PLMD::ActionShortcut | explicit |
activate() | PLMD::Action | virtual |
active | PLMD::Action | private |
addCommentToShortcutOutput(const std::string &input) | PLMD::ActionShortcut | |
addDependency(Action *) | PLMD::Action | |
addToSavedInputLines(const std::string &line) | PLMD::ActionShortcut | private |
after | PLMD::Action | private |
apply() override | PLMD::ActionShortcut | inlinevirtual |
beforeUpdate() | PLMD::Action | inlinevirtual |
calculate() override | PLMD::ActionShortcut | inlinevirtual |
calculateFromPDB(const PDB &) | PLMD::Action | |
calculateNumericalDerivatives(ActionWithValue *a=NULL) | PLMD::Action | virtual |
castToActionAtomistic() noexcept | PLMD::Action | inlinevirtual |
castToActionForInterface() noexcept | PLMD::Action | inlinevirtual |
castToActionShortcut() noexcept final | PLMD::ActionShortcut | inlinevirtual |
castToActionToGetData() noexcept | PLMD::Action | inlinevirtual |
castToActionToPutData() noexcept | PLMD::Action | inlinevirtual |
castToActionWithArguments() noexcept | PLMD::Action | inlinevirtual |
castToActionWithValue() noexcept | PLMD::Action | inlinevirtual |
castToActionWithVirtualAtom() noexcept | PLMD::Action | inlinevirtual |
castToDomainDecomposition() noexcept | PLMD::Action | inlinevirtual |
castToPbcAction() noexcept | PLMD::Action | inlinevirtual |
checkForDependency(Action *) | PLMD::Action | |
checkNeedsGradients() const | PLMD::Action | inlinevirtual |
checkNumericalDerivatives() const | PLMD::Action | inlinevirtual |
checkRead() | PLMD::Action | |
checkUpdate() const | PLMD::Action | |
cite(const std::string &s) | PLMD::Action | |
clearDependencies() | PLMD::Action | |
clearOptions() | PLMD::Action | virtual |
comm | PLMD::Action | |
convertInputLineToString() | PLMD::ActionShortcut | |
deactivate() | PLMD::Action | inlinevirtual |
defaults | PLMD::Action | private |
Dependencies typedef | PLMD::Action | |
doCheckPoint | PLMD::Action | private |
error(const std::string &msg) const | PLMD::Action | |
exit(int c=0) | PLMD::Action | |
fclose(FILE *fp) | PLMD::Action | |
fflush() | PLMD::Action | |
files | PLMD::Action | |
fopen(const char *path, const char *mode) | PLMD::Action | |
getCPT() const | PLMD::Action | |
getDefaultString() const | PLMD::Action | inline |
getDependencies() const | PLMD::Action | inline |
getExchangeStep() const | PLMD::Action | |
getKBoltzmann() const | PLMD::Action | protected |
getkBT() | PLMD::Action | |
getKeyword(const std::string &key) | PLMD::Action | |
getLabel() const | PLMD::Action | inline |
getName() const | PLMD::Action | inline |
getRestart() const | PLMD::Action | inline |
getSavedInputLines() const | PLMD::ActionShortcut | |
getSavedOutputs() const | PLMD::ActionShortcut | |
getShortcutLabel() const | PLMD::ActionShortcut | |
getStep() const | PLMD::Action | |
getTime() const | PLMD::Action | |
getTimeStep() const | PLMD::Action | |
getUnits() const | PLMD::Action | protected |
getUpdateLimits() const | PLMD::ActionShortcut | protected |
interpretDataLabel(const std::string &mystr, Action *myuser, std::vector< Value * > &args) const | PLMD::ActionShortcut | |
isActive() const | PLMD::Action | inline |
isOptionOn(const std::string &s) const | PLMD::Action | inline |
keywords | PLMD::Action | |
label | PLMD::Action | private |
LandmarkSelection(const ActionOptions &ao) | PLMD::landmarks::LandmarkSelection | explicit |
line | PLMD::Action | private |
lockRequests() | PLMD::Action | inlinevirtual |
log | PLMD::Action | |
multi_sim_comm | PLMD::Action | |
name | PLMD::Action | private |
never_activate | PLMD::Action | private |
operator=(const Action &a)=delete | PLMD::Action | private |
options | PLMD::Action | private |
parse(const std::string &key, T &t) | PLMD::Action | |
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 | |
plumed | PLMD::Action | |
prepare() | PLMD::Action | virtual |
readAtomsFromPDB(const PDB &) | PLMD::Action | inlinevirtual |
readInputLine(const std::string &input, bool saveline=true) | PLMD::ActionShortcut | |
readShortcutKeywords(const Keywords &keys, std::map< std::string, std::string > &keymap) | PLMD::ActionShortcut | |
registerKeywords(Keywords &keys) | PLMD::landmarks::LandmarkSelection | static |
replica_index | PLMD::Action | private |
resetStoredTimestep() | PLMD::Action | |
restart | PLMD::Action | private |
runFinalJobs() | PLMD::Action | inlinevirtual |
savedInputLines | PLMD::ActionShortcut | private |
savedOutputs | PLMD::ActionShortcut | private |
setOption(const std::string &s) | PLMD::Action | virtual |
setupConstantValues(const bool &have_atoms) | PLMD::Action | |
shortcutlabel | PLMD::ActionShortcut | private |
timestep | PLMD::Action | private |
unlockRequests() | PLMD::Action | inlinevirtual |
update() | PLMD::Action | inlinevirtual |
update_from | PLMD::Action | private |
update_until | PLMD::Action | private |
usingNaturalUnits() const | PLMD::Action | protected |
warning(const std::string &msg) | PLMD::Action | |
writeInGraph() const | PLMD::Action | virtual |
~Action() | PLMD::Action | virtual |