PLMD::envsim::EnvironmentSimilarity Member List

This is the complete list of members for PLMD::envsim::EnvironmentSimilarity, including all inherited members.

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
EnvironmentSimilarity(const ActionOptions &)	PLMD::envsim::EnvironmentSimilarity	explicit
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
getReferenceEnvironment(const PDB &pdb, const std::vector< std::string > &anames, double &maxdist)	PLMD::envsim::EnvironmentSimilarity	private
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
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::envsim::EnvironmentSimilarity	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