| Action(const ActionOptions &) | PLMD::Action | |
| ActionPilot(const ActionOptions &) | PLMD::ActionPilot | |
| ActionWithValue(const ActionOptions &ao) | PLMD::ActionWithValue | |
| activate() | PLMD::Action | virtual |
| addComponent(const std::string &name) | PLMD::ActionWithValue | |
| addComponentWithDerivatives(const std::string &name) | PLMD::ActionWithValue | |
| addDependency(Action *) | PLMD::Action | |
| addValue() | PLMD::ActionWithValue | |
| addValueWithDerivatives() | PLMD::ActionWithValue | |
| apply() | PLMD::generic::Read | inlinevirtual |
| calculate() | PLMD::generic::Read | virtual |
| calculateFromPDB(const PDB &) | PLMD::Action | |
| calculateNumericalDerivatives(ActionWithValue *a=NULL) | PLMD::Action | virtual |
| checkFieldsAllowed() | PLMD::ActionWithValue | inlinevirtual |
| checkNeedsGradients() const | PLMD::Action | inlinevirtual |
| PLMD::checkNumericalDerivatives() const | PLMD::Action | inlinevirtual |
| PLMD::ActionWithValue::checkNumericalDerivatives() const | PLMD::ActionWithValue | inlinevirtual |
| checkRead() | PLMD::Action | |
| cite(const std::string &s) | PLMD::Action | |
| clearDependencies() | PLMD::Action | |
| clearDerivatives() | PLMD::ActionWithValue | virtual |
| clearInputForces() | PLMD::ActionWithValue | |
| clearOptions() | PLMD::Action | virtual |
| cloned_file | PLMD::generic::Read | private |
| comm | PLMD::Action | |
| componentIsNotPeriodic(const std::string &name) | PLMD::ActionWithValue | |
| componentIsPeriodic(const std::string &name, const std::string &min, const std::string &max) | PLMD::ActionWithValue | |
| componentsAreNotOptional(Keywords &keys) | PLMD::ActionWithValue | static |
| copyOutput(const std::string &name) const | PLMD::ActionWithValue | |
| copyOutput(const unsigned &n) const | PLMD::ActionWithValue | |
| deactivate() | PLMD::Action | inlinevirtual |
| Dependencies typedef | PLMD::Action | |
| doNotCalculateDerivatives() const | PLMD::ActionWithValue | inline |
| error(const std::string &msg) const | PLMD::Action | |
| exists(const std::string &name) const | PLMD::ActionWithValue | |
| exit(int c=0) | PLMD::Action | |
| fclose(FILE *fp) | PLMD::Action | |
| fflush() | PLMD::Action | |
| filename | PLMD::generic::Read | private |
| files | PLMD::Action | |
| files_iterator typedef | PLMD::Action | |
| fopen(const char *path, const char *mode) | PLMD::Action | |
| getComponentsList() const | PLMD::ActionWithValue | |
| getComponentsVector() const | PLMD::ActionWithValue | |
| getDependencies() const | PLMD::Action | inline |
| getDocumentation() const | PLMD::Action | virtual |
| getExchangeStep() const | PLMD::Action | |
| getFile() | PLMD::generic::Read | |
| getFilename() const | PLMD::generic::Read | |
| getLabel() const | PLMD::Action | inline |
| getName() const | PLMD::Action | inline |
| getNumberOfComponents() const | PLMD::ActionWithValue | inline |
| getNumberOfDerivatives() | PLMD::generic::Read | virtual |
| getOutputQuantity(const unsigned j) const | PLMD::ActionWithValue | inline |
| getOutputQuantity(const std::string &name) const | PLMD::ActionWithValue | inline |
| getPntrToComponent(int i) | PLMD::ActionWithValue | protected |
| getPntrToComponent(const std::string &name) | PLMD::ActionWithValue | protected |
| getPntrToValue() | PLMD::ActionWithValue | protected |
| getStep() const | PLMD::Action | |
| getStride() const | PLMD::ActionPilot | protected |
| getTime() const | PLMD::Action | |
| getTimeStep() const | PLMD::Action | |
| ifile | PLMD::generic::Read | private |
| ignore_time | PLMD::generic::Read | private |
| isActive() const | PLMD::Action | inline |
| isOptionOn(const std::string &s) const | PLMD::Action | inline |
| keywords | PLMD::Action | |
| lockRequests() | PLMD::Action | inlinevirtual |
| log | PLMD::Action | |
| multi_sim_comm | PLMD::Action | |
| nlinesPerStep | PLMD::generic::Read | private |
| noAnalyticalDerivatives(Keywords &keys) | PLMD::ActionWithValue | static |
| onStep() const | PLMD::ActionPilot | |
| 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::generic::Read | virtual |
| Read(const ActionOptions &) | PLMD::generic::Read | |
| readAtomsFromPDB(const PDB &) | PLMD::Action | inlinevirtual |
| readvals | PLMD::generic::Read | private |
| registerKeywords(Keywords &keys) | PLMD::generic::Read | static |
| runFinalJobs() | PLMD::Action | inlinevirtual |
| setGradientsIfNeeded() | PLMD::ActionWithValue | |
| setNotPeriodic() | PLMD::ActionWithValue | |
| setOption(const std::string &s) | PLMD::Action | virtual |
| setPeriodic(const std::string &min, const std::string &max) | PLMD::ActionWithValue | |
| setValue(const double &d) | PLMD::ActionWithValue | inlineprotected |
| setValue(Value *, double) | PLMD::ActionWithValue | |
| turnOnDerivatives() | PLMD::generic::Read | virtual |
| unlockRequests() | PLMD::Action | inlinevirtual |
| update() | PLMD::generic::Read | virtual |
| useCustomisableComponents(Keywords &keys) | PLMD::ActionWithValue | static |
| useNumericalDerivatives() | PLMD::ActionWithValue | inline |
| warning(const std::string &msg) | PLMD::Action | |
| ~Action() | PLMD::Action | virtual |
| ~ActionWithValue() | PLMD::ActionWithValue | |
| ~Read() | PLMD::generic::Read | |
1.8.7