| add_hydrogens | FragmentDB | |
| build_bonds | FragmentDB | |
| destroy() (defined in FragmentDB) | FragmentDB | |
| FragmentDB() | FragmentDB | |
| FragmentDB(const String &filename) | FragmentDB | |
| FragmentDB(const FragmentDB &db, bool deep=true) | FragmentDB | |
| FragmentDB::AddHydrogensProcessor (defined in FragmentDB) | FragmentDB | [friend] |
| FragmentTypes enum name | FragmentDB | |
| getDefaultNamingStandard() const | FragmentDB | |
| getFilename() const | FragmentDB | |
| getFragment(const String &fragment_name) const | FragmentDB | |
| getFragmentCopy(const String &fragment_name) const | FragmentDB | |
| getFragments() (defined in FragmentDB) | FragmentDB | |
| getFragmentType(const String &fragment_name) const | FragmentDB | |
| getMoleculeCopy(const String &fragment_name) const | FragmentDB | |
| getNamingStandards() | FragmentDB | |
| getReferenceFragment(const Fragment &fragment) const | FragmentDB | |
| getResidue(const String &fragment_name) const | FragmentDB | |
| getResidueCopy(const String &fragment_name) const | FragmentDB | |
| getVariantNames(const String &name) const | FragmentDB | |
| has(const String &fragment_name) const | FragmentDB | |
| init() | FragmentDB | |
| isValid() const (defined in FragmentDB) | FragmentDB | |
| NameMap typedef | FragmentDB | |
| normalize_names | FragmentDB | |
| operator=(const FragmentDB &db) | FragmentDB | |
| setFilename(const String &filename) | FragmentDB | |
| tree | FragmentDB | |
| Type typedef | FragmentDB | |
| TYPE__FRAGMENT enum value (defined in FragmentDB) | FragmentDB | |
| TYPE__MOLECULE enum value (defined in FragmentDB) | FragmentDB | |
| TYPE__RESIDUE enum value (defined in FragmentDB) | FragmentDB | |
| TYPE__UNKNOWN enum value (defined in FragmentDB) | FragmentDB | |
| ~FragmentDB() | FragmentDB | [virtual] |