| activate() | PResidue | |
| DetachBlocks(const string &blockType, const string &blockToDetachFrom) | PResidue | |
| DOFCacher | PResidue | [friend] |
| FindAnyCollision() const | PResidue | |
| FindSelfCollision() const | PResidue | |
| FindStaticCollision() const | PResidue | |
| getAllCollidingEither() const | PResidue | |
| getAllCollidingSelf() const | PResidue | |
| getAllCollidingStatic() const | PResidue | |
| getAtom(const string &id) | PResidue | [inline] |
| getAtomPosition(const string &id) | PResidue | [inline] |
| getAtoms() | PResidue | [inline] |
| getBond(const string &id1, const string &id2) | PResidue | |
| getChain() const | PResidue | |
| getDOF(const string &blockType, const string &atomId1, const string &atomId2) | PResidue | |
| getDOFsForBlock(const string &blockType) | PResidue | |
| getHeadBlock() | PResidue | [inline] |
| getName() const | PResidue | [inline] |
| getPdbId() const | PResidue | [inline] |
| getResourceName() const | PResidue | [inline] |
| getSpaceManager() const | PResidue | |
| getSpec() | PResidue | |
| getTailBlock() | PResidue | [inline] |
| HASH_MAP_STR(PAtom *)*getAtomMap() | PResidue | [inline] |
| inactivate() | PResidue | |
| InAnyCollision() const | PResidue | |
| InSelfCollision() const | PResidue | |
| InStaticCollision() const | PResidue | |
| NextResidue() const | PResidue | [inline] |
| PChain class | PResidue | [friend] |
| PResidue(PChain *loop, const string &shellName) | PResidue | |
| PResidue(PChain *loop, const string &shellName, PResidueSpec &spec) | PResidue | |
| PResidue(PChain *loop, const string &shellName, PResidue *toConnect) | PResidue | |
| PResidue(PChain *loop, const string &shellName, PResidueSpec &spec, PResidue *toConnect) | PResidue | |
| PreviousResidue() const | PResidue | [inline] |
| RandomizeDOFs(const string &blockType, PChain *rootChain) | PResidue | |
| RandomizeDOFs(const string &blockType) | PResidue | |
| ReattachAllBlocks() | PResidue | |
| ReattachBlocks(const string &blockType) | PResidue | |
| setName(string name) | PResidue | [inline] |
| setPositions(const PAtomPositionsSpec &spec) | PResidue | |
| ~PResidue() | PResidue | |
