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protocols::pose_length_moves::PossibleLoop Member List

This is the complete list of members for protocols::pose_length_moves::PossibleLoop, including all inherited members.

add_coordinate_csts_from_lookback(core::Size stub_ss_index_match, core::Size fragment_index, core::Size pose_residue, bool match_stub_alone, core::pose::PoseOP &poseOP)protocols::pose_length_moves::PossibleLoopprivate
add_dihedral_csts_from_lookback(core::Size stub_ss_index_match, core::Size fragment_index, core::Size pose_residue, core::pose::PoseOP &poseOP)protocols::pose_length_moves::PossibleLoopprivate
assign_phi_psi_omega_from_lookback(core::Size db_index, core::Size fragment_index, core::pose::PoseOP &poseOP)protocols::pose_length_moves::PossibleLoopprivate
below_distance_threshold_protocols::pose_length_moves::PossibleLoopprivate
check_loop_abego(core::pose::PoseOP &poseOP, core::Size loopStart, core::Size loopStop, std::string allowed_loop_abegos, core::Real loop_rmsd)protocols::pose_length_moves::PossibleLoopprivate
evaluate_distance_closure()protocols::pose_length_moves::PossibleLoop
extendRegion(bool towardCTerm, core::Size resStart, core::Size numberAddRes, core::pose::PoseOP &poseOP)protocols::pose_length_moves::PossibleLoopprivate
final_rmsd_protocols::pose_length_moves::PossibleLoopprivate
finalPoseOP_protocols::pose_length_moves::PossibleLoopprivate
fullLength_resBeforeLoop_protocols::pose_length_moves::PossibleLoopprivate
fullLengthPoseOP_protocols::pose_length_moves::PossibleLoopprivate
generate_output_pose(bool output_closed, bool ideal_loop, core::Real rms_threshold, std::string allowed_loop_abegos, std::string closure_type)protocols::pose_length_moves::PossibleLoop
generate_stub_rmsd()protocols::pose_length_moves::PossibleLoop
generate_uncached_stub_rmsd()protocols::pose_length_moves::PossibleLoop
get_below_distance_threshold()protocols::pose_length_moves::PossibleLoopinline
get_center_of_mass(const core::Real *coordinates, int number_of_atoms)protocols::pose_length_moves::PossibleLoopprivate
get_coordinates_from_pose(core::pose::PoseOP const poseOP, core::Size resid, core::Size length)protocols::pose_length_moves::PossibleLoopprivate
get_description()protocols::pose_length_moves::PossibleLoop
get_final_RMSD()protocols::pose_length_moves::PossibleLoopinline
get_finalPoseOP()protocols::pose_length_moves::PossibleLoop
get_stubRMSD()protocols::pose_length_moves::PossibleLoopinline
get_uncached_stubRMSD()protocols::pose_length_moves::PossibleLoopinline
get_valid_resid(int resid, core::pose::Pose const pose)protocols::pose_length_moves::PossibleLoopprivate
insertedAfterLoopRes_protocols::pose_length_moves::PossibleLoopprivate
insertedBeforeLoopRes_protocols::pose_length_moves::PossibleLoopprivate
kic_closure(core::scoring::ScoreFunctionOP scorefxn_, core::pose::PoseOP &poseOP, core::Size firstLoopRes, core::Size lastLoopRes, core::Size numb_kic_cycles)protocols::pose_length_moves::PossibleLoopprivate
loopLength_protocols::pose_length_moves::PossibleLoopprivate
minimize_loop(core::scoring::ScoreFunctionOP scorefxn, bool ideal_loop, core::pose::PoseOP &poseOP)protocols::pose_length_moves::PossibleLoopprivate
original_atom_type_fullLengthPoseOP_protocols::pose_length_moves::PossibleLoopprivate
output_fragment_debug(std::vector< numeric::xyzVector< numeric::Real > > coordinates, std::string filename)protocols::pose_length_moves::PossibleLoopprivate
outputed()protocols::pose_length_moves::PossibleLoopinline
outputed(bool outputed)protocols::pose_length_moves::PossibleLoopinline
outputed_protocols::pose_length_moves::PossibleLoopprivate
PossibleLoop(int resAdjustmentBeforeLoop, int resAdjustmentAfterLoop, core::Size loopLength, core::Size resBeforeLoop, core::Size resAfterLoop, char resTypeBeforeLoop, char resTypeAfterLoop, core::Size insertedBeforeLoopRes, core::Size insertedAfterLoopRes, core::pose::PoseOP fullLengthPoseOP, core::pose::PoseOP orig_atom_type_fullLengthPoseOP)protocols::pose_length_moves::PossibleLoop
resAdjustmentAfterLoop_protocols::pose_length_moves::PossibleLoopprivate
resAdjustmentBeforeLoop_protocols::pose_length_moves::PossibleLoopprivate
resAfterLoop_protocols::pose_length_moves::PossibleLoopprivate
resBeforeLoop_protocols::pose_length_moves::PossibleLoopprivate
resTypeAfterLoop_protocols::pose_length_moves::PossibleLoopprivate
resTypeBeforeLoop_protocols::pose_length_moves::PossibleLoopprivate
rmsd_between_coordinates(std::vector< numeric::xyzVector< numeric::Real > > fragCoordinates, std::vector< numeric::xyzVector< numeric::Real > > coordinates)protocols::pose_length_moves::PossibleLoopprivate
SSHashedFragmentStore_protocols::pose_length_moves::PossibleLoopprivate
stub_index_match_protocols::pose_length_moves::PossibleLoopprivate
stub_rmsd_match_protocols::pose_length_moves::PossibleLoopprivate
stub_ss_index_match_protocols::pose_length_moves::PossibleLoopprivate
trimRegion(core::pose::PoseOP &poseOP, core::Size resStart, core::Size resStop)protocols::pose_length_moves::PossibleLoopprivate
uncached_stub_index_protocols::pose_length_moves::PossibleLoopprivate
uncached_stub_rmsd_protocols::pose_length_moves::PossibleLoopprivate
~PossibleLoop() overrideprotocols::pose_length_moves::PossibleLoop