Bindings for protocols::rosetta_scripts namespace

Classes
		builtins.object PosePropertyReporter PosePropertyReporterCreator PosePropertyReporterFactory PoseSelector PoseSelectorCreator PoseSelectorFlags rosetta.protocols.jd2.Parser(builtins.object) RosettaScriptsParser rosetta.protocols.moves.Mover(builtins.object) AdditionalOutputWrapper MultipleOutputWrapper MultiplePoseMover ParsedProtocol SavePoseMover rosetta.protocols.moves.MoverCreator(builtins.object) AdditionalOutputWrapperCreator MultipleOutputWrapperCreator MultiplePoseMoverCreator ParsedProtocolCreator SavePoseMoverCreator rosetta.utility.SingletonBase_protocols_rosetta_scripts_PoseSelectorFactory_t(builtins.object) PoseSelectorFactory   class AdditionalOutputWrapper(rosetta.protocols.moves.Mover)       Method resolution order: AdditionalOutputWrapper rosetta.protocols.moves.Mover builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(handle) -> NoneType   2. __init__(handle, rosetta.protocols.rosetta_scripts.AdditionalOutputWrapper) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. apply(...) from builtins.PyCapsule apply(self : rosetta.protocols.rosetta_scripts.AdditionalOutputWrapper, pose : rosetta.core.pose.Pose) -> NoneType assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.rosetta_scripts.AdditionalOutputWrapper,  : rosetta.protocols.rosetta_scripts.AdditionalOutputWrapper) -> rosetta.protocols.rosetta_scripts.AdditionalOutputWrapper clone(...) from builtins.PyCapsule clone(rosetta.protocols.rosetta_scripts.AdditionalOutputWrapper) -> rosetta.protocols.moves.Mover fresh_instance(...) from builtins.PyCapsule fresh_instance(rosetta.protocols.rosetta_scripts.AdditionalOutputWrapper) -> rosetta.protocols.moves.Mover get_additional_output(...) from builtins.PyCapsule get_additional_output(rosetta.protocols.rosetta_scripts.AdditionalOutputWrapper) -> rosetta.core.pose.Pose get_name(...) from builtins.PyCapsule get_name(rosetta.protocols.rosetta_scripts.AdditionalOutputWrapper) -> str Methods inherited from rosetta.protocols.moves.Mover: clear_info(...) from builtins.PyCapsule clear_info(rosetta.protocols.moves.Mover) -> NoneType   Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.      clear_info is called by jd2 before calling apply create(...) from builtins.PyCapsule create(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover get_current_job(...) from builtins.PyCapsule get_current_job(rosetta.protocols.moves.Mover) -> protocols::jobdist::BasicJob get_current_tag(...) from builtins.PyCapsule get_current_tag(rosetta.protocols.moves.Mover) -> str   A tag is a unique identifier used to identify structures produced  by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag )  sets the tag.  This functionality is not intended for use with the 2008 job distributor. get_input_pose(...) from builtins.PyCapsule get_input_pose(rosetta.protocols.moves.Mover) -> rosetta.core.pose.Pose get_last_move_status(...) from builtins.PyCapsule get_last_move_status(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.MoverStatus   returns status after an apply().  The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say "that run was no good, skip it" then use the protected last_move_status(MoverStatus) to change the value that this function will return. get_native_pose(...) from builtins.PyCapsule get_native_pose(rosetta.protocols.moves.Mover) -> rosetta.core.pose.Pose get_self_ptr(...) from builtins.PyCapsule get_self_ptr(*args, **kwargs) Overloaded function.   1. get_self_ptr(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover   2. get_self_ptr(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover get_self_weak_ptr(...) from builtins.PyCapsule get_self_weak_ptr(*args, **kwargs) Overloaded function.   1. get_self_weak_ptr(rosetta.protocols.moves.Mover) -> rosetta.std.weak_ptr_const_protocols_moves_Mover_t   2. get_self_weak_ptr(rosetta.protocols.moves.Mover) -> rosetta.std.weak_ptr_protocols_moves_Mover_t get_type(...) from builtins.PyCapsule get_type(rosetta.protocols.moves.Mover) -> str info(...) from builtins.PyCapsule info(*args, **kwargs) Overloaded function.   1. info(rosetta.protocols.moves.Mover) -> rosetta.std.list_std_string_std_allocator_std_string_t   non-const accessor   2. info(rosetta.protocols.moves.Mover) -> rosetta.std.list_std_string_std_allocator_std_string_t   const accessor last_proposal_density_ratio(...) from builtins.PyCapsule last_proposal_density_ratio(rosetta.protocols.moves.Mover) -> float name(...) from builtins.PyCapsule name() -> str register_options(...) from builtins.PyCapsule register_options(*args, **kwargs) Overloaded function.   1. register_options() -> NoneType   Overload this static method if you access options within the mover.      These options will end up in -help of your application if users of this mover call register_options.  Do this recursively!  If you use movers within your mover, call their register_options in your register_options() method.   2. register_options() -> NoneType   3. register_options() -> NoneType   4. register_options() -> NoneType   5. register_options() -> NoneType   6. register_options() -> NoneType   7. register_options() -> NoneType   8. register_options() -> NoneType   9. register_options() -> NoneType   Associates relevant options with the AntibodyModeler class   10. register_options() -> NoneType   Associates relevant options with the AntibodyModeler class   11. register_options() -> NoneType   Associates relevant options with the SnugDock class   12. register_options() -> NoneType   Associates relevant options with the SnugDockProtocol class   13. register_options() -> NoneType   Register the options used by this mover with the global options  system.   14. register_options() -> NoneType   15. register_options() -> NoneType   Associate relevant options with the TemperedDocking class.   16. register_options() -> NoneType   17. register_options() -> NoneType   18. register_options() -> NoneType   Associates relevant options with the TemperedDocking class.   19. register_options() -> NoneType   20. register_options() -> NoneType   Associates relevant options with the ConstraintSetMover class   21. register_options() -> NoneType   22. register_options() -> NoneType   Associates relevant options with the DockingInitialPerturbation class   23. register_options() -> NoneType   Associates relevant options with the DockingProtocol class   24. register_options() -> NoneType   Associates relevant options with the TemperedDocking class   25. register_options() -> NoneType   26. register_options() -> NoneType   27. register_options() -> NoneType   28. register_options() -> NoneType   register options   29. register_options() -> NoneType   30. register_options() -> NoneType   Registers applicable options   31. register_options() -> NoneType   Register options with the option system.   32. register_options() -> NoneType   33. register_options() -> NoneType   34. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   35. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycleContainer class   36. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   37. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   38. register_options() -> NoneType   39. register_options() -> NoneType   Register options with the option system.   40. register_options() -> NoneType reinitialize_for_each_job(...) from builtins.PyCapsule reinitialize_for_each_job(rosetta.protocols.moves.Mover) -> bool   Inform the Job Distributor (August '08 vintage) whether this object needs to be freshly regenerated on  each use. reinitialize_for_new_input(...) from builtins.PyCapsule reinitialize_for_new_input(rosetta.protocols.moves.Mover) -> bool   Inform the Job Distributor (August '08 vintage) whether this object needs to be regenerated when the input  pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for  that one input pose). reset_status(...) from builtins.PyCapsule reset_status(rosetta.protocols.moves.Mover) -> NoneType   resets status to SUCCESS, meant to be used before an apply().  The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s. set_current_job(...) from builtins.PyCapsule set_current_job(self : rosetta.protocols.moves.Mover, job : protocols::jobdist::BasicJob) -> NoneType   ////////////////////////////end Job Distributor interface//////////////////////////////////////// set_current_tag(...) from builtins.PyCapsule set_current_tag(self : rosetta.protocols.moves.Mover, new_tag : str) -> NoneType set_input_pose(...) from builtins.PyCapsule set_input_pose(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   setter for poses contained for rms set_native_pose(...) from builtins.PyCapsule set_native_pose(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   setter for native poses contained for rms ---- we should get rid of this method? it is widely used, but a bit unsafe set_type(...) from builtins.PyCapsule set_type(self : rosetta.protocols.moves.Mover, setting : str) -> NoneType test_move(...) from builtins.PyCapsule test_move(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   : Unit test support function.  Apply one move to a given pose.       Allows extra test specific functions to be called before applying type(...) from builtins.PyCapsule type(*args, **kwargs) Overloaded function.   1. type(rosetta.protocols.moves.Mover) -> str   2. type(self : rosetta.protocols.moves.Mover, type_in : str) -> NoneType   class AdditionalOutputWrapperCreator(rosetta.protocols.moves.MoverCreator)       Method resolution order: AdditionalOutputWrapperCreator rosetta.protocols.moves.MoverCreator builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(handle) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.rosetta_scripts.AdditionalOutputWrapperCreator,  : rosetta.protocols.rosetta_scripts.AdditionalOutputWrapperCreator) -> rosetta.protocols.rosetta_scripts.AdditionalOutputWrapperCreator create_mover(...) from builtins.PyCapsule create_mover(rosetta.protocols.rosetta_scripts.AdditionalOutputWrapperCreator) -> rosetta.protocols.moves.Mover keyname(...) from builtins.PyCapsule keyname(rosetta.protocols.rosetta_scripts.AdditionalOutputWrapperCreator) -> str mover_name(...) from builtins.PyCapsule mover_name() -> str   class MultipleOutputWrapper(rosetta.protocols.moves.Mover)       Method resolution order: MultipleOutputWrapper rosetta.protocols.moves.Mover builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(handle) -> NoneType   2. __init__(handle, rosetta.protocols.rosetta_scripts.MultipleOutputWrapper) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. apply(...) from builtins.PyCapsule apply(self : rosetta.protocols.rosetta_scripts.MultipleOutputWrapper, pose : rosetta.core.pose.Pose) -> NoneType assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.rosetta_scripts.MultipleOutputWrapper,  : rosetta.protocols.rosetta_scripts.MultipleOutputWrapper) -> rosetta.protocols.rosetta_scripts.MultipleOutputWrapper clone(...) from builtins.PyCapsule clone(rosetta.protocols.rosetta_scripts.MultipleOutputWrapper) -> rosetta.protocols.moves.Mover fresh_instance(...) from builtins.PyCapsule fresh_instance(rosetta.protocols.rosetta_scripts.MultipleOutputWrapper) -> rosetta.protocols.moves.Mover get_additional_output(...) from builtins.PyCapsule get_additional_output(rosetta.protocols.rosetta_scripts.MultipleOutputWrapper) -> rosetta.core.pose.Pose get_name(...) from builtins.PyCapsule get_name(rosetta.protocols.rosetta_scripts.MultipleOutputWrapper) -> str Methods inherited from rosetta.protocols.moves.Mover: clear_info(...) from builtins.PyCapsule clear_info(rosetta.protocols.moves.Mover) -> NoneType   Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.      clear_info is called by jd2 before calling apply create(...) from builtins.PyCapsule create(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover get_current_job(...) from builtins.PyCapsule get_current_job(rosetta.protocols.moves.Mover) -> protocols::jobdist::BasicJob get_current_tag(...) from builtins.PyCapsule get_current_tag(rosetta.protocols.moves.Mover) -> str   A tag is a unique identifier used to identify structures produced  by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag )  sets the tag.  This functionality is not intended for use with the 2008 job distributor. get_input_pose(...) from builtins.PyCapsule get_input_pose(rosetta.protocols.moves.Mover) -> rosetta.core.pose.Pose get_last_move_status(...) from builtins.PyCapsule get_last_move_status(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.MoverStatus   returns status after an apply().  The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say "that run was no good, skip it" then use the protected last_move_status(MoverStatus) to change the value that this function will return. get_native_pose(...) from builtins.PyCapsule get_native_pose(rosetta.protocols.moves.Mover) -> rosetta.core.pose.Pose get_self_ptr(...) from builtins.PyCapsule get_self_ptr(*args, **kwargs) Overloaded function.   1. get_self_ptr(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover   2. get_self_ptr(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover get_self_weak_ptr(...) from builtins.PyCapsule get_self_weak_ptr(*args, **kwargs) Overloaded function.   1. get_self_weak_ptr(rosetta.protocols.moves.Mover) -> rosetta.std.weak_ptr_const_protocols_moves_Mover_t   2. get_self_weak_ptr(rosetta.protocols.moves.Mover) -> rosetta.std.weak_ptr_protocols_moves_Mover_t get_type(...) from builtins.PyCapsule get_type(rosetta.protocols.moves.Mover) -> str info(...) from builtins.PyCapsule info(*args, **kwargs) Overloaded function.   1. info(rosetta.protocols.moves.Mover) -> rosetta.std.list_std_string_std_allocator_std_string_t   non-const accessor   2. info(rosetta.protocols.moves.Mover) -> rosetta.std.list_std_string_std_allocator_std_string_t   const accessor last_proposal_density_ratio(...) from builtins.PyCapsule last_proposal_density_ratio(rosetta.protocols.moves.Mover) -> float name(...) from builtins.PyCapsule name() -> str register_options(...) from builtins.PyCapsule register_options(*args, **kwargs) Overloaded function.   1. register_options() -> NoneType   Overload this static method if you access options within the mover.      These options will end up in -help of your application if users of this mover call register_options.  Do this recursively!  If you use movers within your mover, call their register_options in your register_options() method.   2. register_options() -> NoneType   3. register_options() -> NoneType   4. register_options() -> NoneType   5. register_options() -> NoneType   6. register_options() -> NoneType   7. register_options() -> NoneType   8. register_options() -> NoneType   9. register_options() -> NoneType   Associates relevant options with the AntibodyModeler class   10. register_options() -> NoneType   Associates relevant options with the AntibodyModeler class   11. register_options() -> NoneType   Associates relevant options with the SnugDock class   12. register_options() -> NoneType   Associates relevant options with the SnugDockProtocol class   13. register_options() -> NoneType   Register the options used by this mover with the global options  system.   14. register_options() -> NoneType   15. register_options() -> NoneType   Associate relevant options with the TemperedDocking class.   16. register_options() -> NoneType   17. register_options() -> NoneType   18. register_options() -> NoneType   Associates relevant options with the TemperedDocking class.   19. register_options() -> NoneType   20. register_options() -> NoneType   Associates relevant options with the ConstraintSetMover class   21. register_options() -> NoneType   22. register_options() -> NoneType   Associates relevant options with the DockingInitialPerturbation class   23. register_options() -> NoneType   Associates relevant options with the DockingProtocol class   24. register_options() -> NoneType   Associates relevant options with the TemperedDocking class   25. register_options() -> NoneType   26. register_options() -> NoneType   27. register_options() -> NoneType   28. register_options() -> NoneType   register options   29. register_options() -> NoneType   30. register_options() -> NoneType   Registers applicable options   31. register_options() -> NoneType   Register options with the option system.   32. register_options() -> NoneType   33. register_options() -> NoneType   34. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   35. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycleContainer class   36. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   37. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   38. register_options() -> NoneType   39. register_options() -> NoneType   Register options with the option system.   40. register_options() -> NoneType reinitialize_for_each_job(...) from builtins.PyCapsule reinitialize_for_each_job(rosetta.protocols.moves.Mover) -> bool   Inform the Job Distributor (August '08 vintage) whether this object needs to be freshly regenerated on  each use. reinitialize_for_new_input(...) from builtins.PyCapsule reinitialize_for_new_input(rosetta.protocols.moves.Mover) -> bool   Inform the Job Distributor (August '08 vintage) whether this object needs to be regenerated when the input  pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for  that one input pose). reset_status(...) from builtins.PyCapsule reset_status(rosetta.protocols.moves.Mover) -> NoneType   resets status to SUCCESS, meant to be used before an apply().  The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s. set_current_job(...) from builtins.PyCapsule set_current_job(self : rosetta.protocols.moves.Mover, job : protocols::jobdist::BasicJob) -> NoneType   ////////////////////////////end Job Distributor interface//////////////////////////////////////// set_current_tag(...) from builtins.PyCapsule set_current_tag(self : rosetta.protocols.moves.Mover, new_tag : str) -> NoneType set_input_pose(...) from builtins.PyCapsule set_input_pose(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   setter for poses contained for rms set_native_pose(...) from builtins.PyCapsule set_native_pose(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   setter for native poses contained for rms ---- we should get rid of this method? it is widely used, but a bit unsafe set_type(...) from builtins.PyCapsule set_type(self : rosetta.protocols.moves.Mover, setting : str) -> NoneType test_move(...) from builtins.PyCapsule test_move(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   : Unit test support function.  Apply one move to a given pose.       Allows extra test specific functions to be called before applying type(...) from builtins.PyCapsule type(*args, **kwargs) Overloaded function.   1. type(rosetta.protocols.moves.Mover) -> str   2. type(self : rosetta.protocols.moves.Mover, type_in : str) -> NoneType   class MultipleOutputWrapperCreator(rosetta.protocols.moves.MoverCreator)       Method resolution order: MultipleOutputWrapperCreator rosetta.protocols.moves.MoverCreator builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(handle) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.rosetta_scripts.MultipleOutputWrapperCreator,  : rosetta.protocols.rosetta_scripts.MultipleOutputWrapperCreator) -> rosetta.protocols.rosetta_scripts.MultipleOutputWrapperCreator create_mover(...) from builtins.PyCapsule create_mover(rosetta.protocols.rosetta_scripts.MultipleOutputWrapperCreator) -> rosetta.protocols.moves.Mover keyname(...) from builtins.PyCapsule keyname(rosetta.protocols.rosetta_scripts.MultipleOutputWrapperCreator) -> str mover_name(...) from builtins.PyCapsule mover_name() -> str   class MultiplePoseMover(rosetta.protocols.moves.Mover)       Method resolution order: MultiplePoseMover rosetta.protocols.moves.Mover builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(handle) -> NoneType   2. __init__(handle, rosetta.protocols.rosetta_scripts.MultiplePoseMover) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. apply(...) from builtins.PyCapsule apply(self : rosetta.protocols.rosetta_scripts.MultiplePoseMover, pose : rosetta.core.pose.Pose) -> NoneType clone(...) from builtins.PyCapsule clone(rosetta.protocols.rosetta_scripts.MultiplePoseMover) -> rosetta.protocols.moves.Mover fresh_instance(...) from builtins.PyCapsule fresh_instance(rosetta.protocols.rosetta_scripts.MultiplePoseMover) -> rosetta.protocols.moves.Mover get_additional_output(...) from builtins.PyCapsule get_additional_output(rosetta.protocols.rosetta_scripts.MultiplePoseMover) -> rosetta.core.pose.Pose get_name(...) from builtins.PyCapsule get_name(rosetta.protocols.rosetta_scripts.MultiplePoseMover) -> str set_previous_mover(...) from builtins.PyCapsule set_previous_mover(self : rosetta.protocols.rosetta_scripts.MultiplePoseMover, m : rosetta.protocols.moves.Mover) -> NoneType   Used by RosettaScripts to set the previous mover to pull poses from set_rosetta_scripts_tag(...) from builtins.PyCapsule set_rosetta_scripts_tag(self : rosetta.protocols.rosetta_scripts.MultiplePoseMover, tag : rosetta.utility.tag.Tag) -> NoneType   sets rosettascripts tag Methods inherited from rosetta.protocols.moves.Mover: assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.moves.Mover, other : rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover clear_info(...) from builtins.PyCapsule clear_info(rosetta.protocols.moves.Mover) -> NoneType   Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.      clear_info is called by jd2 before calling apply create(...) from builtins.PyCapsule create(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover get_current_job(...) from builtins.PyCapsule get_current_job(rosetta.protocols.moves.Mover) -> protocols::jobdist::BasicJob get_current_tag(...) from builtins.PyCapsule get_current_tag(rosetta.protocols.moves.Mover) -> str   A tag is a unique identifier used to identify structures produced  by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag )  sets the tag.  This functionality is not intended for use with the 2008 job distributor. get_input_pose(...) from builtins.PyCapsule get_input_pose(rosetta.protocols.moves.Mover) -> rosetta.core.pose.Pose get_last_move_status(...) from builtins.PyCapsule get_last_move_status(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.MoverStatus   returns status after an apply().  The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say "that run was no good, skip it" then use the protected last_move_status(MoverStatus) to change the value that this function will return. get_native_pose(...) from builtins.PyCapsule get_native_pose(rosetta.protocols.moves.Mover) -> rosetta.core.pose.Pose get_self_ptr(...) from builtins.PyCapsule get_self_ptr(*args, **kwargs) Overloaded function.   1. get_self_ptr(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover   2. get_self_ptr(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover get_self_weak_ptr(...) from builtins.PyCapsule get_self_weak_ptr(*args, **kwargs) Overloaded function.   1. get_self_weak_ptr(rosetta.protocols.moves.Mover) -> rosetta.std.weak_ptr_const_protocols_moves_Mover_t   2. get_self_weak_ptr(rosetta.protocols.moves.Mover) -> rosetta.std.weak_ptr_protocols_moves_Mover_t get_type(...) from builtins.PyCapsule get_type(rosetta.protocols.moves.Mover) -> str info(...) from builtins.PyCapsule info(*args, **kwargs) Overloaded function.   1. info(rosetta.protocols.moves.Mover) -> rosetta.std.list_std_string_std_allocator_std_string_t   non-const accessor   2. info(rosetta.protocols.moves.Mover) -> rosetta.std.list_std_string_std_allocator_std_string_t   const accessor last_proposal_density_ratio(...) from builtins.PyCapsule last_proposal_density_ratio(rosetta.protocols.moves.Mover) -> float name(...) from builtins.PyCapsule name() -> str register_options(...) from builtins.PyCapsule register_options(*args, **kwargs) Overloaded function.   1. register_options() -> NoneType   Overload this static method if you access options within the mover.      These options will end up in -help of your application if users of this mover call register_options.  Do this recursively!  If you use movers within your mover, call their register_options in your register_options() method.   2. register_options() -> NoneType   3. register_options() -> NoneType   4. register_options() -> NoneType   5. register_options() -> NoneType   6. register_options() -> NoneType   7. register_options() -> NoneType   8. register_options() -> NoneType   9. register_options() -> NoneType   Associates relevant options with the AntibodyModeler class   10. register_options() -> NoneType   Associates relevant options with the AntibodyModeler class   11. register_options() -> NoneType   Associates relevant options with the SnugDock class   12. register_options() -> NoneType   Associates relevant options with the SnugDockProtocol class   13. register_options() -> NoneType   Register the options used by this mover with the global options  system.   14. register_options() -> NoneType   15. register_options() -> NoneType   Associate relevant options with the TemperedDocking class.   16. register_options() -> NoneType   17. register_options() -> NoneType   18. register_options() -> NoneType   Associates relevant options with the TemperedDocking class.   19. register_options() -> NoneType   20. register_options() -> NoneType   Associates relevant options with the ConstraintSetMover class   21. register_options() -> NoneType   22. register_options() -> NoneType   Associates relevant options with the DockingInitialPerturbation class   23. register_options() -> NoneType   Associates relevant options with the DockingProtocol class   24. register_options() -> NoneType   Associates relevant options with the TemperedDocking class   25. register_options() -> NoneType   26. register_options() -> NoneType   27. register_options() -> NoneType   28. register_options() -> NoneType   register options   29. register_options() -> NoneType   30. register_options() -> NoneType   Registers applicable options   31. register_options() -> NoneType   Register options with the option system.   32. register_options() -> NoneType   33. register_options() -> NoneType   34. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   35. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycleContainer class   36. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   37. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   38. register_options() -> NoneType   39. register_options() -> NoneType   Register options with the option system.   40. register_options() -> NoneType reinitialize_for_each_job(...) from builtins.PyCapsule reinitialize_for_each_job(rosetta.protocols.moves.Mover) -> bool   Inform the Job Distributor (August '08 vintage) whether this object needs to be freshly regenerated on  each use. reinitialize_for_new_input(...) from builtins.PyCapsule reinitialize_for_new_input(rosetta.protocols.moves.Mover) -> bool   Inform the Job Distributor (August '08 vintage) whether this object needs to be regenerated when the input  pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for  that one input pose). reset_status(...) from builtins.PyCapsule reset_status(rosetta.protocols.moves.Mover) -> NoneType   resets status to SUCCESS, meant to be used before an apply().  The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s. set_current_job(...) from builtins.PyCapsule set_current_job(self : rosetta.protocols.moves.Mover, job : protocols::jobdist::BasicJob) -> NoneType   ////////////////////////////end Job Distributor interface//////////////////////////////////////// set_current_tag(...) from builtins.PyCapsule set_current_tag(self : rosetta.protocols.moves.Mover, new_tag : str) -> NoneType set_input_pose(...) from builtins.PyCapsule set_input_pose(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   setter for poses contained for rms set_native_pose(...) from builtins.PyCapsule set_native_pose(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   setter for native poses contained for rms ---- we should get rid of this method? it is widely used, but a bit unsafe set_type(...) from builtins.PyCapsule set_type(self : rosetta.protocols.moves.Mover, setting : str) -> NoneType test_move(...) from builtins.PyCapsule test_move(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   : Unit test support function.  Apply one move to a given pose.       Allows extra test specific functions to be called before applying type(...) from builtins.PyCapsule type(*args, **kwargs) Overloaded function.   1. type(rosetta.protocols.moves.Mover) -> str   2. type(self : rosetta.protocols.moves.Mover, type_in : str) -> NoneType   class MultiplePoseMoverCreator(rosetta.protocols.moves.MoverCreator)       Method resolution order: MultiplePoseMoverCreator rosetta.protocols.moves.MoverCreator builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(handle) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.rosetta_scripts.MultiplePoseMoverCreator,  : rosetta.protocols.rosetta_scripts.MultiplePoseMoverCreator) -> rosetta.protocols.rosetta_scripts.MultiplePoseMoverCreator create_mover(...) from builtins.PyCapsule create_mover(rosetta.protocols.rosetta_scripts.MultiplePoseMoverCreator) -> rosetta.protocols.moves.Mover keyname(...) from builtins.PyCapsule keyname(rosetta.protocols.rosetta_scripts.MultiplePoseMoverCreator) -> str mover_name(...) from builtins.PyCapsule mover_name() -> str   class ParsedProtocol(rosetta.protocols.moves.Mover)       Method resolution order: ParsedProtocol rosetta.protocols.moves.Mover builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(handle) -> NoneType   2. __init__(handle, rosetta.protocols.rosetta_scripts.ParsedProtocol) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. add_mover_filter_pair(...) from builtins.PyCapsule add_mover_filter_pair(*args, **kwargs) Overloaded function.   1. add_mover_filter_pair(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, mover : rosetta.protocols.moves.Mover, mover_name : str, filter : rosetta.protocols.filters.Filter) -> NoneType   Add a mover-filter pair.      Indended for use OUTSIDE of a RosettaScripts context.      Vikram K. Mulligan (vmullig.edu)   2. add_mover_filter_pair(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, mover : rosetta.protocols.moves.Mover, mover_name : str, filter : rosetta.protocols.filters.Filter, report_filter_at_end : bool) -> NoneType   Add a mover-filter pair.      Indended for use OUTSIDE of a RosettaScripts context.      Vikram K. Mulligan (vmullig.edu) add_values_to_job(...) from builtins.PyCapsule add_values_to_job(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, pose : rosetta.core.pose.Pose,  : rosetta.protocols.jd2.Job) -> NoneType apply(...) from builtins.PyCapsule apply(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, pose : rosetta.core.pose.Pose) -> NoneType apply_probability(...) from builtins.PyCapsule apply_probability(*args, **kwargs) Overloaded function.   1. apply_probability(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, a : rosetta.utility.vector1_double) -> NoneType   2. apply_probability(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> rosetta.utility.vector1_double assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.rosetta_scripts.ParsedProtocol,  : rosetta.protocols.rosetta_scripts.ParsedProtocol) -> rosetta.protocols.rosetta_scripts.ParsedProtocol begin(...) from builtins.PyCapsule begin(*args, **kwargs) Overloaded function.   1. begin(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> __gnu_cxx::__normal_iterator<protocols::rosetta_scripts::ParsedProtocol::MoverFilterPair*, std::vector<protocols::rosetta_scripts::ParsedProtocol::MoverFilterPair, std::allocator<protocols::rosetta_scripts::ParsedProtocol::MoverFilterPair> > >   2. begin(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> __gnu_cxx::__normal_iterator<protocols::rosetta_scripts::ParsedProtocol::MoverFilterPair const*, std::vector<protocols::rosetta_scripts::ParsedProtocol::MoverFilterPair, std::allocator<protocols::rosetta_scripts::ParsedProtocol::MoverFilterPair> > > call_order(...) from builtins.PyCapsule call_order(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> str clear(...) from builtins.PyCapsule clear(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> NoneType clone(...) from builtins.PyCapsule clone(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> rosetta.protocols.moves.Mover end(...) from builtins.PyCapsule end(*args, **kwargs) Overloaded function.   1. end(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> __gnu_cxx::__normal_iterator<protocols::rosetta_scripts::ParsedProtocol::MoverFilterPair*, std::vector<protocols::rosetta_scripts::ParsedProtocol::MoverFilterPair, std::allocator<protocols::rosetta_scripts::ParsedProtocol::MoverFilterPair> > >   2. end(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> __gnu_cxx::__normal_iterator<protocols::rosetta_scripts::ParsedProtocol::MoverFilterPair const*, std::vector<protocols::rosetta_scripts::ParsedProtocol::MoverFilterPair, std::allocator<protocols::rosetta_scripts::ParsedProtocol::MoverFilterPair> > > final_score(...) from builtins.PyCapsule final_score(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, pose : rosetta.core.pose.Pose) -> NoneType final_scorefxn(...) from builtins.PyCapsule final_scorefxn(*args, **kwargs) Overloaded function.   1. final_scorefxn(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, scorefxn : rosetta.core.scoring.ScoreFunction) -> NoneType   2. final_scorefxn(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> rosetta.core.scoring.ScoreFunction fresh_instance(...) from builtins.PyCapsule fresh_instance(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> rosetta.protocols.moves.Mover get_additional_output(...) from builtins.PyCapsule get_additional_output(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> rosetta.core.pose.Pose get_mover(...) from builtins.PyCapsule get_mover(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, mover_number : int) -> rosetta.protocols.moves.Mover get_mover_filter_pair(...) from builtins.PyCapsule get_mover_filter_pair(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, mover_number : int) -> protocols::rosetta_scripts::ParsedProtocol::MoverFilterPair get_name(...) from builtins.PyCapsule get_name(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> str last_attempted_mover_idx(...) from builtins.PyCapsule last_attempted_mover_idx(*args, **kwargs) Overloaded function.   1. last_attempted_mover_idx(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> int   2. last_attempted_mover_idx(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, s : int) -> NoneType mode(...) from builtins.PyCapsule mode(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> str report_all(...) from builtins.PyCapsule report_all(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, pose : rosetta.core.pose.Pose) -> NoneType report_call_order(...) from builtins.PyCapsule report_call_order(*args, **kwargs) Overloaded function.   1. report_call_order(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> bool   2. report_call_order(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, c : bool) -> NoneType report_filters_to_job(...) from builtins.PyCapsule report_filters_to_job(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, pose : rosetta.core.pose.Pose) -> NoneType report_filters_to_pose(...) from builtins.PyCapsule report_filters_to_pose(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, pose : rosetta.core.pose.Pose) -> NoneType set_resid(...) from builtins.PyCapsule set_resid(self : rosetta.protocols.rosetta_scripts.ParsedProtocol, resid : int) -> NoneType size(...) from builtins.PyCapsule size(rosetta.protocols.rosetta_scripts.ParsedProtocol) -> int Methods inherited from rosetta.protocols.moves.Mover: clear_info(...) from builtins.PyCapsule clear_info(rosetta.protocols.moves.Mover) -> NoneType   Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.      clear_info is called by jd2 before calling apply create(...) from builtins.PyCapsule create(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover get_current_job(...) from builtins.PyCapsule get_current_job(rosetta.protocols.moves.Mover) -> protocols::jobdist::BasicJob get_current_tag(...) from builtins.PyCapsule get_current_tag(rosetta.protocols.moves.Mover) -> str   A tag is a unique identifier used to identify structures produced  by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag )  sets the tag.  This functionality is not intended for use with the 2008 job distributor. get_input_pose(...) from builtins.PyCapsule get_input_pose(rosetta.protocols.moves.Mover) -> rosetta.core.pose.Pose get_last_move_status(...) from builtins.PyCapsule get_last_move_status(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.MoverStatus   returns status after an apply().  The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say "that run was no good, skip it" then use the protected last_move_status(MoverStatus) to change the value that this function will return. get_native_pose(...) from builtins.PyCapsule get_native_pose(rosetta.protocols.moves.Mover) -> rosetta.core.pose.Pose get_self_ptr(...) from builtins.PyCapsule get_self_ptr(*args, **kwargs) Overloaded function.   1. get_self_ptr(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover   2. get_self_ptr(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover get_self_weak_ptr(...) from builtins.PyCapsule get_self_weak_ptr(*args, **kwargs) Overloaded function.   1. get_self_weak_ptr(rosetta.protocols.moves.Mover) -> rosetta.std.weak_ptr_const_protocols_moves_Mover_t   2. get_self_weak_ptr(rosetta.protocols.moves.Mover) -> rosetta.std.weak_ptr_protocols_moves_Mover_t get_type(...) from builtins.PyCapsule get_type(rosetta.protocols.moves.Mover) -> str info(...) from builtins.PyCapsule info(*args, **kwargs) Overloaded function.   1. info(rosetta.protocols.moves.Mover) -> rosetta.std.list_std_string_std_allocator_std_string_t   non-const accessor   2. info(rosetta.protocols.moves.Mover) -> rosetta.std.list_std_string_std_allocator_std_string_t   const accessor last_proposal_density_ratio(...) from builtins.PyCapsule last_proposal_density_ratio(rosetta.protocols.moves.Mover) -> float name(...) from builtins.PyCapsule name() -> str register_options(...) from builtins.PyCapsule register_options(*args, **kwargs) Overloaded function.   1. register_options() -> NoneType   Overload this static method if you access options within the mover.      These options will end up in -help of your application if users of this mover call register_options.  Do this recursively!  If you use movers within your mover, call their register_options in your register_options() method.   2. register_options() -> NoneType   3. register_options() -> NoneType   4. register_options() -> NoneType   5. register_options() -> NoneType   6. register_options() -> NoneType   7. register_options() -> NoneType   8. register_options() -> NoneType   9. register_options() -> NoneType   Associates relevant options with the AntibodyModeler class   10. register_options() -> NoneType   Associates relevant options with the AntibodyModeler class   11. register_options() -> NoneType   Associates relevant options with the SnugDock class   12. register_options() -> NoneType   Associates relevant options with the SnugDockProtocol class   13. register_options() -> NoneType   Register the options used by this mover with the global options  system.   14. register_options() -> NoneType   15. register_options() -> NoneType   Associate relevant options with the TemperedDocking class.   16. register_options() -> NoneType   17. register_options() -> NoneType   18. register_options() -> NoneType   Associates relevant options with the TemperedDocking class.   19. register_options() -> NoneType   20. register_options() -> NoneType   Associates relevant options with the ConstraintSetMover class   21. register_options() -> NoneType   22. register_options() -> NoneType   Associates relevant options with the DockingInitialPerturbation class   23. register_options() -> NoneType   Associates relevant options with the DockingProtocol class   24. register_options() -> NoneType   Associates relevant options with the TemperedDocking class   25. register_options() -> NoneType   26. register_options() -> NoneType   27. register_options() -> NoneType   28. register_options() -> NoneType   register options   29. register_options() -> NoneType   30. register_options() -> NoneType   Registers applicable options   31. register_options() -> NoneType   Register options with the option system.   32. register_options() -> NoneType   33. register_options() -> NoneType   34. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   35. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycleContainer class   36. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   37. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   38. register_options() -> NoneType   39. register_options() -> NoneType   Register options with the option system.   40. register_options() -> NoneType reinitialize_for_each_job(...) from builtins.PyCapsule reinitialize_for_each_job(rosetta.protocols.moves.Mover) -> bool   Inform the Job Distributor (August '08 vintage) whether this object needs to be freshly regenerated on  each use. reinitialize_for_new_input(...) from builtins.PyCapsule reinitialize_for_new_input(rosetta.protocols.moves.Mover) -> bool   Inform the Job Distributor (August '08 vintage) whether this object needs to be regenerated when the input  pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for  that one input pose). reset_status(...) from builtins.PyCapsule reset_status(rosetta.protocols.moves.Mover) -> NoneType   resets status to SUCCESS, meant to be used before an apply().  The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s. set_current_job(...) from builtins.PyCapsule set_current_job(self : rosetta.protocols.moves.Mover, job : protocols::jobdist::BasicJob) -> NoneType   ////////////////////////////end Job Distributor interface//////////////////////////////////////// set_current_tag(...) from builtins.PyCapsule set_current_tag(self : rosetta.protocols.moves.Mover, new_tag : str) -> NoneType set_input_pose(...) from builtins.PyCapsule set_input_pose(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   setter for poses contained for rms set_native_pose(...) from builtins.PyCapsule set_native_pose(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   setter for native poses contained for rms ---- we should get rid of this method? it is widely used, but a bit unsafe set_type(...) from builtins.PyCapsule set_type(self : rosetta.protocols.moves.Mover, setting : str) -> NoneType test_move(...) from builtins.PyCapsule test_move(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   : Unit test support function.  Apply one move to a given pose.       Allows extra test specific functions to be called before applying type(...) from builtins.PyCapsule type(*args, **kwargs) Overloaded function.   1. type(rosetta.protocols.moves.Mover) -> str   2. type(self : rosetta.protocols.moves.Mover, type_in : str) -> NoneType   class ParsedProtocolCreator(rosetta.protocols.moves.MoverCreator)       Method resolution order: ParsedProtocolCreator rosetta.protocols.moves.MoverCreator builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(handle) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.rosetta_scripts.ParsedProtocolCreator,  : rosetta.protocols.rosetta_scripts.ParsedProtocolCreator) -> rosetta.protocols.rosetta_scripts.ParsedProtocolCreator create_mover(...) from builtins.PyCapsule create_mover(rosetta.protocols.rosetta_scripts.ParsedProtocolCreator) -> rosetta.protocols.moves.Mover keyname(...) from builtins.PyCapsule keyname(rosetta.protocols.rosetta_scripts.ParsedProtocolCreator) -> str mover_name(...) from builtins.PyCapsule mover_name() -> str   class PosePropertyReporter(builtins.object)       Methods defined here: __init__(...) from builtins.PyCapsule __init__(rosetta.protocols.rosetta_scripts.PosePropertyReporter, rosetta.protocols.rosetta_scripts.PosePropertyReporter) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.rosetta_scripts.PosePropertyReporter,  : rosetta.protocols.rosetta_scripts.PosePropertyReporter) -> rosetta.protocols.rosetta_scripts.PosePropertyReporter get_name(...) from builtins.PyCapsule get_name(rosetta.protocols.rosetta_scripts.PosePropertyReporter) -> str   Each derived selector must specify its name name(...) from builtins.PyCapsule name(*args, **kwargs) Overloaded function.   1. name() -> str   2. name() -> str   3. name() -> str   4. name() -> str report_property(...) from builtins.PyCapsule report_property(*args, **kwargs) Overloaded function.   1. report_property(self : rosetta.protocols.rosetta_scripts.PosePropertyReporter, p : rosetta.core.pose.Pose) -> float   Reports a specific property for the provided pose   2. report_property(self : rosetta.protocols.rosetta_scripts.PosePropertyReporter, p1 : rosetta.core.pose.Pose, p2 : rosetta.core.pose.Pose) -> float   Reports a specific property for the combination of two provided poses   class PosePropertyReporterCreator(builtins.object)     Abstract base class for a PosePropertyReporter factory; the Creator class is responsible for creating a particular PosePropertyReporter class.     Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(rosetta.protocols.rosetta_scripts.PosePropertyReporterCreator) -> NoneType   2. __init__(rosetta.protocols.rosetta_scripts.PosePropertyReporterCreator, rosetta.protocols.rosetta_scripts.PosePropertyReporterCreator) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.rosetta_scripts.PosePropertyReporterCreator,  : rosetta.protocols.rosetta_scripts.PosePropertyReporterCreator) -> rosetta.protocols.rosetta_scripts.PosePropertyReporterCreator create_reporter(...) from builtins.PyCapsule create_reporter(rosetta.protocols.rosetta_scripts.PosePropertyReporterCreator) -> rosetta.protocols.rosetta_scripts.PosePropertyReporter keyname(...) from builtins.PyCapsule keyname(rosetta.protocols.rosetta_scripts.PosePropertyReporterCreator) -> str   class PosePropertyReporterFactory(builtins.object)       Methods defined here: __init__(self, /, *args, **kwargs) Initialize self.  See help(type(self)) for accurate signature. __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. factory_register(...) from builtins.PyCapsule factory_register(self : rosetta.protocols.rosetta_scripts.PosePropertyReporterFactory, creator : rosetta.protocols.rosetta_scripts.PosePropertyReporterCreator) -> NoneType get_instance(...) from builtins.PyCapsule get_instance() -> rosetta.protocols.rosetta_scripts.PosePropertyReporterFactory newPosePropertyReporter(...) from builtins.PyCapsule newPosePropertyReporter(self : rosetta.protocols.rosetta_scripts.PosePropertyReporterFactory,  : str) -> rosetta.protocols.rosetta_scripts.PosePropertyReporter   Create a PosePropertyReporter given its identifying string   class PoseSelector(builtins.object)       Methods defined here: __init__(...) from builtins.PyCapsule __init__(rosetta.protocols.rosetta_scripts.PoseSelector, rosetta.protocols.rosetta_scripts.PoseSelector) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.rosetta_scripts.PoseSelector,  : rosetta.protocols.rosetta_scripts.PoseSelector) -> rosetta.protocols.rosetta_scripts.PoseSelector get_flags(...) from builtins.PyCapsule get_flags(rosetta.protocols.rosetta_scripts.PoseSelector) -> rosetta.protocols.rosetta_scripts.PoseSelectorFlags   Report selector flags get_name(...) from builtins.PyCapsule get_name(rosetta.protocols.rosetta_scripts.PoseSelector) -> str   Each derived selector must specify its name name(...) from builtins.PyCapsule name(*args, **kwargs) Overloaded function.   1. name() -> str   2. name() -> str   3. name() -> str   4. name() -> str   5. name() -> str   6. name() -> str   7. name() -> str select_poses(...) from builtins.PyCapsule select_poses(self : rosetta.protocols.rosetta_scripts.PoseSelector, poses : rosetta.utility.vector1_std_shared_ptr_core_pose_Pose_t) -> rosetta.utility.vector1_bool   Select poses from provided vector by applying the selection criteria parsed from Tag   class PoseSelectorCreator(builtins.object)     Abstract base class for a PoseSelector factory; the Creator class is responsible for creating a particular PoseSelector class.     Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(rosetta.protocols.rosetta_scripts.PoseSelectorCreator) -> NoneType   2. __init__(rosetta.protocols.rosetta_scripts.PoseSelectorCreator, rosetta.protocols.rosetta_scripts.PoseSelectorCreator) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.rosetta_scripts.PoseSelectorCreator,  : rosetta.protocols.rosetta_scripts.PoseSelectorCreator) -> rosetta.protocols.rosetta_scripts.PoseSelectorCreator create_selector(...) from builtins.PyCapsule create_selector(rosetta.protocols.rosetta_scripts.PoseSelectorCreator) -> rosetta.protocols.rosetta_scripts.PoseSelector keyname(...) from builtins.PyCapsule keyname(rosetta.protocols.rosetta_scripts.PoseSelectorCreator) -> str   class PoseSelectorFactory(rosetta.utility.SingletonBase_protocols_rosetta_scripts_PoseSelectorFactory_t)       Method resolution order: PoseSelectorFactory rosetta.utility.SingletonBase_protocols_rosetta_scripts_PoseSelectorFactory_t builtins.object Methods defined here: __init__(self, /, *args, **kwargs) Initialize self.  See help(type(self)) for accurate signature. __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. factory_register(...) from builtins.PyCapsule factory_register(self : rosetta.protocols.rosetta_scripts.PoseSelectorFactory, creator : rosetta.protocols.rosetta_scripts.PoseSelectorCreator) -> NoneType newPoseSelector(...) from builtins.PyCapsule newPoseSelector(self : rosetta.protocols.rosetta_scripts.PoseSelectorFactory,  : str) -> rosetta.protocols.rosetta_scripts.PoseSelector   Create a PoseSelector given its identifying string Methods inherited from rosetta.utility.SingletonBase_protocols_rosetta_scripts_PoseSelectorFactory_t: get_instance(...) from builtins.PyCapsule get_instance() -> protocols::rosetta_scripts::PoseSelectorFactory   class PoseSelectorFlags(builtins.object)       Methods defined here: __eq__(...) from builtins.PyCapsule __eq__(rosetta.protocols.rosetta_scripts.PoseSelectorFlags, rosetta.protocols.rosetta_scripts.PoseSelectorFlags) -> bool __hash__(...) from builtins.PyCapsule __hash__(rosetta.protocols.rosetta_scripts.PoseSelectorFlags) -> int __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(rosetta.protocols.rosetta_scripts.PoseSelectorFlags, int) -> NoneType   2. __init__(rosetta.protocols.rosetta_scripts.PoseSelectorFlags, int) -> NoneType __int__(...) from builtins.PyCapsule __int__(rosetta.protocols.rosetta_scripts.PoseSelectorFlags) -> int __ne__(...) from builtins.PyCapsule __ne__(rosetta.protocols.rosetta_scripts.PoseSelectorFlags, rosetta.protocols.rosetta_scripts.PoseSelectorFlags) -> bool __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. __repr__(...) from builtins.PyCapsule __repr__(rosetta.protocols.rosetta_scripts.PoseSelectorFlags) -> str Data and other attributes defined here: PSF_NEED_FULL_POSE_SET = PoseSelectorFlags.PSF_NEED_FULL_POSE_SET PSF_NONE = PoseSelectorFlags.PSF_NONE   class RosettaScriptsParser(rosetta.protocols.jd2.Parser)     Reading the xml file and generating the mover     Method resolution order: RosettaScriptsParser rosetta.protocols.jd2.Parser builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(handle) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.rosetta_scripts.RosettaScriptsParser,  : rosetta.protocols.rosetta_scripts.RosettaScriptsParser) -> rosetta.protocols.rosetta_scripts.RosettaScriptsParser find_rosettascript_tag(...) from builtins.PyCapsule find_rosettascript_tag(self : rosetta.protocols.rosetta_scripts.RosettaScriptsParser, rootTag : rosetta.utility.tag.Tag, section_name : str, option_name : str, option_value : str) -> rosetta.utility.tag.Tag generate_mover_for_protocol(...) from builtins.PyCapsule generate_mover_for_protocol(self : rosetta.protocols.rosetta_scripts.RosettaScriptsParser, pose : rosetta.core.pose.Pose, modified_pose : bool, protocol_tag : rosetta.utility.tag.Tag) -> rosetta.protocols.moves.Mover generate_mover_from_pose(...) from builtins.PyCapsule generate_mover_from_pose(*args, **kwargs) Overloaded function.   1. generate_mover_from_pose(self : rosetta.protocols.rosetta_scripts.RosettaScriptsParser, job : rosetta.protocols.jd2.Job, pose : rosetta.core.pose.Pose, mover : rosetta.protocols.moves.Mover, new_input : bool, xml_fname : str) -> bool   Open the file given by xml_fname and construct a mover representing  the script contained in that file. If new_input is true, run the APPLY_TO_POSE  block on the input mover.  If both new_input and guarantee_new_mover are false,  then the input mover is considered up-to-date and the file is not re-read.   2. generate_mover_from_pose(self : rosetta.protocols.rosetta_scripts.RosettaScriptsParser, job : rosetta.protocols.jd2.Job, pose : rosetta.core.pose.Pose, mover : rosetta.protocols.moves.Mover, new_input : bool, xml_fname : str, guarantee_new_mover : bool) -> bool   Open the file given by xml_fname and construct a mover representing  the script contained in that file. If new_input is true, run the APPLY_TO_POSE  block on the input mover.  If both new_input and guarantee_new_mover are false,  then the input mover is considered up-to-date and the file is not re-read. parse_protocol_tag(...) from builtins.PyCapsule parse_protocol_tag(*args, **kwargs) Overloaded function.   1. parse_protocol_tag(self : rosetta.protocols.rosetta_scripts.RosettaScriptsParser, pose : rosetta.core.pose.Pose, protocol_tag : rosetta.utility.tag.Tag) -> rosetta.protocols.moves.Mover   2. parse_protocol_tag(self : rosetta.protocols.rosetta_scripts.RosettaScriptsParser, protocol_tag : rosetta.utility.tag.Tag) -> rosetta.protocols.moves.Mover read_in_and_recursively_replace_includes(...) from builtins.PyCapsule read_in_and_recursively_replace_includes(self : rosetta.protocols.rosetta_scripts.RosettaScriptsParser, filename : str, fin : std::basic_stringstream<char, std::char_traits<char>, std::allocator<char> >, filenames_encountered : rosetta.utility.vector1_std_string) -> NoneType   Actually read in the XML file.  Called recursively to read in XML files that  this XML file includes.  At the end of this operation, fin contains the contents  of the XML file, with all xi:includes replaced with the contents of included XML  files.  Files are opened and closed here.      Note that filenames_encountered is passed by copy rather than by reference  DELIBERATELY.  This is so that it remains a list of parent files, so that only  circular dependencies (attempts to include one's own parent, grandparent, etc.) are  detected.      Vikram K. Mulligan (vmullig.edu) register_factory_prototypes(...) from builtins.PyCapsule register_factory_prototypes(rosetta.protocols.rosetta_scripts.RosettaScriptsParser) -> NoneType Methods inherited from rosetta.protocols.jd2.Parser: generate_mover_from_job(...) from builtins.PyCapsule generate_mover_from_job(*args, **kwargs) Overloaded function.   1. generate_mover_from_job(self : rosetta.protocols.jd2.Parser, job : rosetta.protocols.jd2.Job, pose : rosetta.core.pose.Pose, mover : rosetta.protocols.moves.Mover, new_input : bool) -> NoneType   generate_mover_from_job is the function called by the job  distributor to request a mover.  It is defined in the base class (this  class) and handles unpackaging the job and passes the work to  generate_mover_from_pose.  The pose is repackaged into the JobOP so that  jobs starting off that pose are properly modified.      this is the job we're working on (contains the input pose)      The pose that will be used in this job.      this is a mover pointer reference; the function can choose                  to overwrite the input with a new mover      true if this is different input (a different pose)                  from the last job distributor cycle      is true if the Parser is allowed to rewrite                  the Pose inside the input Job after generate_mover_from_pose has                  modified it.      true if the input mover should be replaced                  reguardless of whether or not new_input is true.   2. generate_mover_from_job(self : rosetta.protocols.jd2.Parser, job : rosetta.protocols.jd2.Job, pose : rosetta.core.pose.Pose, mover : rosetta.protocols.moves.Mover, new_input : bool, allow_job_update : bool) -> NoneType   generate_mover_from_job is the function called by the job  distributor to request a mover.  It is defined in the base class (this  class) and handles unpackaging the job and passes the work to  generate_mover_from_pose.  The pose is repackaged into the JobOP so that  jobs starting off that pose are properly modified.      this is the job we're working on (contains the input pose)      The pose that will be used in this job.      this is a mover pointer reference; the function can choose                  to overwrite the input with a new mover      true if this is different input (a different pose)                  from the last job distributor cycle      is true if the Parser is allowed to rewrite                  the Pose inside the input Job after generate_mover_from_pose has                  modified it.      true if the input mover should be replaced                  reguardless of whether or not new_input is true.   3. generate_mover_from_job(self : rosetta.protocols.jd2.Parser, job : rosetta.protocols.jd2.Job, pose : rosetta.core.pose.Pose, mover : rosetta.protocols.moves.Mover, new_input : bool, allow_job_update : bool, guarantee_new_mover : bool) -> NoneType   generate_mover_from_job is the function called by the job  distributor to request a mover.  It is defined in the base class (this  class) and handles unpackaging the job and passes the work to  generate_mover_from_pose.  The pose is repackaged into the JobOP so that  jobs starting off that pose are properly modified.      this is the job we're working on (contains the input pose)      The pose that will be used in this job.      this is a mover pointer reference; the function can choose                  to overwrite the input with a new mover      true if this is different input (a different pose)                  from the last job distributor cycle      is true if the Parser is allowed to rewrite                  the Pose inside the input Job after generate_mover_from_pose has                  modified it.      true if the input mover should be replaced                  reguardless of whether or not new_input is true.   class SavePoseMover(rosetta.protocols.moves.Mover)     mover that can be used to save or restore a pose at an arbitrary point during a rosetta scripts protocol. other movers or filters can be set up to access poses saved by this mover during their apply calls.     Method resolution order: SavePoseMover rosetta.protocols.moves.Mover builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(handle) -> NoneType   2. __init__(handle, rosetta.protocols.rosetta_scripts.SavePoseMover) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. apply(...) from builtins.PyCapsule apply(self : rosetta.protocols.rosetta_scripts.SavePoseMover, pose : rosetta.core.pose.Pose) -> NoneType assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.rosetta_scripts.SavePoseMover,  : rosetta.protocols.rosetta_scripts.SavePoseMover) -> rosetta.protocols.rosetta_scripts.SavePoseMover clone(...) from builtins.PyCapsule clone(rosetta.protocols.rosetta_scripts.SavePoseMover) -> rosetta.protocols.moves.Mover fresh_instance(...) from builtins.PyCapsule fresh_instance(rosetta.protocols.rosetta_scripts.SavePoseMover) -> rosetta.protocols.moves.Mover get_name(...) from builtins.PyCapsule get_name(rosetta.protocols.rosetta_scripts.SavePoseMover) -> str Methods inherited from rosetta.protocols.moves.Mover: clear_info(...) from builtins.PyCapsule clear_info(rosetta.protocols.moves.Mover) -> NoneType   Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.      clear_info is called by jd2 before calling apply create(...) from builtins.PyCapsule create(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover get_additional_output(...) from builtins.PyCapsule get_additional_output(rosetta.protocols.moves.Mover) -> rosetta.core.pose.Pose   fpd      Mechanism by which a mover may return multiple output poses from a single input pose. get_current_job(...) from builtins.PyCapsule get_current_job(rosetta.protocols.moves.Mover) -> protocols::jobdist::BasicJob get_current_tag(...) from builtins.PyCapsule get_current_tag(rosetta.protocols.moves.Mover) -> str   A tag is a unique identifier used to identify structures produced  by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag )  sets the tag.  This functionality is not intended for use with the 2008 job distributor. get_input_pose(...) from builtins.PyCapsule get_input_pose(rosetta.protocols.moves.Mover) -> rosetta.core.pose.Pose get_last_move_status(...) from builtins.PyCapsule get_last_move_status(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.MoverStatus   returns status after an apply().  The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say "that run was no good, skip it" then use the protected last_move_status(MoverStatus) to change the value that this function will return. get_native_pose(...) from builtins.PyCapsule get_native_pose(rosetta.protocols.moves.Mover) -> rosetta.core.pose.Pose get_self_ptr(...) from builtins.PyCapsule get_self_ptr(*args, **kwargs) Overloaded function.   1. get_self_ptr(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover   2. get_self_ptr(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover get_self_weak_ptr(...) from builtins.PyCapsule get_self_weak_ptr(*args, **kwargs) Overloaded function.   1. get_self_weak_ptr(rosetta.protocols.moves.Mover) -> rosetta.std.weak_ptr_const_protocols_moves_Mover_t   2. get_self_weak_ptr(rosetta.protocols.moves.Mover) -> rosetta.std.weak_ptr_protocols_moves_Mover_t get_type(...) from builtins.PyCapsule get_type(rosetta.protocols.moves.Mover) -> str info(...) from builtins.PyCapsule info(*args, **kwargs) Overloaded function.   1. info(rosetta.protocols.moves.Mover) -> rosetta.std.list_std_string_std_allocator_std_string_t   non-const accessor   2. info(rosetta.protocols.moves.Mover) -> rosetta.std.list_std_string_std_allocator_std_string_t   const accessor last_proposal_density_ratio(...) from builtins.PyCapsule last_proposal_density_ratio(rosetta.protocols.moves.Mover) -> float name(...) from builtins.PyCapsule name() -> str register_options(...) from builtins.PyCapsule register_options(*args, **kwargs) Overloaded function.   1. register_options() -> NoneType   Overload this static method if you access options within the mover.      These options will end up in -help of your application if users of this mover call register_options.  Do this recursively!  If you use movers within your mover, call their register_options in your register_options() method.   2. register_options() -> NoneType   3. register_options() -> NoneType   4. register_options() -> NoneType   5. register_options() -> NoneType   6. register_options() -> NoneType   7. register_options() -> NoneType   8. register_options() -> NoneType   9. register_options() -> NoneType   Associates relevant options with the AntibodyModeler class   10. register_options() -> NoneType   Associates relevant options with the AntibodyModeler class   11. register_options() -> NoneType   Associates relevant options with the SnugDock class   12. register_options() -> NoneType   Associates relevant options with the SnugDockProtocol class   13. register_options() -> NoneType   Register the options used by this mover with the global options  system.   14. register_options() -> NoneType   15. register_options() -> NoneType   Associate relevant options with the TemperedDocking class.   16. register_options() -> NoneType   17. register_options() -> NoneType   18. register_options() -> NoneType   Associates relevant options with the TemperedDocking class.   19. register_options() -> NoneType   20. register_options() -> NoneType   Associates relevant options with the ConstraintSetMover class   21. register_options() -> NoneType   22. register_options() -> NoneType   Associates relevant options with the DockingInitialPerturbation class   23. register_options() -> NoneType   Associates relevant options with the DockingProtocol class   24. register_options() -> NoneType   Associates relevant options with the TemperedDocking class   25. register_options() -> NoneType   26. register_options() -> NoneType   27. register_options() -> NoneType   28. register_options() -> NoneType   register options   29. register_options() -> NoneType   30. register_options() -> NoneType   Registers applicable options   31. register_options() -> NoneType   Register options with the option system.   32. register_options() -> NoneType   33. register_options() -> NoneType   34. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   35. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycleContainer class   36. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   37. register_options() -> NoneType   Associates relevant options with the LoopRefineInnerCycle class   38. register_options() -> NoneType   39. register_options() -> NoneType   Register options with the option system.   40. register_options() -> NoneType reinitialize_for_each_job(...) from builtins.PyCapsule reinitialize_for_each_job(rosetta.protocols.moves.Mover) -> bool   Inform the Job Distributor (August '08 vintage) whether this object needs to be freshly regenerated on  each use. reinitialize_for_new_input(...) from builtins.PyCapsule reinitialize_for_new_input(rosetta.protocols.moves.Mover) -> bool   Inform the Job Distributor (August '08 vintage) whether this object needs to be regenerated when the input  pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for  that one input pose). reset_status(...) from builtins.PyCapsule reset_status(rosetta.protocols.moves.Mover) -> NoneType   resets status to SUCCESS, meant to be used before an apply().  The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s. set_current_job(...) from builtins.PyCapsule set_current_job(self : rosetta.protocols.moves.Mover, job : protocols::jobdist::BasicJob) -> NoneType   ////////////////////////////end Job Distributor interface//////////////////////////////////////// set_current_tag(...) from builtins.PyCapsule set_current_tag(self : rosetta.protocols.moves.Mover, new_tag : str) -> NoneType set_input_pose(...) from builtins.PyCapsule set_input_pose(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   setter for poses contained for rms set_native_pose(...) from builtins.PyCapsule set_native_pose(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   setter for native poses contained for rms ---- we should get rid of this method? it is widely used, but a bit unsafe set_type(...) from builtins.PyCapsule set_type(self : rosetta.protocols.moves.Mover, setting : str) -> NoneType test_move(...) from builtins.PyCapsule test_move(self : rosetta.protocols.moves.Mover, pose : rosetta.core.pose.Pose) -> NoneType   : Unit test support function.  Apply one move to a given pose.       Allows extra test specific functions to be called before applying type(...) from builtins.PyCapsule type(*args, **kwargs) Overloaded function.   1. type(rosetta.protocols.moves.Mover) -> str   2. type(self : rosetta.protocols.moves.Mover, type_in : str) -> NoneType   class SavePoseMoverCreator(rosetta.protocols.moves.MoverCreator)       Method resolution order: SavePoseMoverCreator rosetta.protocols.moves.MoverCreator builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(handle) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.rosetta_scripts.SavePoseMoverCreator,  : rosetta.protocols.rosetta_scripts.SavePoseMoverCreator) -> rosetta.protocols.rosetta_scripts.SavePoseMoverCreator create_mover(...) from builtins.PyCapsule create_mover(rosetta.protocols.rosetta_scripts.SavePoseMoverCreator) -> rosetta.protocols.moves.Mover keyname(...) from builtins.PyCapsule keyname(rosetta.protocols.rosetta_scripts.SavePoseMoverCreator) -> str mover_name(...) from builtins.PyCapsule mover_name() -> str

Functions
		add_movemaps_to_datamap(...) method of builtins.PyCapsule instance add_movemaps_to_datamap(*args, **kwargs) Overloaded function.   1. add_movemaps_to_datamap(in_tag : rosetta.utility.tag.Tag, pose : rosetta.core.pose.Pose, data : rosetta.basic.datacache.DataMap) -> NoneType   Parses in_tag, adding any MoveMaps specified in branches with names to the datamap for use after.  Skips any mm names that are already loaded.  This should allow multiple MoveMaps to be specified and loaded in a mover.   2. add_movemaps_to_datamap(in_tag : rosetta.utility.tag.Tag, pose : rosetta.core.pose.Pose, data : rosetta.basic.datacache.DataMap, initialize_mm_as_true : bool) -> NoneType   Parses in_tag, adding any MoveMaps specified in branches with names to the datamap for use after.  Skips any mm names that are already loaded.  This should allow multiple MoveMaps to be specified and loaded in a mover. append_subelement_for_parse_movemap(...) method of builtins.PyCapsule instance append_subelement_for_parse_movemap(xsd : rosetta.utility.tag.XMLSchemaDefinition, subelements : rosetta.utility.tag.XMLSchemaSimpleSubelementList) -> NoneType   Adds a subelement to an input subelement list describing a MoveMap subtag  that will be used by the parse_movemap function that does not take a DataMap parameter. append_subelement_for_parse_movemap_w_datamap(...) method of builtins.PyCapsule instance append_subelement_for_parse_movemap_w_datamap(xsd : rosetta.utility.tag.XMLSchemaDefinition, subelements : rosetta.utility.tag.XMLSchemaSimpleSubelementList) -> NoneType   Adds a subelement to an input subelement list describing a MoveMap subtag  that will be used by the parse_movemap function that takes a DataMap parameter. attributes_for_get_task_operations(...) method of builtins.PyCapsule instance attributes_for_get_task_operations(attributes : rosetta.std.list_utility_tag_XMLSchemaAttribute_std_allocator_utility_tag_XMLSchemaAttribute_t) -> NoneType   Appends the attributes read by get_task_operations which behaves just  like parse_task_operations (but doesn't rely on it for some unknowable reason) attributes_for_parse_score_function(...) method of builtins.PyCapsule instance attributes_for_parse_score_function(*args, **kwargs) Overloaded function.   1. attributes_for_parse_score_function(attributes : rosetta.std.list_utility_tag_XMLSchemaAttribute_std_allocator_utility_tag_XMLSchemaAttribute_t) -> NoneType   Appends the attributes read by parse_score_function   2. attributes_for_parse_score_function(attributes : rosetta.std.list_utility_tag_XMLSchemaAttribute_std_allocator_utility_tag_XMLSchemaAttribute_t, sfxn_option_name : str) -> NoneType   Appends the attributes read by parse_score_function w/ name argument attributes_for_parse_task_operations(...) method of builtins.PyCapsule instance attributes_for_parse_task_operations(attributes : rosetta.std.list_utility_tag_XMLSchemaAttribute_std_allocator_utility_tag_XMLSchemaAttribute_t) -> NoneType   Appends the attributes read by parse_task_operations attributes_for_parse_task_operations_w_factory(...) method of builtins.PyCapsule instance attributes_for_parse_task_operations_w_factory(attributes : rosetta.std.list_utility_tag_XMLSchemaAttribute_std_allocator_utility_tag_XMLSchemaAttribute_t) -> NoneType   Appends the attributes read by parse_task_operations when handed a TaskFactory find_nearest_disulfide(...) method of builtins.PyCapsule instance find_nearest_disulfide(pose : rosetta.core.pose.Pose, res : int) -> int   finds the nearest disulife to given residue on pose by searching both up and down stream to the given postion find_nearest_res(...) method of builtins.PyCapsule instance find_nearest_res(*args, **kwargs) Overloaded function.   1. find_nearest_res(source : rosetta.core.pose.Pose, target : rosetta.core.pose.Pose, res : int) -> int   find source residue that is nearest to res on source. If distance is greater than 2.0A, return 0. chain=0, search all chains, chain=1,2,3 etc. search only that chain   2. find_nearest_res(source : rosetta.core.pose.Pose, target : rosetta.core.pose.Pose, res : int, chain : int) -> int   find source residue that is nearest to res on source. If distance is greater than 2.0A, return 0. chain=0, search all chains, chain=1,2,3 etc. search only that chain   3. find_nearest_res(source : rosetta.core.pose.Pose, target : rosetta.core.pose.Pose, res : int, target_res : int, dist : float) -> NoneType   find nearest residue and also return the distance   4. find_nearest_res(source : rosetta.core.pose.Pose, target : rosetta.core.pose.Pose, res : int, target_res : int, dist : float, chain : int) -> NoneType   find nearest residue and also return the distance get_residue_selector(...) method of builtins.PyCapsule instance get_residue_selector(selector_name : str, data : rosetta.basic.datacache.DataMap) -> rosetta.core.select.residue_selector.ResidueSelector   returns a residue selector given a selector's name and datamap      Looks for selector in the datamap           Returns a const ptr to the selector      utility::excn::EXCN_Msg_Exception if selector is not found in datamap get_score_function_name(...) method of builtins.PyCapsule instance get_score_function_name(*args, **kwargs) Overloaded function.   1. get_score_function_name(tag : rosetta.utility.tag.Tag, option_name : str) -> str   Look up the name of assigned score function to the given option. Use this to prevent hard coding default score functions into protocols.   2. get_score_function_name(tag : rosetta.utility.tag.Tag) -> str   Look up the name of assigned score function to the 'scorefxn=' option. Use this to prevent hard coding default score functions into protocols. get_task_operations(...) method of builtins.PyCapsule instance get_task_operations(tag : rosetta.utility.tag.Tag, data : rosetta.basic.datacache.DataMap) -> rosetta.utility.vector1_std_shared_ptr_core_pack_task_operation_TaskOperation_t has_branch(...) method of builtins.PyCapsule instance has_branch(in_tag : rosetta.utility.tag.Tag, branch_name : str) -> bool   Does the tag have a branch of the given name parse_bogus_res_tag(...) method of builtins.PyCapsule instance parse_bogus_res_tag(tag : rosetta.utility.tag.Tag, prefix : str) -> NoneType   Access res_num/pdb_num tag with prefix.  This is to allow parsing at apply time (pdb_num) instead of at parse_my_tag.  This allows one to use SavePoseMovers within a protocol with the correct residue from pdb_num.  This function is to prevent unused variable crash. parse_filter(...) method of builtins.PyCapsule instance parse_filter(filter_name : str, d : rosetta.std.map_std_string_std_shared_ptr_protocols_filters_Filter_t) -> rosetta.protocols.filters.Filter parse_movemap(...) method of builtins.PyCapsule instance parse_movemap(*args, **kwargs) Overloaded function.   1. parse_movemap(in_tag : rosetta.utility.tag.Tag, pose : rosetta.core.pose.Pose, mm : rosetta.core.kinematics.MoveMap,  : rosetta.basic.datacache.DataMap) -> NoneType   variant of parse_movemap that takes in a datamap and searches it for already existing movemaps  Still resets movemap if MoveMap branch not found!   2. parse_movemap(in_tag : rosetta.utility.tag.Tag, pose : rosetta.core.pose.Pose, mm : rosetta.core.kinematics.MoveMap,  : rosetta.basic.datacache.DataMap, reset_movemap : bool) -> NoneType   variant of parse_movemap that takes in a datamap and searches it for already existing movemaps  Still resets movemap if MoveMap branch not found!   3. parse_movemap(in_tag : rosetta.utility.tag.Tag, pose : rosetta.core.pose.Pose, mm : rosetta.core.kinematics.MoveMap) -> NoneType   modifies an existing movemap according to tag  the movemap defaults to move all bb, chi, and jumps.  Still resets movemap if MoveMap branch not found!   4. parse_movemap(in_tag : rosetta.utility.tag.Tag, pose : rosetta.core.pose.Pose, mm : rosetta.core.kinematics.MoveMap, reset_movemap : bool) -> NoneType   modifies an existing movemap according to tag  the movemap defaults to move all bb, chi, and jumps.  Still resets movemap if MoveMap branch not found! parse_residue_selector(...) method of builtins.PyCapsule instance parse_residue_selector(*args, **kwargs) Overloaded function.   1. parse_residue_selector(tag : rosetta.utility.tag.Tag, data : rosetta.basic.datacache.DataMap) -> rosetta.core.select.residue_selector.ResidueSelector   returns a residue selector given a tag and datamap      Looks for "residue_selector" option in tag           If that option isn't found, returns NULL ptr           If that option is found, calls get_residue_selector()      The default option is "residue_selector".  However, this function can be used to  get selectors with other option names if another string is passed for the third parameter.  This is useful in cases with multiple selectors (e.g. "first_selector", "second_selector",  etc.).   2. parse_residue_selector(tag : rosetta.utility.tag.Tag, data : rosetta.basic.datacache.DataMap, option_name : str) -> rosetta.core.select.residue_selector.ResidueSelector   returns a residue selector given a tag and datamap      Looks for "residue_selector" option in tag           If that option isn't found, returns NULL ptr           If that option is found, calls get_residue_selector()      The default option is "residue_selector".  However, this function can be used to  get selectors with other option names if another string is passed for the third parameter.  This is useful in cases with multiple selectors (e.g. "first_selector", "second_selector",  etc.). parse_score_function(...) method of builtins.PyCapsule instance parse_score_function(*args, **kwargs) Overloaded function.   1. parse_score_function(tag : rosetta.utility.tag.Tag, option_name : str, data : rosetta.basic.datacache.DataMap) -> rosetta.core.scoring.ScoreFunction   Look up the score function defined in the <SCOREFXNS/>  through the given option. Defaults to 'commandline'.   2. parse_score_function(tag : rosetta.utility.tag.Tag, option_name : str, data : rosetta.basic.datacache.DataMap, dflt_key : str) -> rosetta.core.scoring.ScoreFunction   Look up the score function defined in the <SCOREFXNS/>  through the given option. Defaults to 'commandline'.   3. parse_score_function(tag : rosetta.utility.tag.Tag, data : rosetta.basic.datacache.DataMap) -> rosetta.core.scoring.ScoreFunction   Look up the score function defined in the <SCOREFXNS/> through the option 'scorefxn='. Defaults to 'commandline'.   4. parse_score_function(tag : rosetta.utility.tag.Tag, data : rosetta.basic.datacache.DataMap, dflt_key : str) -> rosetta.core.scoring.ScoreFunction   Look up the score function defined in the <SCOREFXNS/> through the option 'scorefxn='. Defaults to 'commandline'. parse_task_operations(...) method of builtins.PyCapsule instance parse_task_operations(*args, **kwargs) Overloaded function.   1. parse_task_operations(tag : rosetta.utility.tag.Tag, data : rosetta.basic.datacache.DataMap) -> rosetta.core.pack.task.TaskFactory   2. parse_task_operations(tag : rosetta.utility.tag.Tag, data : rosetta.basic.datacache.DataMap, task_factory : rosetta.core.pack.task.TaskFactory) -> rosetta.core.pack.task.TaskFactory   allows the transfer of whole taskfactories on the datamap. This way a "base" taskfactory can be created, transferred on the datamap, and  individual mover's specific taskoperations can be added on top   3. parse_task_operations(task_list : str, data : rosetta.basic.datacache.DataMap) -> rosetta.core.pack.task.TaskFactory parse_xyz_vector(...) method of builtins.PyCapsule instance parse_xyz_vector(xyz_vector_tag : rosetta.utility.tag.Tag) -> rosetta.numeric.xyzVector_double_t residue_packer_states(...) method of builtins.PyCapsule instance residue_packer_states(pose : rosetta.core.pose.Pose, tf : rosetta.core.pack.task.TaskFactory, designable : bool, packable : bool) -> rosetta.utility.vector1_unsigned_long   returns a vector containing all the residues with a given packer state according to the TF saved_reference_pose(...) method of builtins.PyCapsule instance saved_reference_pose(*args, **kwargs) Overloaded function.   1. saved_reference_pose(in_tag : rosetta.utility.tag.Tag, data_map : rosetta.basic.datacache.DataMap) -> rosetta.core.pose.Pose   convenience function to access pointers to poses that will be stored  in the data map at an arbitrary point during an RS protocol  Will look for tag in in_tag variable   2. saved_reference_pose(in_tag : rosetta.utility.tag.Tag, data_map : rosetta.basic.datacache.DataMap, tag_str : str) -> rosetta.core.pose.Pose   convenience function to access pointers to poses that will be stored  in the data map at an arbitrary point during an RS protocol  Will look for tag in in_tag variable

Data
		PSF_NEED_FULL_POSE_SET = PoseSelectorFlags.PSF_NEED_FULL_POSE_SET PSF_NONE = PoseSelectorFlags.PSF_NONE