| | |
- builtins.object
-
- MatchResidues
-
- MatchResiduesMover
- ResiduePair
- rosetta.core.pose.metrics.StructureDependentCalculator(rosetta.core.pose.metrics.PoseMetricCalculator)
-
- NcontactsCalculator
- rosetta.protocols.constraint_generator.ConstraintGenerator(builtins.object)
-
- SheetConstraintGenerator
- rosetta.protocols.constraint_generator.ConstraintGeneratorCreator(builtins.object)
-
- SheetConstraintGeneratorCreator
- rosetta.protocols.forge.remodel.RemodelConstraintGenerator(rosetta.protocols.moves.Mover)
-
- SheetRemodelConstraintGenerator
- rosetta.protocols.moves.Mover(builtins.object)
-
- BluePrintBDR
- CircularPermutation
- rosetta.protocols.moves.MoverCreator(builtins.object)
-
- BluePrintBDRCreator
- CircularPermutationCreator
- MatchResiduesMoverCreator
- SheetRemodelConstraintGeneratorCreator
class BluePrintBDR(rosetta.protocols.moves.Mover) |
| | |
- Method resolution order:
- BluePrintBDR
- 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, str) -> NoneType
doc
3. __init__(self : handle, filename : str, ss_from_blueprint : bool) -> NoneType
4. __init__(handle, protocols::jd2::parser::BluePrint) -> NoneType
doc
5. __init__(self : handle, blueprintOP : protocols::jd2::parser::BluePrint, ss_from_blueprint : bool) -> NoneType
6. __init__(handle, rosetta.protocols.fldsgn.BluePrintBDR) -> NoneType
- __new__(*args, **kwargs) from builtins.type
- Create and return a new object. See help(type) for accurate signature.
- add_instruction(...) from builtins.PyCapsule
- add_instruction(self : rosetta.protocols.fldsgn.BluePrintBDR, bi : protocols::forge::build::BuildInstruction) -> NoneType
add instruction to the manager of this BluePrintBDR (no copy)
BuildInstruction
The allowed amino acid sequence
during design. Only applicable to BuildInstructions like
SegmentRebuild and SegmentInsert. Make sure the length of this
string matches up properly, and remember to use any special characters,
e.g. the insertion character for SegmentInsert
- apply(...) from builtins.PyCapsule
- apply(self : rosetta.protocols.fldsgn.BluePrintBDR, pose : rosetta.core.pose.Pose) -> NoneType
apply defined moves to given Pose
- clone(...) from builtins.PyCapsule
- clone(rosetta.protocols.fldsgn.BluePrintBDR) -> rosetta.protocols.moves.Mover
clone this object
- create_directed_dependency(...) from builtins.PyCapsule
- create_directed_dependency(self : rosetta.protocols.fldsgn.BluePrintBDR, u : protocols::forge::build::BuildInstruction, v : protocols::forge::build::BuildInstruction) -> NoneType
create directed dependency between two instructions
- dump_pdb_when_fail(...) from builtins.PyCapsule
- dump_pdb_when_fail(self : rosetta.protocols.fldsgn.BluePrintBDR, dump_pdb_when_fail : str) -> NoneType
dump pdb when this protocol failed
- fresh_instance(...) from builtins.PyCapsule
- fresh_instance(rosetta.protocols.fldsgn.BluePrintBDR) -> rosetta.protocols.moves.Mover
create this type of object
- get_name(...) from builtins.PyCapsule
- get_name(rosetta.protocols.fldsgn.BluePrintBDR) -> str
- instruction_size(...) from builtins.PyCapsule
- instruction_size(rosetta.protocols.fldsgn.BluePrintBDR) -> int
/
- is_initialized(...) from builtins.PyCapsule
- is_initialized(rosetta.protocols.fldsgn.BluePrintBDR) -> bool
define secondary structrue by blueprint
- loop_mover_str(...) from builtins.PyCapsule
- loop_mover_str(*args, **kwargs)
Overloaded function.
1. loop_mover_str(rosetta.protocols.fldsgn.BluePrintBDR) -> str
the loop mover string to use during centroid build
(default "RemodelLoopMover")
set to either a string the create_loop_mover() LoopMoverFactory
recognizes or the "RemodelLoopMover"
2. loop_mover_str(self : rosetta.protocols.fldsgn.BluePrintBDR, loop_mover_str : str) -> NoneType
the loop mover string to use during centroid build
set to either a string the create_loop_mover() LoopMoverFactory
recognizes or the "RemodelLoopMover"
- max_linear_chainbreak(...) from builtins.PyCapsule
- max_linear_chainbreak(*args, **kwargs)
Overloaded function.
1. max_linear_chainbreak(rosetta.protocols.fldsgn.BluePrintBDR) -> float
the maximum allowed linear chainbreak (default 0.07)
2. max_linear_chainbreak(self : rosetta.protocols.fldsgn.BluePrintBDR, threshold : float) -> NoneType
the maximum allowed linear chainbreak
- num_fragpick(...) from builtins.PyCapsule
- num_fragpick(*args, **kwargs)
Overloaded function.
1. num_fragpick(rosetta.protocols.fldsgn.BluePrintBDR) -> int
the number of fragments to pick at each position
2. num_fragpick(self : rosetta.protocols.fldsgn.BluePrintBDR, num : int) -> NoneType
the number of fragments to pick at each position
- scorefunction(...) from builtins.PyCapsule
- scorefunction(*args, **kwargs)
Overloaded function.
1. scorefunction(rosetta.protocols.fldsgn.BluePrintBDR) -> rosetta.core.scoring.ScoreFunction
the centroid level score function, default "fldsgn_cen"
2. scorefunction(self : rosetta.protocols.fldsgn.BluePrintBDR, sfx : rosetta.core.scoring.ScoreFunction) -> NoneType
set the centroid level score function
3. scorefunction(self : rosetta.protocols.fldsgn.BluePrintBDR, sfx : rosetta.core.scoring.ScoreFunction) -> NoneType
set the centroid level score function
- set_blueprint(...) from builtins.PyCapsule
- set_blueprint(*args, **kwargs)
Overloaded function.
1. set_blueprint(self : rosetta.protocols.fldsgn.BluePrintBDR, filename : str) -> NoneType
set blueprint file by filename
2. set_blueprint(self : rosetta.protocols.fldsgn.BluePrintBDR, blp : protocols::jd2::parser::BluePrint) -> NoneType
set blueprint file
- set_constraint_file(...) from builtins.PyCapsule
- set_constraint_file(self : rosetta.protocols.fldsgn.BluePrintBDR, constraint_file : str) -> NoneType
set constraint file
- set_constraints_NtoC(...) from builtins.PyCapsule
- set_constraints_NtoC(self : rosetta.protocols.fldsgn.BluePrintBDR, weight : float) -> NoneType
set constraints between N- and C- Ca atoms
- set_rcgs(...) from builtins.PyCapsule
- set_rcgs(self : rosetta.protocols.fldsgn.BluePrintBDR, rcgs : rosetta.utility.vector1_std_shared_ptr_protocols_forge_remodel_RemodelConstraintGenerator_t) -> NoneType
set list of remodel constraint generators
- ss_from_blueprint(...) from builtins.PyCapsule
- ss_from_blueprint(self : rosetta.protocols.fldsgn.BluePrintBDR, flag : bool) -> NoneType
define secondary structrue by blueprint
- use_abego_bias(...) from builtins.PyCapsule
- use_abego_bias(*args, **kwargs)
Overloaded function.
1. use_abego_bias(rosetta.protocols.fldsgn.BluePrintBDR) -> bool
use abego biased fragments when building the loop? (default false)
2. use_abego_bias(self : rosetta.protocols.fldsgn.BluePrintBDR, flag : bool) -> NoneType
use abego biased fragments when building the loop? (default false)
- use_fullmer(...) from builtins.PyCapsule
- use_fullmer(*args, **kwargs)
Overloaded function.
1. use_fullmer(rosetta.protocols.fldsgn.BluePrintBDR) -> bool
use full-mer fragments when building the loop? (default false)
2. use_fullmer(self : rosetta.protocols.fldsgn.BluePrintBDR, flag : bool) -> NoneType
use full-mer fragments when building the loop?
- use_sequence_bias(...) from builtins.PyCapsule
- use_sequence_bias(*args, **kwargs)
Overloaded function.
1. use_sequence_bias(rosetta.protocols.fldsgn.BluePrintBDR) -> bool
use sequence biased fragments when building the loop? (default false)
2. use_sequence_bias(self : rosetta.protocols.fldsgn.BluePrintBDR, flag : bool) -> NoneType
use sequence biased fragments when building the loop? (default false)
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_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 CircularPermutation(rosetta.protocols.moves.Mover) |
| | |
- Method resolution order:
- CircularPermutation
- 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.fldsgn.CircularPermutation) -> 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.fldsgn.CircularPermutation, pose : rosetta.core.pose.Pose) -> NoneType
apply defined moves to given Pose
- clone(...) from builtins.PyCapsule
- clone(rosetta.protocols.fldsgn.CircularPermutation) -> rosetta.protocols.moves.Mover
clone this object
- fresh_instance(...) from builtins.PyCapsule
- fresh_instance(rosetta.protocols.fldsgn.CircularPermutation) -> rosetta.protocols.moves.Mover
create this type of object
- get_name(...) from builtins.PyCapsule
- get_name(rosetta.protocols.fldsgn.CircularPermutation) -> str
- new_terminal_pos(...) from builtins.PyCapsule
- new_terminal_pos(*args, **kwargs)
Overloaded function.
1. new_terminal_pos(rosetta.protocols.fldsgn.CircularPermutation) -> int
2. new_terminal_pos(self : rosetta.protocols.fldsgn.CircularPermutation, s : int) -> NoneType
- split_chains(...) from builtins.PyCapsule
- split_chains(self : rosetta.protocols.fldsgn.CircularPermutation, pose : rosetta.core.pose.Pose, pos : rosetta.utility.vector1_unsigned_long) -> NoneType
- which_chain(...) from builtins.PyCapsule
- which_chain(self : rosetta.protocols.fldsgn.CircularPermutation, s : int, pose : rosetta.core.pose.Pose) -> int
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_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 MatchResidues(builtins.object) |
| | |
Methods defined here:
- __init__(...) from builtins.PyCapsule
- __init__(*args, **kwargs)
Overloaded function.
1. __init__(rosetta.protocols.fldsgn.MatchResidues) -> NoneType
2. __init__(self : rosetta.protocols.fldsgn.MatchResidues, : rosetta.protocols.fldsgn.MatchResidues) -> 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.fldsgn.MatchResidues, : rosetta.protocols.fldsgn.MatchResidues) -> rosetta.protocols.fldsgn.MatchResidues
- compute(...) from builtins.PyCapsule
- compute(self : rosetta.protocols.fldsgn.MatchResidues, pose : rosetta.core.pose.Pose, best_fit : rosetta.utility.vector1_unsigned_long) -> float
- compute_comb(...) from builtins.PyCapsule
- compute_comb(self : rosetta.protocols.fldsgn.MatchResidues, pose : rosetta.core.pose.Pose, comb : rosetta.utility.vector1_unsigned_long) -> float
- superimpose_comb(...) from builtins.PyCapsule
- superimpose_comb(self : rosetta.protocols.fldsgn.MatchResidues, pose : rosetta.core.pose.Pose, comb : rosetta.utility.vector1_unsigned_long) -> float
- threshold(...) from builtins.PyCapsule
- threshold(*args, **kwargs)
Overloaded function.
1. threshold(rosetta.protocols.fldsgn.MatchResidues) -> float
2. threshold(self : rosetta.protocols.fldsgn.MatchResidues, value : float) -> NoneType
|
class MatchResiduesMover(MatchResidues) |
| | |
- Method resolution order:
- MatchResiduesMover
- MatchResidues
- builtins.object
Methods defined here:
- __init__(...) from builtins.PyCapsule
- __init__(*args, **kwargs)
Overloaded function.
1. __init__(handle) -> NoneType
2. __init__(handle, rosetta.protocols.fldsgn.MatchResiduesMover) -> 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.fldsgn.MatchResiduesMover, pose : rosetta.core.pose.Pose) -> NoneType
- assign(...) from builtins.PyCapsule
- assign(self : rosetta.protocols.fldsgn.MatchResiduesMover, : rosetta.protocols.fldsgn.MatchResiduesMover) -> rosetta.protocols.fldsgn.MatchResiduesMover
- clone(...) from builtins.PyCapsule
- clone(rosetta.protocols.fldsgn.MatchResiduesMover) -> rosetta.protocols.moves.Mover
- fresh_instance(...) from builtins.PyCapsule
- fresh_instance(rosetta.protocols.fldsgn.MatchResiduesMover) -> rosetta.protocols.moves.Mover
- get_name(...) from builtins.PyCapsule
- get_name(rosetta.protocols.fldsgn.MatchResiduesMover) -> str
Methods inherited from MatchResidues:
- compute(...) from builtins.PyCapsule
- compute(self : rosetta.protocols.fldsgn.MatchResidues, pose : rosetta.core.pose.Pose, best_fit : rosetta.utility.vector1_unsigned_long) -> float
- compute_comb(...) from builtins.PyCapsule
- compute_comb(self : rosetta.protocols.fldsgn.MatchResidues, pose : rosetta.core.pose.Pose, comb : rosetta.utility.vector1_unsigned_long) -> float
- superimpose_comb(...) from builtins.PyCapsule
- superimpose_comb(self : rosetta.protocols.fldsgn.MatchResidues, pose : rosetta.core.pose.Pose, comb : rosetta.utility.vector1_unsigned_long) -> float
- threshold(...) from builtins.PyCapsule
- threshold(*args, **kwargs)
Overloaded function.
1. threshold(rosetta.protocols.fldsgn.MatchResidues) -> float
2. threshold(self : rosetta.protocols.fldsgn.MatchResidues, value : float) -> NoneType
|
class NcontactsCalculator(rosetta.core.pose.metrics.StructureDependentCalculator) |
| | |
- Method resolution order:
- NcontactsCalculator
- rosetta.core.pose.metrics.StructureDependentCalculator
- rosetta.core.pose.metrics.PoseMetricCalculator
- builtins.object
Methods defined here:
- __init__(...) from builtins.PyCapsule
- __init__(*args, **kwargs)
Overloaded function.
1. __init__(handle) -> NoneType
2. __init__(self : handle, condist : float, isep_sep : int) -> NoneType
3. __init__(handle, rosetta.protocols.fldsgn.NcontactsCalculator) -> 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.fldsgn.NcontactsCalculator, : rosetta.protocols.fldsgn.NcontactsCalculator) -> rosetta.protocols.fldsgn.NcontactsCalculator
- clone(...) from builtins.PyCapsule
- clone(rosetta.protocols.fldsgn.NcontactsCalculator) -> rosetta.core.pose.metrics.PoseMetricCalculator
make clone
- contact_distance(...) from builtins.PyCapsule
- contact_distance(self : rosetta.protocols.fldsgn.NcontactsCalculator, r : float) -> NoneType
set contact distance
- ignore_loops(...) from builtins.PyCapsule
- ignore_loops(self : rosetta.protocols.fldsgn.NcontactsCalculator, b : bool) -> NoneType
ignore loops for calculation
- ignore_same_sheet(...) from builtins.PyCapsule
- ignore_same_sheet(self : rosetta.protocols.fldsgn.NcontactsCalculator, b : bool) -> NoneType
ignore residue pairs of which residue belong to same beta sheet ( default true )
- ignore_same_sselement(...) from builtins.PyCapsule
- ignore_same_sselement(self : rosetta.protocols.fldsgn.NcontactsCalculator, b : bool) -> NoneType
ignore residue pairs of which residue belong to same ss element
- use_only_calpha(...) from builtins.PyCapsule
- use_only_calpha(self : rosetta.protocols.fldsgn.NcontactsCalculator, b : bool) -> NoneType
use only calpha for calculation
Methods inherited from rosetta.core.pose.metrics.StructureDependentCalculator:
- get(...) from builtins.PyCapsule
- get(*args, **kwargs)
Overloaded function.
1. get(self : rosetta.core.pose.metrics.StructureDependentCalculator, key : str, val : rosetta.basic.MetricValueBase, this_pose : rosetta.core.pose.Pose) -> NoneType
2. get(self : rosetta.core.pose.metrics.StructureDependentCalculator, key : str, this_pose : rosetta.core.pose.Pose) -> str
- notify_structure_change(...) from builtins.PyCapsule
- notify_structure_change(rosetta.core.pose.metrics.StructureDependentCalculator) -> NoneType
Methods inherited from rosetta.core.pose.metrics.PoseMetricCalculator:
- notify_energy_change(...) from builtins.PyCapsule
- notify_energy_change(rosetta.core.pose.metrics.PoseMetricCalculator) -> NoneType
|
class SheetConstraintGenerator(rosetta.protocols.constraint_generator.ConstraintGenerator) |
| | |
- Method resolution order:
- SheetConstraintGenerator
- rosetta.protocols.constraint_generator.ConstraintGenerator
- builtins.object
Methods defined here:
- __init__(...) from builtins.PyCapsule
- __init__(*args, **kwargs)
Overloaded function.
1. __init__(handle) -> NoneType
2. __init__(handle, rosetta.protocols.fldsgn.SheetConstraintGenerator) -> 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.fldsgn.SheetConstraintGenerator, pose : rosetta.core.pose.Pose) -> rosetta.utility.vector1_std_shared_ptr_const_core_scoring_constraints_Constraint_t
- assign(...) from builtins.PyCapsule
- assign(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, : rosetta.protocols.fldsgn.SheetConstraintGenerator) -> rosetta.protocols.fldsgn.SheetConstraintGenerator
- clone(...) from builtins.PyCapsule
- clone(rosetta.protocols.fldsgn.SheetConstraintGenerator) -> rosetta.protocols.constraint_generator.ConstraintGenerator
- get_secstruct_and_strandpairings(...) from builtins.PyCapsule
- get_secstruct_and_strandpairings(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, pose : rosetta.core.pose.Pose) -> (str, str)
- initialize_from_blueprint(...) from builtins.PyCapsule
- initialize_from_blueprint(*args, **kwargs)
Overloaded function.
1. initialize_from_blueprint(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, blueprint_file : str) -> NoneType
initialize from a blueprint
2. initialize_from_blueprint(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, bp : protocols::jd2::parser::BluePrint) -> NoneType
- set_angle_tolerance(...) from builtins.PyCapsule
- set_angle_tolerance(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, angle_tolerance : float) -> NoneType
set the flat-bottom tolerance for the backbone angle between strands for each pair
This is N1-C1-C2 and N2-C2-C1 for parallel sheets, and N1-C1-N2/N2-C2-N1 for antiparallel.
- set_bb_dihedral_tolerance(...) from builtins.PyCapsule
- set_bb_dihedral_tolerance(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, dihedral_tolerance : float) -> NoneType
set the flat-bottom tolerance for the backbone dihedrals (0=optimal)
Dihedral 1 = O1-N1-C1-C2, Dihedral 2 = O2-N2-C2-C1
- set_cacb_dihedral_tolerance(...) from builtins.PyCapsule
- set_cacb_dihedral_tolerance(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, dihedral_tolerance : float) -> NoneType
set the flat-bottom tolerance for the Cb1-Ca1-Ca2-Cb2 dihedral angle (0 = optimal)
- set_constrain_bb_angle(...) from builtins.PyCapsule
- set_constrain_bb_angle(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, constrain_angle : bool) -> NoneType
sets whether we should constrain bb angle
- set_constrain_bb_cacb_dihedral(...) from builtins.PyCapsule
- set_constrain_bb_cacb_dihedral(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, constrain_dihedral : bool) -> NoneType
sets whether we should constrain cb_ca_ca_cb dihedrals
- set_constrain_bb_dihedral(...) from builtins.PyCapsule
- set_constrain_bb_dihedral(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, constrain_dihedral : bool) -> NoneType
sets whether we should constrain bb dihedrals
- set_constrain_ca_ca_dist(...) from builtins.PyCapsule
- set_constrain_ca_ca_dist(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, constrain_dist_only : bool) -> NoneType
sets whether we should constrain distance only, and not generate dihedral and angle constraints
- set_distance(...) from builtins.PyCapsule
- set_distance(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, dist : float) -> NoneType
set the maximum Ca-Ca distance between paired residues
- set_distance_tolerance(...) from builtins.PyCapsule
- set_distance_tolerance(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, dist_tol : float) -> NoneType
sets the tolerance for the func to all atom pair constraints
- set_flat_bottom_constraints(...) from builtins.PyCapsule
- set_flat_bottom_constraints(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, flat_csts : bool) -> NoneType
if set, a square-well, "flat bottom" function will be used for the constraints.
Otherwise, harmonic constraints will be used.
- set_secstruct(...) from builtins.PyCapsule
- set_secstruct(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, ss : str) -> NoneType
sets the secondary structure to be used for constraint generation
- set_strand_pairs(...) from builtins.PyCapsule
- set_strand_pairs(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, spairs : str) -> NoneType
sets the strand pair string to be used for constraint generation (e.g. "2-3.P.1" )
means strands 2 and 3 are paired in a parallel orientation with register shift of 1
- set_weight(...) from builtins.PyCapsule
- set_weight(self : rosetta.protocols.fldsgn.SheetConstraintGenerator, coef : float) -> NoneType
set the weight of the sheet constraints
Methods inherited from rosetta.protocols.constraint_generator.ConstraintGenerator:
- class_name(...) from builtins.PyCapsule
- class_name(rosetta.protocols.constraint_generator.ConstraintGenerator) -> str
- clear_stored_constraints(...) from builtins.PyCapsule
- clear_stored_constraints(rosetta.protocols.constraint_generator.ConstraintGenerator) -> NoneType
- id(...) from builtins.PyCapsule
- id(rosetta.protocols.constraint_generator.ConstraintGenerator) -> str
- parse_my_tag(...) from builtins.PyCapsule
- parse_my_tag(self : rosetta.protocols.constraint_generator.ConstraintGenerator, tag : rosetta.utility.tag.Tag, data : rosetta.basic.datacache.DataMap) -> NoneType
parses XML tag -- calls protected parse_tag() function
- retrieve_constraints(...) from builtins.PyCapsule
- retrieve_constraints(rosetta.protocols.constraint_generator.ConstraintGenerator) -> rosetta.utility.vector1_std_shared_ptr_const_core_scoring_constraints_Constraint_t
- set_id(...) from builtins.PyCapsule
- set_id(self : rosetta.protocols.constraint_generator.ConstraintGenerator, id : str) -> NoneType
- store_constraints(...) from builtins.PyCapsule
- store_constraints(self : rosetta.protocols.constraint_generator.ConstraintGenerator, csts : rosetta.utility.vector1_std_shared_ptr_const_core_scoring_constraints_Constraint_t) -> NoneType
|
class SheetRemodelConstraintGenerator(rosetta.protocols.forge.remodel.RemodelConstraintGenerator) |
| |
Remodel constraint generator for adding sheet constraints
|
| |
- Method resolution order:
- SheetRemodelConstraintGenerator
- rosetta.protocols.forge.remodel.RemodelConstraintGenerator
- 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.fldsgn.SheetRemodelConstraintGenerator) -> 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.fldsgn.SheetRemodelConstraintGenerator, : rosetta.protocols.fldsgn.SheetRemodelConstraintGenerator) -> rosetta.protocols.fldsgn.SheetRemodelConstraintGenerator
- class_name(...) from builtins.PyCapsule
- class_name() -> str
- clone(...) from builtins.PyCapsule
- clone(rosetta.protocols.fldsgn.SheetRemodelConstraintGenerator) -> rosetta.protocols.moves.Mover
- get_name(...) from builtins.PyCapsule
- get_name(rosetta.protocols.fldsgn.SheetRemodelConstraintGenerator) -> str
Methods inherited from rosetta.protocols.forge.remodel.RemodelConstraintGenerator:
- add_remodel_constraints_to_pose(...) from builtins.PyCapsule
- add_remodel_constraints_to_pose(self : rosetta.protocols.forge.remodel.RemodelConstraintGenerator, pose : rosetta.core.pose.Pose) -> NoneType
- apply(...) from builtins.PyCapsule
- apply(self : rosetta.protocols.forge.remodel.RemodelConstraintGenerator, pose : rosetta.core.pose.Pose) -> NoneType
generates constraints and adds them to the pose
- constraints(...) from builtins.PyCapsule
- constraints(rosetta.protocols.forge.remodel.RemodelConstraintGenerator) -> rosetta.utility.vector1_std_shared_ptr_const_core_scoring_constraints_Constraint_t
- generate_remodel_constraints(...) from builtins.PyCapsule
- generate_remodel_constraints(self : rosetta.protocols.forge.remodel.RemodelConstraintGenerator, pose : rosetta.core.pose.Pose) -> NoneType
- id(...) from builtins.PyCapsule
- id(rosetta.protocols.forge.remodel.RemodelConstraintGenerator) -> str
- init(...) from builtins.PyCapsule
- init(self : rosetta.protocols.forge.remodel.RemodelConstraintGenerator, : rosetta.core.pose.Pose) -> NoneType
Pose-specific setup routines go here
- lookup_stored_constraints(...) from builtins.PyCapsule
- lookup_stored_constraints(id : str) -> rosetta.utility.vector1_std_shared_ptr_const_core_scoring_constraints_Constraint_t
- remove_remodel_constraints_from_pose(...) from builtins.PyCapsule
- remove_remodel_constraints_from_pose(self : rosetta.protocols.forge.remodel.RemodelConstraintGenerator, pose : rosetta.core.pose.Pose) -> NoneType
- seqmap(...) from builtins.PyCapsule
- seqmap(rosetta.protocols.forge.remodel.RemodelConstraintGenerator) -> rosetta.core.id.SequenceMapping
- set_id(...) from builtins.PyCapsule
- set_id(self : rosetta.protocols.forge.remodel.RemodelConstraintGenerator, id : str) -> NoneType
- set_seqmap(...) from builtins.PyCapsule
- set_seqmap(self : rosetta.protocols.forge.remodel.RemodelConstraintGenerator, seqmap : rosetta.core.id.SequenceMapping) -> NoneType
- set_vlb(...) from builtins.PyCapsule
- set_vlb(self : rosetta.protocols.forge.remodel.RemodelConstraintGenerator, vlb : rosetta.std.weak_ptr_protocols_forge_components_VarLengthBuild_t) -> NoneType
- vlb(...) from builtins.PyCapsule
- vlb(rosetta.protocols.forge.remodel.RemodelConstraintGenerator) -> rosetta.std.weak_ptr_protocols_forge_components_VarLengthBuild_t
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
- fresh_instance(...) from builtins.PyCapsule
- fresh_instance(rosetta.protocols.moves.Mover) -> rosetta.protocols.moves.Mover
Generates a new Mover object freshly created with the default ctor.
- 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
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