remodel

Bindings for protocols::forge::remodel namespace

class pyrosetta.rosetta.protocols.forge.remodel.GenericRemodelConstraintGenerator

Bases: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator

generic remodel constraint generator for use with arbitrary ConstraintGenerators

__delattr__

Implement delattr(self, name).

__dir__() → list

default dir() implementation

__eq__

Return self==value.

__format__()

default object formatter

__ge__

Return self>=value.

__getattribute__

Return getattr(self, name).

__gt__

Return self>value.

__hash__

Return hash(self).

__init__(*args, **kwargs)

Overloaded function.

1. __init__(self: pyrosetta.rosetta.protocols.forge.remodel.GenericRemodelConstraintGenerator, id: str, cg: pyrosetta.rosetta.protocols.constraint_generator.ConstraintGenerator) -> None
2. __init__(self: pyrosetta.rosetta.protocols.forge.remodel.GenericRemodelConstraintGenerator, arg0: pyrosetta.rosetta.protocols.forge.remodel.GenericRemodelConstraintGenerator) -> None

__init_subclass__()

This method is called when a class is subclassed.

The default implementation does nothing. It may be overridden to extend subclasses.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

__new__()

Create and return a new object. See help(type) for accurate signature.

__reduce__()

helper for pickle

__reduce_ex__()

helper for pickle

__repr__

Return repr(self).

__setattr__

Implement setattr(self, name, value).

__sizeof__() → int

size of object in memory, in bytes

__str__

Return str(self).

__subclasshook__()

Abstract classes can override this to customize issubclass().

This is invoked early on by abc.ABCMeta.__subclasscheck__(). It should return True, False or NotImplemented. If it returns NotImplemented, the normal algorithm is used. Otherwise, it overrides the normal algorithm (and the outcome is cached).

add_remodel_constraints_to_pose(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, pose: pyrosetta.rosetta.core.pose.Pose) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::add_remodel_constraints_to_pose(class core::pose::Pose &) –> void

apply(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, pose: pyrosetta.rosetta.core.pose.Pose) → None

generates constraints and adds them to the pose

C++: protocols::forge::remodel::RemodelConstraintGenerator::apply(class core::pose::Pose &) –> void

assign(self: pyrosetta.rosetta.protocols.forge.remodel.GenericRemodelConstraintGenerator, : pyrosetta.rosetta.protocols.forge.remodel.GenericRemodelConstraintGenerator) → pyrosetta.rosetta.protocols.forge.remodel.GenericRemodelConstraintGenerator

C++: protocols::forge::remodel::GenericRemodelConstraintGenerator::operator=(const class protocols::forge::remodel::GenericRemodelConstraintGenerator &) –> class protocols::forge::remodel::GenericRemodelConstraintGenerator &

attributes_for_remodel_constraint_generator(: pyrosetta.rosetta.std.list_utility_tag_XMLSchemaAttribute_t) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::attributes_for_remodel_constraint_generator(class std::list<class utility::tag::XMLSchemaAttribute, class std::allocator<class utility::tag::XMLSchemaAttribute> > &) –> void

clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) → None

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

C++: protocols::moves::Mover::clear_info() –> void

clone(self: pyrosetta.rosetta.protocols.forge.remodel.GenericRemodelConstraintGenerator) → pyrosetta.rosetta.protocols.moves.Mover

C++: protocols::forge::remodel::GenericRemodelConstraintGenerator::clone() const –> class std::shared_ptr<class protocols::moves::Mover>

constraints(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) → pyrosetta.rosetta.utility.vector1_std_shared_ptr_const_core_scoring_constraints_Constraint_t

C++: protocols::forge::remodel::RemodelConstraintGenerator::constraints() const –> const class utility::vector1<class std::shared_ptr<const class core::scoring::constraints::Constraint>, class std::allocator<class std::shared_ptr<const class core::scoring::constraints::Constraint> > > &

create(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.protocols.moves.Mover

C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>

fresh_instance(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.protocols.moves.Mover

Generates a new Mover object freshly created with the default ctor.

C++: protocols::moves::Mover::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>

generate_remodel_constraints(self: pyrosetta.rosetta.protocols.forge.remodel.GenericRemodelConstraintGenerator, pose: pyrosetta.rosetta.core.pose.Pose) → None

C++: protocols::forge::remodel::GenericRemodelConstraintGenerator::generate_remodel_constraints(const class core::pose::Pose &) –> void

get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.core.pose.Pose

fpd

Mechanism by which a mover may return multiple output poses from a single input pose.

C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>

get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) → protocols::jobdist::BasicJob

C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>

get_current_tag(self: pyrosetta.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.

C++: protocols::moves::Mover::get_current_tag() const –> std::string

get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.core.pose.Pose

C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>

get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.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.

C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus

get_name(self: pyrosetta.rosetta.protocols.forge.remodel.GenericRemodelConstraintGenerator) → str

C++: protocols::forge::remodel::GenericRemodelConstraintGenerator::get_name() const –> std::string

get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.core.pose.Pose

C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>

get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.protocols.moves.Mover

C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>

get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t

C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>

get_type(self: pyrosetta.rosetta.protocols.moves.Mover) → str

C++: protocols::moves::Mover::get_type() const –> std::string

id(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) → str

C++: protocols::forge::remodel::RemodelConstraintGenerator::id() const –> std::string

info(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.std.list_std_string_std_allocator_std_string_t

non-const accessor

C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &

init(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, : pyrosetta.rosetta.core.pose.Pose) → None

Pose-specific setup routines go here

C++: protocols::forge::remodel::RemodelConstraintGenerator::init(const class core::pose::Pose &) –> void

last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) → float

C++: protocols::moves::Mover::last_proposal_density_ratio() –> double

lookup_stored_constraints(id: str) → pyrosetta.rosetta.utility.vector1_std_shared_ptr_const_core_scoring_constraints_Constraint_t

C++: protocols::forge::remodel::RemodelConstraintGenerator::lookup_stored_constraints(const class std::basic_string<char> &) –> const class utility::vector1<class std::shared_ptr<const class core::scoring::constraints::Constraint>, class std::allocator<class std::shared_ptr<const class core::scoring::constraints::Constraint> > >

name() → str

C++: protocols::moves::Mover::name() –> std::string

register_options() → None

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.

C++: protocols::moves::Mover::register_options() –> void

reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) → bool

Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on

each use.

C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool

reinitialize_for_new_input(self: pyrosetta.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).

C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool

remove_remodel_constraints_from_pose(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, pose: pyrosetta.rosetta.core.pose.Pose) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::remove_remodel_constraints_from_pose(class core::pose::Pose &) const –> void

reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) → None

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.

C++: protocols::moves::Mover::reset_status() –> void

seqmap(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) → pyrosetta.rosetta.core.id.SequenceMapping

C++: protocols::forge::remodel::RemodelConstraintGenerator::seqmap() const –> class std::shared_ptr<const class core::id::SequenceMapping>

set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) → None

////////////////////////////end Job Distributor interface////////////////////////////////////////

C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void

set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) → None

C++: protocols::moves::Mover::set_current_tag(const class std::basic_string<char> &) –> void

set_id(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, id: str) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::set_id(const class std::basic_string<char> &) –> void

set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) → None

setter for poses contained for rms

C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void

set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) → None

setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe

C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void

set_seqmap(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, seqmap: pyrosetta.rosetta.core.id.SequenceMapping) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::set_seqmap(class std::shared_ptr<const class core::id::SequenceMapping>) –> void

set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) → None

C++: protocols::moves::Mover::set_type(const class std::basic_string<char> &) –> void

set_vlb(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, vlb: pyrosetta.rosetta.std.weak_ptr_protocols_forge_components_VarLengthBuild_t) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::set_vlb(class std::weak_ptr<class protocols::forge::components::VarLengthBuild>) –> void

show(*args, **kwargs)

Overloaded function.

1. show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
2. show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None

Outputs details about the Mover, including current settings.

C++: protocols::moves::Mover::show(class std::basic_ostream<char> &) const –> void

test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) → None

: Unit test support function. Apply one move to a given pose.

Allows extra test specific functions to be called before applying

C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void

type(*args, **kwargs)

Overloaded function.

1. type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str

C++: protocols::moves::Mover::type() const –> const std::string &

2. type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None

C++: protocols::moves::Mover::type(const class std::basic_string<char> &) –> void

vlb(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) → pyrosetta.rosetta.std.weak_ptr_protocols_forge_components_VarLengthBuild_t

C++: protocols::forge::remodel::RemodelConstraintGenerator::vlb() const –> class std::weak_ptr<class protocols::forge::components::VarLengthBuild>

class pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator

Bases: pyrosetta.rosetta.protocols.moves.Mover

pure virtual base class

__delattr__

Implement delattr(self, name).

__dir__() → list

default dir() implementation

__eq__

Return self==value.

__format__()

default object formatter

__ge__

Return self>=value.

__getattribute__

Return getattr(self, name).

__gt__

Return self>value.

__hash__

Return hash(self).

__init__(*args, **kwargs)

Overloaded function.

1. __init__(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) -> None
2. __init__(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, arg0: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) -> None

__init_subclass__()

This method is called when a class is subclassed.

The default implementation does nothing. It may be overridden to extend subclasses.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

__new__()

Create and return a new object. See help(type) for accurate signature.

__reduce__()

helper for pickle

__reduce_ex__()

helper for pickle

__repr__

Return repr(self).

__setattr__

Implement setattr(self, name, value).

__sizeof__() → int

size of object in memory, in bytes

__str__

Return str(self).

__subclasshook__()

Abstract classes can override this to customize issubclass().

This is invoked early on by abc.ABCMeta.__subclasscheck__(). It should return True, False or NotImplemented. If it returns NotImplemented, the normal algorithm is used. Otherwise, it overrides the normal algorithm (and the outcome is cached).

add_remodel_constraints_to_pose(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, pose: pyrosetta.rosetta.core.pose.Pose) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::add_remodel_constraints_to_pose(class core::pose::Pose &) –> void

apply(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, pose: pyrosetta.rosetta.core.pose.Pose) → None

generates constraints and adds them to the pose

C++: protocols::forge::remodel::RemodelConstraintGenerator::apply(class core::pose::Pose &) –> void

assign(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, : pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) → pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator

C++: protocols::forge::remodel::RemodelConstraintGenerator::operator=(const class protocols::forge::remodel::RemodelConstraintGenerator &) –> class protocols::forge::remodel::RemodelConstraintGenerator &

attributes_for_remodel_constraint_generator(: pyrosetta.rosetta.std.list_utility_tag_XMLSchemaAttribute_t) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::attributes_for_remodel_constraint_generator(class std::list<class utility::tag::XMLSchemaAttribute, class std::allocator<class utility::tag::XMLSchemaAttribute> > &) –> void

clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) → None

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

C++: protocols::moves::Mover::clear_info() –> void

clone(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.protocols.moves.Mover

Return a clone of the Mover object.

C++: protocols::moves::Mover::clone() const –> class std::shared_ptr<class protocols::moves::Mover>

constraints(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) → pyrosetta.rosetta.utility.vector1_std_shared_ptr_const_core_scoring_constraints_Constraint_t

C++: protocols::forge::remodel::RemodelConstraintGenerator::constraints() const –> const class utility::vector1<class std::shared_ptr<const class core::scoring::constraints::Constraint>, class std::allocator<class std::shared_ptr<const class core::scoring::constraints::Constraint> > > &

create(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.protocols.moves.Mover

C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>

fresh_instance(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.protocols.moves.Mover

Generates a new Mover object freshly created with the default ctor.

C++: protocols::moves::Mover::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>

generate_remodel_constraints(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, pose: pyrosetta.rosetta.core.pose.Pose) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::generate_remodel_constraints(const class core::pose::Pose &) –> void

get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.core.pose.Pose

fpd

Mechanism by which a mover may return multiple output poses from a single input pose.

C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>

get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) → protocols::jobdist::BasicJob

C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>

get_current_tag(self: pyrosetta.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.

C++: protocols::moves::Mover::get_current_tag() const –> std::string

get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.core.pose.Pose

C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>

get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.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.

C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus

get_name(self: pyrosetta.rosetta.protocols.moves.Mover) → str

Each derived class must specify its name. The class name.

C++: protocols::moves::Mover::get_name() const –> std::string

get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.core.pose.Pose

C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>

get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.protocols.moves.Mover

C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>

get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t

C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>

get_type(self: pyrosetta.rosetta.protocols.moves.Mover) → str

C++: protocols::moves::Mover::get_type() const –> std::string

id(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) → str

C++: protocols::forge::remodel::RemodelConstraintGenerator::id() const –> std::string

info(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.std.list_std_string_std_allocator_std_string_t

non-const accessor

C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &

init(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, : pyrosetta.rosetta.core.pose.Pose) → None

Pose-specific setup routines go here

C++: protocols::forge::remodel::RemodelConstraintGenerator::init(const class core::pose::Pose &) –> void

last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) → float

C++: protocols::moves::Mover::last_proposal_density_ratio() –> double

lookup_stored_constraints(id: str) → pyrosetta.rosetta.utility.vector1_std_shared_ptr_const_core_scoring_constraints_Constraint_t

C++: protocols::forge::remodel::RemodelConstraintGenerator::lookup_stored_constraints(const class std::basic_string<char> &) –> const class utility::vector1<class std::shared_ptr<const class core::scoring::constraints::Constraint>, class std::allocator<class std::shared_ptr<const class core::scoring::constraints::Constraint> > >

name() → str

C++: protocols::moves::Mover::name() –> std::string

register_options() → None

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.

C++: protocols::moves::Mover::register_options() –> void

reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) → bool

Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on

each use.

C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool

reinitialize_for_new_input(self: pyrosetta.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).

C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool

remove_remodel_constraints_from_pose(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, pose: pyrosetta.rosetta.core.pose.Pose) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::remove_remodel_constraints_from_pose(class core::pose::Pose &) const –> void

reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) → None

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.

C++: protocols::moves::Mover::reset_status() –> void

seqmap(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) → pyrosetta.rosetta.core.id.SequenceMapping

C++: protocols::forge::remodel::RemodelConstraintGenerator::seqmap() const –> class std::shared_ptr<const class core::id::SequenceMapping>

set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) → None

////////////////////////////end Job Distributor interface////////////////////////////////////////

C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void

set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) → None

C++: protocols::moves::Mover::set_current_tag(const class std::basic_string<char> &) –> void

set_id(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, id: str) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::set_id(const class std::basic_string<char> &) –> void

set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) → None

setter for poses contained for rms

C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void

set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) → None

setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe

C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void

set_seqmap(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, seqmap: pyrosetta.rosetta.core.id.SequenceMapping) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::set_seqmap(class std::shared_ptr<const class core::id::SequenceMapping>) –> void

set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) → None

C++: protocols::moves::Mover::set_type(const class std::basic_string<char> &) –> void

set_vlb(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, vlb: pyrosetta.rosetta.std.weak_ptr_protocols_forge_components_VarLengthBuild_t) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::set_vlb(class std::weak_ptr<class protocols::forge::components::VarLengthBuild>) –> void

show(*args, **kwargs)

Overloaded function.

1. show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
2. show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None

Outputs details about the Mover, including current settings.

C++: protocols::moves::Mover::show(class std::basic_ostream<char> &) const –> void

test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) → None

: Unit test support function. Apply one move to a given pose.

Allows extra test specific functions to be called before applying

C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void

type(*args, **kwargs)

Overloaded function.

1. type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str

C++: protocols::moves::Mover::type() const –> const std::string &

2. type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None

C++: protocols::moves::Mover::type(const class std::basic_string<char> &) –> void

vlb(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) → pyrosetta.rosetta.std.weak_ptr_protocols_forge_components_VarLengthBuild_t

C++: protocols::forge::remodel::RemodelConstraintGenerator::vlb() const –> class std::weak_ptr<class protocols::forge::components::VarLengthBuild>

class pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover

Bases: pyrosetta.rosetta.protocols.moves.Mover

Loop modeling protocol based on routines from Remodel and EpiGraft packages in Rosetta++.

__delattr__

Implement delattr(self, name).

__dir__() → list

default dir() implementation

__eq__

Return self==value.

__format__()

default object formatter

__ge__

Return self>=value.

__getattribute__

Return getattr(self, name).

__gt__

Return self>value.

__hash__

Return hash(self).

__init__(*args, **kwargs)

Overloaded function.

1. __init__(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) -> None
2. __init__(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, loops: pyrosetta.rosetta.protocols.loops.Loops) -> None
3. __init__(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, arg0: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) -> None

__init_subclass__()

This method is called when a class is subclassed.

The default implementation does nothing. It may be overridden to extend subclasses.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

__new__()

Create and return a new object. See help(type) for accurate signature.

__reduce__()

helper for pickle

__reduce_ex__()

helper for pickle

__repr__

Return repr(self).

__setattr__

Implement setattr(self, name, value).

__sizeof__() → int

size of object in memory, in bytes

__str__

Return str(self).

__subclasshook__()

Abstract classes can override this to customize issubclass().

This is invoked early on by abc.ABCMeta.__subclasscheck__(). It should return True, False or NotImplemented. If it returns NotImplemented, the normal algorithm is used. Otherwise, it overrides the normal algorithm (and the outcome is cached).

add_fragments(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, fragset: pyrosetta.rosetta.core.fragment.FragSet) → None

add a fragment set

C++: protocols::forge::remodel::RemodelLoopMover::add_fragments(class std::shared_ptr<const class core::fragment::FragSet>) –> void

add_loop(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, loop: pyrosetta.rosetta.protocols.loops.Loop) → None

add a loop to model

C++: protocols::forge::remodel::RemodelLoopMover::add_loop(const class protocols::loops::Loop) –> void

allowed_closure_attempts(*args, **kwargs)

Overloaded function.

1. allowed_closure_attempts(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) -> int

the allowed number of overall closure attempts before apply() exits

(default 3)

C++: protocols::forge::remodel::RemodelLoopMover::allowed_closure_attempts() const –> unsigned long

2. allowed_closure_attempts(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, attempts: int) -> None

the allowed number of overall closure attempts before apply() exits

C++: protocols::forge::remodel::RemodelLoopMover::allowed_closure_attempts(const unsigned long) –> void

apply(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, pose: pyrosetta.rosetta.core.pose.Pose) → None

apply defined moves to given Pose

Sets protocols::moves::MS_SUCCESS upon successful closure of

all loops, otherwise sets protocols::moves::FAIL_RETRY.

C++: protocols::forge::remodel::RemodelLoopMover::apply(class core::pose::Pose &) –> void

assign(self: pyrosetta.rosetta.protocols.moves.Mover, other: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.protocols.moves.Mover

C++: protocols::moves::Mover::operator=(const class protocols::moves::Mover &) –> class protocols::moves::Mover &

boost_closure_cycles(*args, **kwargs)

Overloaded function.

1. boost_closure_cycles(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) -> int

the maximum number of possible lockdown closure cycles to perform

(default 30)

C++: protocols::forge::remodel::RemodelLoopMover::boost_closure_cycles() const –> unsigned long

2. boost_closure_cycles(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, cycles: int) -> None

the maximum number of possible lockdown closure cycles to perform

C++: protocols::forge::remodel::RemodelLoopMover::boost_closure_cycles(const unsigned long) –> void

clear_fragments(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) → None

clear all fragment sets

C++: protocols::forge::remodel::RemodelLoopMover::clear_fragments() –> void

clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) → None

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

C++: protocols::moves::Mover::clear_info() –> void

clone(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) → pyrosetta.rosetta.protocols.moves.Mover

clone this object

C++: protocols::forge::remodel::RemodelLoopMover::clone() const –> class std::shared_ptr<class protocols::moves::Mover>

create(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.protocols.moves.Mover

C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>

false_movemap(*args, **kwargs)

Overloaded function.

1. false_movemap(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) -> pyrosetta.rosetta.core.kinematics.MoveMap

get the false movemap

All movemaps are generated with respect to this movemap.

Any explicit False settings within this movemap will be retained in all descendant movemaps.

C++: protocols::forge::remodel::RemodelLoopMover::false_movemap() const –> const class core::kinematics::MoveMap &

2. false_movemap(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, movemap: pyrosetta.rosetta.core.kinematics.MoveMap) -> None

set the false movemap to use

All movemaps are generated with respect to this movemap.

Any explicit False settings within this movemap will be retained in all descendant movemaps.

C++: protocols::forge::remodel::RemodelLoopMover::false_movemap(const class core::kinematics::MoveMap &) –> void

fresh_instance(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) → pyrosetta.rosetta.protocols.moves.Mover

create this type of object

C++: protocols::forge::remodel::RemodelLoopMover::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>

get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.core.pose.Pose

fpd

Mechanism by which a mover may return multiple output poses from a single input pose.

C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>

get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) → protocols::jobdist::BasicJob

C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>

get_current_tag(self: pyrosetta.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.

C++: protocols::moves::Mover::get_current_tag() const –> std::string

get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.core.pose.Pose

C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>

get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.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.

C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus

get_name(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) → str

C++: protocols::forge::remodel::RemodelLoopMover::get_name() const –> std::string

get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.core.pose.Pose

C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>

get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.protocols.moves.Mover

C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>

get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t

C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>

get_type(self: pyrosetta.rosetta.protocols.moves.Mover) → str

C++: protocols::moves::Mover::get_type() const –> std::string

independent_cycles(*args, **kwargs)

Overloaded function.

1. independent_cycles(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) -> int

the number of independent closure cycles to perform (default 8)

C++: protocols::forge::remodel::RemodelLoopMover::independent_cycles() const –> unsigned long

2. independent_cycles(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, cycles: int) -> None

the number of independent closure cycles to perform

C++: protocols::forge::remodel::RemodelLoopMover::independent_cycles(const unsigned long) –> void

info(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.std.list_std_string_std_allocator_std_string_t

non-const accessor

C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &

last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) → float

C++: protocols::moves::Mover::last_proposal_density_ratio() –> double

loophash_cycles(*args, **kwargs)

Overloaded function.

1. loophash_cycles(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) -> int

the number of loophash closure cycles to perform (default 8)

C++: protocols::forge::remodel::RemodelLoopMover::loophash_cycles() const –> unsigned long

2. loophash_cycles(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, cycles: int) -> None

the number of loophash closure cycles to perform

C++: protocols::forge::remodel::RemodelLoopMover::loophash_cycles(const unsigned long) –> void

loops(*args, **kwargs)

Overloaded function.

1. loops(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) -> pyrosetta.rosetta.protocols.loops.Loops

the loops to model

C++: protocols::forge::remodel::RemodelLoopMover::loops() const –> const class std::shared_ptr<class protocols::loops::Loops>

2. loops(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, loops: pyrosetta.rosetta.protocols.loops.Loops) -> None

set the loops to model

C++: protocols::forge::remodel::RemodelLoopMover::loops(const class std::shared_ptr<class protocols::loops::Loops>) –> void

max_linear_chainbreak(*args, **kwargs)

Overloaded function.

1. max_linear_chainbreak(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) -> float

if linear chainbreak is <= this value, loop is considered closed

(default 0.07)

C++: protocols::forge::remodel::RemodelLoopMover::max_linear_chainbreak() const –> double

2. max_linear_chainbreak(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, val: float) -> None

if linear chainbreak is <= this value, loop is considered closed

C++: protocols::forge::remodel::RemodelLoopMover::max_linear_chainbreak(const double) –> void

name() → str

C++: protocols::moves::Mover::name() –> std::string

randomize_loops(*args, **kwargs)

Overloaded function.

1. randomize_loops(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) -> bool

randomize loops prior to running main protocol? (default true)

C++: protocols::forge::remodel::RemodelLoopMover::randomize_loops() const –> bool

2. randomize_loops(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, flag: bool) -> None

randomize loops prior to running main protocol?

C++: protocols::forge::remodel::RemodelLoopMover::randomize_loops(const bool) –> void

randomize_stage(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, pose: pyrosetta.rosetta.core.pose.Pose) → None

randomize loops

C++: protocols::forge::remodel::RemodelLoopMover::randomize_stage(class core::pose::Pose &) –> void

register_options() → None

C++: protocols::forge::remodel::RemodelLoopMover::register_options() –> void

reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) → bool

Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on

each use.

C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool

reinitialize_for_new_input(self: pyrosetta.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).

C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool

remodelData(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, remodel_data: pyrosetta.rosetta.protocols.forge.remodel.RemodelData) → None

adds the remodel data to thei remodelLoopMover object

C++: protocols::forge::remodel::RemodelLoopMover::remodelData(const class protocols::forge::remodel::RemodelData) –> void

repeat_generation_with_additional_residue(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, pose: pyrosetta.rosetta.core.pose.Pose, repeat_pose: pyrosetta.rosetta.core.pose.Pose) → None

C++: protocols::forge::remodel::RemodelLoopMover::repeat_generation_with_additional_residue(class core::pose::Pose &, class core::pose::Pose &) –> void

repeat_propagation(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, pose: pyrosetta.rosetta.core.pose.Pose, repeat_pose: pyrosetta.rosetta.core.pose.Pose, repeat_number: int) → None

C++: protocols::forge::remodel::RemodelLoopMover::repeat_propagation(class core::pose::Pose &, class core::pose::Pose &, unsigned long) –> void

repeat_sync(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, repeat_pose: pyrosetta.rosetta.core.pose.Pose, repeat_number: int) → None

C++: protocols::forge::remodel::RemodelLoopMover::repeat_sync(class core::pose::Pose &, unsigned long) –> void

reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) → None

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.

C++: protocols::moves::Mover::reset_status() –> void

scorefunction(*args, **kwargs)

Overloaded function.

1. scorefunction(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) -> pyrosetta.rosetta.core.scoring.ScoreFunction

the ScoreFunction to use during modeling;

C++: protocols::forge::remodel::RemodelLoopMover::scorefunction() const –> const class core::scoring::ScoreFunction &

2. scorefunction(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, sfx: pyrosetta.rosetta.core.scoring.ScoreFunction) -> None

the ScoreFunction to use during modeling

C++: protocols::forge::remodel::RemodelLoopMover::scorefunction(const class core::scoring::ScoreFunction &) –> void

set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) → None

////////////////////////////end Job Distributor interface////////////////////////////////////////

C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void

set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) → None

C++: protocols::moves::Mover::set_current_tag(const class std::basic_string<char> &) –> void

set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) → None

setter for poses contained for rms

C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void

set_keep_input_foldtree(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, setting: bool) → None

C++: protocols::forge::remodel::RemodelLoopMover::set_keep_input_foldtree(const bool) –> void

set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) → None

setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe

C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void

set_param_from_options(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) → None

C++: protocols::forge::remodel::RemodelLoopMover::set_param_from_options() –> void

set_repeat_tail_length(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, length: int) → None

C++: protocols::forge::remodel::RemodelLoopMover::set_repeat_tail_length(const unsigned long) –> void

set_seal_foldtree(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, setting: bool) → None

C++: protocols::forge::remodel::RemodelLoopMover::set_seal_foldtree(const bool) –> void

set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) → None

C++: protocols::moves::Mover::set_type(const class std::basic_string<char> &) –> void

set_user_provided_movers(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, movers: pyrosetta.rosetta.utility.vector1_std_shared_ptr_protocols_moves_Mover_t) → None

C++: protocols::forge::remodel::RemodelLoopMover::set_user_provided_movers(const class utility::vector1<class std::shared_ptr<class protocols::moves::Mover>, class std::allocator<class std::shared_ptr<class protocols::moves::Mover> > > &) –> void

show(*args, **kwargs)

Overloaded function.

1. show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
2. show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None

Outputs details about the Mover, including current settings.

C++: protocols::moves::Mover::show(class std::basic_ostream<char> &) const –> void

simultaneous_cycles(*args, **kwargs)

Overloaded function.

1. simultaneous_cycles(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) -> int

the number of simultaneous closure cycles to perform (default 2)

C++: protocols::forge::remodel::RemodelLoopMover::simultaneous_cycles() const –> unsigned long

2. simultaneous_cycles(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, cycles: int) -> None

the number of simultaneous closure cycles to perform

C++: protocols::forge::remodel::RemodelLoopMover::simultaneous_cycles(const unsigned long) –> void

temperature(*args, **kwargs)

Overloaded function.

1. temperature(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) -> float

temperature for mc ( default 2.0 )

C++: protocols::forge::remodel::RemodelLoopMover::temperature() const –> double

2. temperature(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, temp: float) -> None

temperature for mc

C++: protocols::forge::remodel::RemodelLoopMover::temperature(const double) –> void

test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) → None

: Unit test support function. Apply one move to a given pose.

Allows extra test specific functions to be called before applying

C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void

total_standard_cycles(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover) → int

the total number of “standard” (equal to simul + independent)

to perform

C++: protocols::forge::remodel::RemodelLoopMover::total_standard_cycles() const –> unsigned long

type(*args, **kwargs)

Overloaded function.

1. type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str

C++: protocols::moves::Mover::type() const –> const std::string &

2. type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None

C++: protocols::moves::Mover::type(const class std::basic_string<char> &) –> void

user_provided_movers_apply_cycle(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelLoopMover, cycle: int) → None

C++: protocols::forge::remodel::RemodelLoopMover::user_provided_movers_apply_cycle(const unsigned long) –> void

class pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo

Bases: pybind11_builtins.pybind11_object

small helper class for the ResidueVicinityRCG

__delattr__

Implement delattr(self, name).

__dir__() → list

default dir() implementation

__eq__

Return self==value.

__format__()

default object formatter

__ge__

Return self>=value.

__getattribute__

Return getattr(self, name).

__gt__

Return self>value.

__hash__

Return hash(self).

__init__(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo, old_seqpos: int, residue_atoms: pyrosetta.rosetta.utility.vector1_unsigned_long, loopres_atoms: pyrosetta.rosetta.utility.vector1_unsigned_long, desired_remodelres_in_vicinity: int) → None

__init_subclass__()

This method is called when a class is subclassed.

The default implementation does nothing. It may be overridden to extend subclasses.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

__new__()

Create and return a new object. See help(type) for accurate signature.

__reduce__()

helper for pickle

__reduce_ex__()

helper for pickle

__repr__

Return repr(self).

__setattr__

Implement setattr(self, name, value).

__sizeof__() → int

size of object in memory, in bytes

__str__

Return str(self).

__subclasshook__()

Abstract classes can override this to customize issubclass().

This is invoked early on by abc.ABCMeta.__subclasscheck__(). It should return True, False or NotImplemented. If it returns NotImplemented, the normal algorithm is used. Otherwise, it overrides the normal algorithm (and the outcome is cached).

assign(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo, : pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo

C++: protocols::forge::remodel::ResidueVicinityInfo::operator=(const class protocols::forge::remodel::ResidueVicinityInfo &) –> class protocols::forge::remodel::ResidueVicinityInfo &

desired_remodelres_in_vicinity(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → int

C++: protocols::forge::remodel::ResidueVicinityInfo::desired_remodelres_in_vicinity() const –> unsigned long

dis(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → pyrosetta.rosetta.core.scoring.func.Func

C++: protocols::forge::remodel::ResidueVicinityInfo::dis() const –> class std::shared_ptr<class core::scoring::func::Func>

loop_ang(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → pyrosetta.rosetta.core.scoring.func.Func

C++: protocols::forge::remodel::ResidueVicinityInfo::loop_ang() const –> class std::shared_ptr<class core::scoring::func::Func>

loop_dih(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → pyrosetta.rosetta.core.scoring.func.Func

C++: protocols::forge::remodel::ResidueVicinityInfo::loop_dih() const –> class std::shared_ptr<class core::scoring::func::Func>

loopres_atoms(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → pyrosetta.rosetta.utility.vector1_unsigned_long

C++: protocols::forge::remodel::ResidueVicinityInfo::loopres_atoms() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &

loopres_base2_atoms(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → pyrosetta.rosetta.utility.vector1_unsigned_long

C++: protocols::forge::remodel::ResidueVicinityInfo::loopres_base2_atoms() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &

loopres_base_atoms(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → pyrosetta.rosetta.utility.vector1_unsigned_long

C++: protocols::forge::remodel::ResidueVicinityInfo::loopres_base_atoms() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &

lt_dih(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → pyrosetta.rosetta.core.scoring.func.Func

C++: protocols::forge::remodel::ResidueVicinityInfo::lt_dih() const –> class std::shared_ptr<class core::scoring::func::Func>

old_seqpos(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → int

C++: protocols::forge::remodel::ResidueVicinityInfo::old_seqpos() const –> unsigned long

residue_atoms(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → pyrosetta.rosetta.utility.vector1_unsigned_long

C++: protocols::forge::remodel::ResidueVicinityInfo::residue_atoms() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &

residue_base2_atoms(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → pyrosetta.rosetta.utility.vector1_unsigned_long

C++: protocols::forge::remodel::ResidueVicinityInfo::residue_base2_atoms() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &

residue_base_atoms(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → pyrosetta.rosetta.utility.vector1_unsigned_long

C++: protocols::forge::remodel::ResidueVicinityInfo::residue_base_atoms() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &

set_dis(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo, dis: pyrosetta.rosetta.core.scoring.func.Func) → None

C++: protocols::forge::remodel::ResidueVicinityInfo::set_dis(class std::shared_ptr<class core::scoring::func::Func>) –> void

set_loop_ang(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo, loop_ang: pyrosetta.rosetta.core.scoring.func.Func) → None

C++: protocols::forge::remodel::ResidueVicinityInfo::set_loop_ang(class std::shared_ptr<class core::scoring::func::Func>) –> void

set_loop_dih(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo, loop_dih: pyrosetta.rosetta.core.scoring.func.Func) → None

C++: protocols::forge::remodel::ResidueVicinityInfo::set_loop_dih(class std::shared_ptr<class core::scoring::func::Func>) –> void

set_loopres_base2_atoms(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo, loopres_base2_atoms: pyrosetta.rosetta.utility.vector1_unsigned_long) → None

C++: protocols::forge::remodel::ResidueVicinityInfo::set_loopres_base2_atoms(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void

set_loopres_base_atoms(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo, loopres_base_atoms: pyrosetta.rosetta.utility.vector1_unsigned_long) → None

C++: protocols::forge::remodel::ResidueVicinityInfo::set_loopres_base_atoms(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void

set_lt_dih(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo, lt_dih: pyrosetta.rosetta.core.scoring.func.Func) → None

C++: protocols::forge::remodel::ResidueVicinityInfo::set_lt_dih(class std::shared_ptr<class core::scoring::func::Func>) –> void

set_residue_base2_atoms(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo, residue_base2_atoms: pyrosetta.rosetta.utility.vector1_unsigned_long) → None

C++: protocols::forge::remodel::ResidueVicinityInfo::set_residue_base2_atoms(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void

set_residue_base_atoms(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo, residue_base_atoms: pyrosetta.rosetta.utility.vector1_unsigned_long) → None

C++: protocols::forge::remodel::ResidueVicinityInfo::set_residue_base_atoms(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void

set_targ_ang(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo, targ_ang: pyrosetta.rosetta.core.scoring.func.Func) → None

C++: protocols::forge::remodel::ResidueVicinityInfo::set_targ_ang(class std::shared_ptr<class core::scoring::func::Func>) –> void

set_targ_dih(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo, targ_dih: pyrosetta.rosetta.core.scoring.func.Func) → None

C++: protocols::forge::remodel::ResidueVicinityInfo::set_targ_dih(class std::shared_ptr<class core::scoring::func::Func>) –> void

targ_ang(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → pyrosetta.rosetta.core.scoring.func.Func

C++: protocols::forge::remodel::ResidueVicinityInfo::targ_ang() const –> class std::shared_ptr<class core::scoring::func::Func>

targ_dih(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → pyrosetta.rosetta.core.scoring.func.Func

C++: protocols::forge::remodel::ResidueVicinityInfo::targ_dih() const –> class std::shared_ptr<class core::scoring::func::Func>

class pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG

Bases: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator

a RemodelConstraintGenerator that creates AmbiguousMultiConstraints for all positions

in the remodeled loop to the desired positions, such that during remodeling, the remodeled

region will be driven towards the vicinity of these residues

__delattr__

Implement delattr(self, name).

__dir__() → list

default dir() implementation

__eq__

Return self==value.

__format__()

default object formatter

__ge__

Return self>=value.

__getattribute__

Return getattr(self, name).

__gt__

Return self>value.

__hash__

Return hash(self).

__init__(*args, **kwargs)

Overloaded function.

1. __init__(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG) -> None
2. __init__(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG, arg0: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG) -> None
3. __init__(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG, lstart: int, lstop: int, rv_infos: pyrosetta.rosetta.utility.vector1_std_shared_ptr_protocols_forge_remodel_ResidueVicinityInfo_t) -> None

__init_subclass__()

This method is called when a class is subclassed.

The default implementation does nothing. It may be overridden to extend subclasses.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

__new__()

Create and return a new object. See help(type) for accurate signature.

__reduce__()

helper for pickle

__reduce_ex__()

helper for pickle

__repr__

Return repr(self).

__setattr__

Implement setattr(self, name, value).

__sizeof__() → int

size of object in memory, in bytes

__str__

Return str(self).

__subclasshook__()

Abstract classes can override this to customize issubclass().

This is invoked early on by abc.ABCMeta.__subclasscheck__(). It should return True, False or NotImplemented. If it returns NotImplemented, the normal algorithm is used. Otherwise, it overrides the normal algorithm (and the outcome is cached).

add_remodel_constraints_to_pose(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, pose: pyrosetta.rosetta.core.pose.Pose) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::add_remodel_constraints_to_pose(class core::pose::Pose &) –> void

add_rv_info(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG, rv_info: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityInfo) → None

C++: protocols::forge::remodel::ResidueVicinityRCG::add_rv_info(class std::shared_ptr<class protocols::forge::remodel::ResidueVicinityInfo>) –> void

apply(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, pose: pyrosetta.rosetta.core.pose.Pose) → None

generates constraints and adds them to the pose

C++: protocols::forge::remodel::RemodelConstraintGenerator::apply(class core::pose::Pose &) –> void

assign(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG, : pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG) → pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG

C++: protocols::forge::remodel::ResidueVicinityRCG::operator=(const class protocols::forge::remodel::ResidueVicinityRCG &) –> class protocols::forge::remodel::ResidueVicinityRCG &

attributes_for_remodel_constraint_generator(: pyrosetta.rosetta.std.list_utility_tag_XMLSchemaAttribute_t) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::attributes_for_remodel_constraint_generator(class std::list<class utility::tag::XMLSchemaAttribute, class std::allocator<class utility::tag::XMLSchemaAttribute> > &) –> void

clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) → None

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

C++: protocols::moves::Mover::clear_info() –> void

clear_rv_infos(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG) → None

C++: protocols::forge::remodel::ResidueVicinityRCG::clear_rv_infos() –> void

clone(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG) → pyrosetta.rosetta.protocols.moves.Mover

C++: protocols::forge::remodel::ResidueVicinityRCG::clone() const –> class std::shared_ptr<class protocols::moves::Mover>

constraints(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) → pyrosetta.rosetta.utility.vector1_std_shared_ptr_const_core_scoring_constraints_Constraint_t

C++: protocols::forge::remodel::RemodelConstraintGenerator::constraints() const –> const class utility::vector1<class std::shared_ptr<const class core::scoring::constraints::Constraint>, class std::allocator<class std::shared_ptr<const class core::scoring::constraints::Constraint> > > &

create(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.protocols.moves.Mover

C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>

fresh_instance(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG) → pyrosetta.rosetta.protocols.moves.Mover

C++: protocols::forge::remodel::ResidueVicinityRCG::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>

generate_remodel_constraints(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG, pose: pyrosetta.rosetta.core.pose.Pose) → None

C++: protocols::forge::remodel::ResidueVicinityRCG::generate_remodel_constraints(const class core::pose::Pose &) –> void

get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.core.pose.Pose

fpd

Mechanism by which a mover may return multiple output poses from a single input pose.

C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>

get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) → protocols::jobdist::BasicJob

C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>

get_current_tag(self: pyrosetta.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.

C++: protocols::moves::Mover::get_current_tag() const –> std::string

get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.core.pose.Pose

C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>

get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.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.

C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus

get_name(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG) → str

C++: protocols::forge::remodel::ResidueVicinityRCG::get_name() const –> std::string

get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.core.pose.Pose

C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>

get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.protocols.moves.Mover

C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>

get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t

C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>

get_type(self: pyrosetta.rosetta.protocols.moves.Mover) → str

C++: protocols::moves::Mover::get_type() const –> std::string

id(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) → str

C++: protocols::forge::remodel::RemodelConstraintGenerator::id() const –> std::string

info(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.std.list_std_string_std_allocator_std_string_t

non-const accessor

C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &

init(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, : pyrosetta.rosetta.core.pose.Pose) → None

Pose-specific setup routines go here

C++: protocols::forge::remodel::RemodelConstraintGenerator::init(const class core::pose::Pose &) –> void

last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) → float

C++: protocols::moves::Mover::last_proposal_density_ratio() –> double

lookup_stored_constraints(id: str) → pyrosetta.rosetta.utility.vector1_std_shared_ptr_const_core_scoring_constraints_Constraint_t

C++: protocols::forge::remodel::RemodelConstraintGenerator::lookup_stored_constraints(const class std::basic_string<char> &) –> const class utility::vector1<class std::shared_ptr<const class core::scoring::constraints::Constraint>, class std::allocator<class std::shared_ptr<const class core::scoring::constraints::Constraint> > >

lstart(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG, lstart: int) → None

C++: protocols::forge::remodel::ResidueVicinityRCG::lstart(const unsigned long) –> void

lstop(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG, lstop: int) → None

C++: protocols::forge::remodel::ResidueVicinityRCG::lstop(const unsigned long) –> void

mover_name() → str

C++: protocols::forge::remodel::ResidueVicinityRCG::mover_name() –> std::string

name() → str

C++: protocols::moves::Mover::name() –> std::string

provide_xml_schema(xsd: pyrosetta.rosetta.utility.tag.XMLSchemaDefinition) → None

C++: protocols::forge::remodel::ResidueVicinityRCG::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void

register_options() → None

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.

C++: protocols::moves::Mover::register_options() –> void

reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) → bool

Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on

each use.

C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool

reinitialize_for_new_input(self: pyrosetta.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).

C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool

remove_remodel_constraints_from_pose(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, pose: pyrosetta.rosetta.core.pose.Pose) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::remove_remodel_constraints_from_pose(class core::pose::Pose &) const –> void

reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) → None

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.

C++: protocols::moves::Mover::reset_status() –> void

seqmap(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) → pyrosetta.rosetta.core.id.SequenceMapping

C++: protocols::forge::remodel::RemodelConstraintGenerator::seqmap() const –> class std::shared_ptr<const class core::id::SequenceMapping>

set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) → None

////////////////////////////end Job Distributor interface////////////////////////////////////////

C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void

set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) → None

C++: protocols::moves::Mover::set_current_tag(const class std::basic_string<char> &) –> void

set_id(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, id: str) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::set_id(const class std::basic_string<char> &) –> void

set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) → None

setter for poses contained for rms

C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void

set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) → None

setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe

C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void

set_rv_infos(self: pyrosetta.rosetta.protocols.forge.remodel.ResidueVicinityRCG, rv_infos: pyrosetta.rosetta.utility.vector1_std_shared_ptr_protocols_forge_remodel_ResidueVicinityInfo_t) → None

C++: protocols::forge::remodel::ResidueVicinityRCG::set_rv_infos(const class utility::vector1<class std::shared_ptr<class protocols::forge::remodel::ResidueVicinityInfo>, class std::allocator<class std::shared_ptr<class protocols::forge::remodel::ResidueVicinityInfo> > > &) –> void

set_seqmap(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, seqmap: pyrosetta.rosetta.core.id.SequenceMapping) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::set_seqmap(class std::shared_ptr<const class core::id::SequenceMapping>) –> void

set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) → None

C++: protocols::moves::Mover::set_type(const class std::basic_string<char> &) –> void

set_vlb(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator, vlb: pyrosetta.rosetta.std.weak_ptr_protocols_forge_components_VarLengthBuild_t) → None

C++: protocols::forge::remodel::RemodelConstraintGenerator::set_vlb(class std::weak_ptr<class protocols::forge::components::VarLengthBuild>) –> void

show(*args, **kwargs)

Overloaded function.

1. show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
2. show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None

Outputs details about the Mover, including current settings.

C++: protocols::moves::Mover::show(class std::basic_ostream<char> &) const –> void

test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) → None

: Unit test support function. Apply one move to a given pose.

Allows extra test specific functions to be called before applying

C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void

type(*args, **kwargs)

Overloaded function.

1. type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str

C++: protocols::moves::Mover::type() const –> const std::string &

2. type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None

C++: protocols::moves::Mover::type(const class std::basic_string<char> &) –> void

vlb(self: pyrosetta.rosetta.protocols.forge.remodel.RemodelConstraintGenerator) → pyrosetta.rosetta.std.weak_ptr_protocols_forge_components_VarLengthBuild_t

C++: protocols::forge::remodel::RemodelConstraintGenerator::vlb() const –> class std::weak_ptr<class protocols::forge::components::VarLengthBuild>

pyrosetta.rosetta.protocols.forge.remodel.compute_center_of_mass(pose: pyrosetta.rosetta.core.pose.Pose, range_start: int, range_stop: int) → pyrosetta.rosetta.numeric.xyzVector_double_t

C++: protocols::forge::remodel::compute_center_of_mass(const class core::pose::Pose &, unsigned long, unsigned long) –> class numeric::xyzVector<double>