setup

Bindings for protocols::rna::denovo::setup namespace

class pyrosetta.rosetta.protocols.rna.denovo.setup.RNA_DeNovoPoseInitializer

Bases: pybind11_builtins.pybind11_object

Object used in RNA_FragmentMonteCarlo to handle setup of pose & fold-tree, and

jump changes.

__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.rna.denovo.setup.RNA_DeNovoPoseInitializer, rna_params_file_info: pyrosetta.rosetta.protocols.rna.denovo.setup.RNA_DeNovoParameters) -> None
2. __init__(self: pyrosetta.rosetta.protocols.rna.denovo.setup.RNA_DeNovoPoseInitializer, arg0: pyrosetta.rosetta.protocols.rna.denovo.setup.RNA_DeNovoPoseInitializer) -> 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).

initialize_for_de_novo_protocol(*args, **kwargs)

Overloaded function.

1. initialize_for_de_novo_protocol(self: pyrosetta.rosetta.protocols.rna.denovo.setup.RNA_DeNovoPoseInitializer, pose: pyrosetta.rosetta.core.pose.Pose) -> None
2. initialize_for_de_novo_protocol(self: pyrosetta.rosetta.protocols.rna.denovo.setup.RNA_DeNovoPoseInitializer, pose: pyrosetta.rosetta.core.pose.Pose, ignore_secstruct: bool) -> None

“classic” setup, used in denovo protocol. Note: changes pose (virtualizes phosphate).

and requires later call of setup_fold_tree_and_jumps_and_variants

C++: protocols::rna::denovo::setup::RNA_DeNovoPoseInitializer::initialize_for_de_novo_protocol(class core::pose::Pose &, const bool) –> void

rna_params(self: pyrosetta.rosetta.protocols.rna.denovo.setup.RNA_DeNovoPoseInitializer) → pyrosetta.rosetta.protocols.rna.denovo.setup.RNA_DeNovoParameters

C++: protocols::rna::denovo::setup::RNA_DeNovoPoseInitializer::rna_params() const –> const class protocols::rna::denovo::setup::RNA_DeNovoParameters &

set_bps_moves(self: pyrosetta.rosetta.protocols.rna.denovo.setup.RNA_DeNovoPoseInitializer, setting: bool) → None

C++: protocols::rna::denovo::setup::RNA_DeNovoPoseInitializer::set_bps_moves(const bool &) –> void

set_root_at_first_rigid_body(self: pyrosetta.rosetta.protocols.rna.denovo.setup.RNA_DeNovoPoseInitializer, setting: bool) → None

C++: protocols::rna::denovo::setup::RNA_DeNovoPoseInitializer::set_root_at_first_rigid_body(const bool) –> void

setup_fold_tree_and_jumps_and_variants(*args, **kwargs)

Overloaded function.

1. setup_fold_tree_and_jumps_and_variants(self: pyrosetta.rosetta.protocols.rna.denovo.setup.RNA_DeNovoPoseInitializer, pose: pyrosetta.rosetta.core.pose.Pose, rna_jump_mover: protocols::rna::denovo::movers::RNA_JumpMover, atom_level_domain_map: protocols::toolbox::AtomLevelDomainMap) -> None

C++: protocols::rna::denovo::setup::RNA_DeNovoPoseInitializer::setup_fold_tree_and_jumps_and_variants(class core::pose::Pose &, const class protocols::rna::denovo::movers::RNA_JumpMover &, class std::shared_ptr<class protocols::toolbox::AtomLevelDomainMap>) const –> void

2. setup_fold_tree_and_jumps_and_variants(self: pyrosetta.rosetta.protocols.rna.denovo.setup.RNA_DeNovoPoseInitializer, pose: pyrosetta.rosetta.core.pose.Pose) -> None

C++: protocols::rna::denovo::setup::RNA_DeNovoPoseInitializer::setup_fold_tree_and_jumps_and_variants(class core::pose::Pose &) const –> void