toolbox

Bindings for core::pose::toolbox namespace

class pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper

Bases: pybind11_object

assign(self: pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper, : pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper) → pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper

C++: core::pose::toolbox::AtomID_Mapper::operator=(const class core::pose::toolbox::AtomID_Mapper &) –> class core::pose::toolbox::AtomID_Mapper &

atom_ids_in_res(self: pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper, n: int) → pyrosetta.rosetta.utility.vector1_core_id_AtomID

C++: core::pose::toolbox::AtomID_Mapper::atom_ids_in_res(const unsigned long &) const –> const class utility::vector1<class core::id::AtomID, class std::allocator<class core::id::AtomID> > &

calculate_atom_id_map(*args, **kwargs)

Overloaded function.

  1. calculate_atom_id_map(self: pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper, target_pose: pyrosetta.rosetta.core.pose.Pose, res_map: pyrosetta.rosetta.std.map_unsigned_long_unsigned_long, source_fold_tree: pyrosetta.rosetta.core.kinematics.FoldTree) -> pyrosetta.rosetta.std.map_core_id_AtomID_core_id_AtomID

  2. calculate_atom_id_map(self: pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper, target_pose: pyrosetta.rosetta.core.pose.Pose, res_map: pyrosetta.rosetta.std.map_unsigned_long_unsigned_long, source_fold_tree: pyrosetta.rosetta.core.kinematics.FoldTree, source_mapper_to_vanilla: pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper) -> pyrosetta.rosetta.std.map_core_id_AtomID_core_id_AtomID

C++: core::pose::toolbox::AtomID_Mapper::calculate_atom_id_map(const class core::pose::Pose &, const class std::map<unsigned long, unsigned long, struct std::less<unsigned long>, class std::allocator<struct std::pair<const unsigned long, unsigned long> > > &, const class core::kinematics::FoldTree &, class std::shared_ptr<const class core::pose::toolbox::AtomID_Mapper>) const –> class std::map<class core::id::AtomID, class core::id::AtomID, struct std::less<class core::id::AtomID>, class std::allocator<struct std::pair<const class core::id::AtomID, class core::id::AtomID> > >

clone(self: pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper) → pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper

C++: core::pose::toolbox::AtomID_Mapper::clone() const –> class std::shared_ptr<class core::pose::toolbox::AtomID_Mapper>

has_atom_id(self: pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper, atom_id: pyrosetta.rosetta.core.id.AtomID) → bool

C++: core::pose::toolbox::AtomID_Mapper::has_atom_id(const class core::id::AtomID &) const –> bool

in_map_from_reference(self: pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper, atom_id: pyrosetta.rosetta.core.id.AtomID) → bool

C++: core::pose::toolbox::AtomID_Mapper::in_map_from_reference(const class core::id::AtomID &) const –> bool

map_from_reference(self: pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper, atom_id: pyrosetta.rosetta.core.id.AtomID) → pyrosetta.rosetta.core.id.AtomID

C++: core::pose::toolbox::AtomID_Mapper::map_from_reference(const class core::id::AtomID &) const –> const class core::id::AtomID &

map_to_reference(self: pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper, atom_id: pyrosetta.rosetta.core.id.AtomID) → pyrosetta.rosetta.core.id.AtomID

C++: core::pose::toolbox::AtomID_Mapper::map_to_reference(const class core::id::AtomID &) const –> const class core::id::AtomID &

nres(self: pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper) → int

C++: core::pose::toolbox::AtomID_Mapper::nres() const –> unsigned long

renumber_after_variant_changes(self: pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper, pose: pyrosetta.rosetta.core.pose.Pose) → None

C++: core::pose::toolbox::AtomID_Mapper::renumber_after_variant_changes(const class core::pose::Pose &) –> void

class pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap

Bases: pybind11_object

assign(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, : pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap) → pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap

C++: core::pose::toolbox::AtomLevelDomainMap::operator=(const class core::pose::toolbox::AtomLevelDomainMap &) –> class core::pose::toolbox::AtomLevelDomainMap &

atom_id_mapper(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap) → pyrosetta.rosetta.core.pose.toolbox.AtomID_Mapper

C++: core::pose::toolbox::AtomLevelDomainMap::atom_id_mapper() const –> class std::shared_ptr<const class core::pose::toolbox::AtomID_Mapper>

calculate_atom_id_domain_map(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, pose: pyrosetta.rosetta.core.pose.Pose) → pyrosetta.rosetta.std.map_core_id_AtomID_unsigned_long

C++: core::pose::toolbox::AtomLevelDomainMap::calculate_atom_id_domain_map(const class core::pose::Pose &) const –> class std::map<class core::id::AtomID, unsigned long, struct std::less<class core::id::AtomID>, class std::allocator<struct std::pair<const class core::id::AtomID, unsigned long> > >

clone(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap) → pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap

C++: core::pose::toolbox::AtomLevelDomainMap::clone() const –> class std::shared_ptr<class core::pose::toolbox::AtomLevelDomainMap>

disallow_movement_of_input_res(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, pose: pyrosetta.rosetta.core.pose.Pose) → None

C++: core::pose::toolbox::AtomLevelDomainMap::disallow_movement_of_input_res(const class core::pose::Pose &) –> void

get(*args, **kwargs)

Overloaded function.

  1. get(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, i: int) -> bool

C++: core::pose::toolbox::AtomLevelDomainMap::get(const unsigned long &) const –> bool

  1. get(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, atom_id: pyrosetta.rosetta.core.id.AtomID) -> bool

C++: core::pose::toolbox::AtomLevelDomainMap::get(const class core::id::AtomID &) const –> bool

  1. get(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, torsion_id: pyrosetta.rosetta.core.id.TorsionID, conformation: pyrosetta.rosetta.core.conformation.Conformation) -> bool

C++: core::pose::toolbox::AtomLevelDomainMap::get(const class core::id::TorsionID &, const class core::conformation::Conformation &) const –> bool

get_domain(*args, **kwargs)

Overloaded function.

  1. get_domain(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, i: int) -> int

C++: core::pose::toolbox::AtomLevelDomainMap::get_domain(const unsigned long &) const –> unsigned long

  1. get_domain(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, atom_id: pyrosetta.rosetta.core.id.AtomID) -> int

C++: core::pose::toolbox::AtomLevelDomainMap::get_domain(const class core::id::AtomID &) const –> unsigned long

  1. get_domain(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, named_atom_id: pyrosetta.rosetta.core.id.NamedAtomID, pose: pyrosetta.rosetta.core.pose.Pose) -> int

C++: core::pose::toolbox::AtomLevelDomainMap::get_domain(const class core::id::NamedAtomID &, const class core::pose::Pose &) const –> unsigned long

get_jump(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, jump_number: int, conformation: pyrosetta.rosetta.core.conformation.Conformation) → bool

C++: core::pose::toolbox::AtomLevelDomainMap::get_jump(const unsigned long &, const class core::conformation::Conformation &) const –> bool

has_domain(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, atom_id: pyrosetta.rosetta.core.id.AtomID) → bool

C++: core::pose::toolbox::AtomLevelDomainMap::has_domain(const class core::id::AtomID &) const –> bool

renumber_after_variant_changes(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, pose: pyrosetta.rosetta.core.pose.Pose) → None

C++: core::pose::toolbox::AtomLevelDomainMap::renumber_after_variant_changes(const class core::pose::Pose &) –> void

set(*args, **kwargs)

Overloaded function.

  1. set(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, i: int, setting: bool) -> None

C++: core::pose::toolbox::AtomLevelDomainMap::set(const unsigned long &, const bool &) –> void

  1. set(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, named_atom_id: pyrosetta.rosetta.core.id.NamedAtomID, pose: pyrosetta.rosetta.core.pose.Pose, setting: bool) -> None

C++: core::pose::toolbox::AtomLevelDomainMap::set(const class core::id::NamedAtomID &, const class core::pose::Pose &, const bool &) –> void

  1. set(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, atom_id: pyrosetta.rosetta.core.id.AtomID, setting: bool) -> None

C++: core::pose::toolbox::AtomLevelDomainMap::set(const class core::id::AtomID &, const bool &) –> void

  1. set(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, setting: bool) -> None

C++: core::pose::toolbox::AtomLevelDomainMap::set(const bool &) –> void

set_domain(*args, **kwargs)

Overloaded function.

  1. set_domain(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, i: int, setting: int) -> None

C++: core::pose::toolbox::AtomLevelDomainMap::set_domain(const unsigned long &, const unsigned long &) –> void

  1. set_domain(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, atom_id: pyrosetta.rosetta.core.id.AtomID, setting: int) -> None

  2. set_domain(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, atom_id: pyrosetta.rosetta.core.id.AtomID, setting: int, ok_if_missing: bool) -> None

C++: core::pose::toolbox::AtomLevelDomainMap::set_domain(const class core::id::AtomID &, const unsigned long &, bool) –> void

  1. set_domain(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, atom_id: pyrosetta.rosetta.core.id.NamedAtomID, pose: pyrosetta.rosetta.core.pose.Pose, setting: int) -> None

C++: core::pose::toolbox::AtomLevelDomainMap::set_domain(const class core::id::NamedAtomID &, const class core::pose::Pose &, const unsigned long &) –> void

  1. set_domain(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, setting: int) -> None

C++: core::pose::toolbox::AtomLevelDomainMap::set_domain(const unsigned long &) –> void

set_fixed_if_moving(*args, **kwargs)

Overloaded function.

  1. set_fixed_if_moving(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, i: int) -> None

C++: core::pose::toolbox::AtomLevelDomainMap::set_fixed_if_moving(const unsigned long &) –> void

  1. set_fixed_if_moving(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, atom_id: pyrosetta.rosetta.core.id.AtomID) -> None

C++: core::pose::toolbox::AtomLevelDomainMap::set_fixed_if_moving(const class core::id::AtomID &) –> void

set_phosphate(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, i: int, pose: pyrosetta.rosetta.core.pose.Pose, setting: bool) → None

C++: core::pose::toolbox::AtomLevelDomainMap::set_phosphate(const unsigned long &, const class core::pose::Pose &, const bool &) –> void

set_phosphate_domain(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, i: int, pose: pyrosetta.rosetta.core.pose.Pose, setting: int) → None

C++: core::pose::toolbox::AtomLevelDomainMap::set_phosphate_domain(const unsigned long &, const class core::pose::Pose &, const unsigned long &) –> void

set_sugar(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, i: int, pose: pyrosetta.rosetta.core.pose.Pose, setting: bool) → None

C++: core::pose::toolbox::AtomLevelDomainMap::set_sugar(const unsigned long &, const class core::pose::Pose &, const bool &) –> void

set_sugar_domain(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, i: int, pose: pyrosetta.rosetta.core.pose.Pose, setting: int) → None

C++: core::pose::toolbox::AtomLevelDomainMap::set_sugar_domain(const unsigned long &, const class core::pose::Pose &, const unsigned long &) –> void

setup_movemap(*args, **kwargs)

Overloaded function.

  1. setup_movemap(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, mm: pyrosetta.rosetta.core.kinematics.MoveMap, pose: pyrosetta.rosetta.core.pose.Pose) -> None

  2. setup_movemap(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, mm: pyrosetta.rosetta.core.kinematics.MoveMap, pose: pyrosetta.rosetta.core.pose.Pose, check_for_vrt_phos: bool) -> None

C++: core::pose::toolbox::AtomLevelDomainMap::setup_movemap(class core::kinematics::MoveMap &, const class core::pose::Pose &, const bool &) –> void

show(*args, **kwargs)

Overloaded function.

  1. show(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap) -> None

  2. show(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, out: pyrosetta.rosetta.std.ostream) -> None

C++: core::pose::toolbox::AtomLevelDomainMap::show(std::ostream &) const –> void

update_to_move_chunks_with_domain(self: pyrosetta.rosetta.core.pose.toolbox.AtomLevelDomainMap, domain: int) → None

C++: core::pose::toolbox::AtomLevelDomainMap::update_to_move_chunks_with_domain(const unsigned long &) –> void