rna¶

Bindings for core::chemical::rna namespace

class pyrosetta.rosetta.core.chemical.rna.GaussianParameter¶

Bases: pybind11_builtins.pybind11_object

__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.

__init__(self: pyrosetta.rosetta.core.chemical.rna.GaussianParameter, amplitude_in: float, center_in: float, width_in: float) -> None
__init__(self: pyrosetta.rosetta.core.chemical.rna.GaussianParameter, arg0: pyrosetta.rosetta.core.chemical.rna.GaussianParameter) -> 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.core.chemical.rna.GaussianParameter, : pyrosetta.rosetta.core.chemical.rna.GaussianParameter) → pyrosetta.rosetta.core.chemical.rna.GaussianParameter¶: C++: core::chemical::rna::GaussianParameter::operator=(const class core::chemical::rna::GaussianParameter &) –> class core::chemical::rna::GaussianParameter &

class pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo¶

Bases: pybind11_builtins.pybind11_object

__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.

__init__(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) -> None
__init__(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo, arg0: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) -> 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).

alpha_aform(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::alpha_aform() const –> double

beta_aform(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::beta_aform() const –> double

chi_north_anti(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::chi_north_anti() const –> double

chi_north_syn(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::chi_north_syn() const –> double

chi_south_anti(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::chi_south_anti() const –> double

chi_south_syn(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::chi_south_syn() const –> double

delta_cutoff(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::delta_cutoff() const –> double

delta_north(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::delta_north() const –> double

delta_south(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::delta_south() const –> double

epsilon_aform(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::epsilon_aform() const –> double

epsilon_north(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::epsilon_north() const –> double

epsilon_south(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::epsilon_south() const –> double

gamma_aform(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gamma_aform() const –> double

gaussian_parameter_set_alpha(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_alpha() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_beta(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_beta() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_chi_north(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_chi_north() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_chi_south(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_chi_south() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_delta_north(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_delta_north() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_delta_south(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_delta_south() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_epsilon_north(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_epsilon_north() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_epsilon_south(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_epsilon_south() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_gamma(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_gamma() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_nu1_north(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_nu1_north() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_nu1_south(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_nu1_south() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_nu2_north(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_nu2_north() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_nu2_south(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_nu2_south() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_zeta_alpha_ap(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_zeta_alpha_ap() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_zeta_alpha_sc_minus(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_zeta_alpha_sc_minus() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

gaussian_parameter_set_zeta_alpha_sc_plus(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → pyrosetta.rosetta.utility.vector1_core_chemical_rna_GaussianParameter¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::gaussian_parameter_set_zeta_alpha_sc_plus() const –> class utility::vector1<class core::chemical::rna::GaussianParameter, class std::allocator<class core::chemical::rna::GaussianParameter> >

nu1_north(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::nu1_north() const –> double

nu1_south(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::nu1_south() const –> double

nu2_north(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::nu2_north() const –> double

nu2_south(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::nu2_south() const –> double

zeta_aform(self: pyrosetta.rosetta.core.chemical.rna.RNA_FittedTorsionInfo) → float¶: C++: core::chemical::rna::RNA_FittedTorsionInfo::zeta_aform() const –> double

class pyrosetta.rosetta.core.chemical.rna.RNA_Info¶

Bases: pybind11_builtins.pybind11_object

//////////////////////////////////Parin S, Dec 23, 2011: RNA stuff//////////////////////////////////////////

RNA_base_atoms(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → pyrosetta.rosetta.utility.vector1_unsigned_long¶: C++: core::chemical::rna::RNA_Info::RNA_base_atoms() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &

__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.core.chemical.rna.RNA_Info) → 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.core.chemical.rna.RNA_Info, : pyrosetta.rosetta.core.chemical.rna.RNA_Info) → pyrosetta.rosetta.core.chemical.rna.RNA_Info¶: C++: core::chemical::rna::RNA_Info::operator=(const class core::chemical::rna::RNA_Info &) –> class core::chemical::rna::RNA_Info &

atom_is_phosphate(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info, atomno: int) → bool¶

quick lookup: is the atom with the given index is part of the RNA phosphate or not?

C++: core::chemical::rna::RNA_Info::atom_is_phosphate(const unsigned long) const –> bool

atom_is_virtual(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info, atomno: int) → bool¶: C++: core::chemical::rna::RNA_Info::atom_is_virtual(const unsigned long) const –> bool

c1prime_atom_index(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::c1prime_atom_index() const –> unsigned long

c2prime_atom_index(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::c2prime_atom_index() const –> unsigned long

c3prime_atom_index(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::c3prime_atom_index() const –> unsigned long

c4prime_atom_index(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::c4prime_atom_index() const –> unsigned long

c5prime_atom_index(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::c5prime_atom_index() const –> unsigned long

chi_number_pseudoalpha(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::chi_number_pseudoalpha() const –> unsigned long

chi_number_pseudobeta(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::chi_number_pseudobeta() const –> unsigned long

chi_number_pseudoepsilon(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::chi_number_pseudoepsilon() const –> unsigned long

chi_number_pseudogamma(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::chi_number_pseudogamma() const –> unsigned long

chi_number_pseudozeta(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::chi_number_pseudozeta() const –> unsigned long

ho2prime_index(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::ho2prime_index() const –> unsigned long

is_RNA_base(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → pyrosetta.rosetta.utility.vector1_bool¶: C++: core::chemical::rna::RNA_Info::is_RNA_base() const –> const class utility::vector1<bool, class std::allocator<bool> > &

is_RNA_base_atom(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info, atomno: int) → bool¶: C++: core::chemical::rna::RNA_Info::is_RNA_base_atom(const unsigned long) const –> bool

is_phosphate(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → pyrosetta.rosetta.utility.vector1_bool¶: C++: core::chemical::rna::RNA_Info::is_phosphate() const –> const class utility::vector1<bool, class std::allocator<bool> > &

is_virtual(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → pyrosetta.rosetta.utility.vector1_bool¶

/////////Fast lookup functions///////

C++: core::chemical::rna::RNA_Info::is_virtual() const –> const class utility::vector1<bool, class std::allocator<bool> > &

o2prime_index(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::o2prime_index() const –> unsigned long

o3prime_atom_index(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::o3prime_atom_index() const –> unsigned long

o4prime_atom_index(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::o4prime_atom_index() const –> unsigned long

o5prime_atom_index(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::o5prime_atom_index() const –> unsigned long

op1_atom_index(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::op1_atom_index() const –> unsigned long

op2_atom_index(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::op2_atom_index() const –> unsigned long

p_atom_index(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info) → int¶: C++: core::chemical::rna::RNA_Info::p_atom_index() const –> unsigned long

rna_update_last_controlling_chi(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info, residue_type_in: pyrosetta.rosetta.std.weak_ptr_const_core_chemical_ResidueType_t, last_controlling_chi: pyrosetta.rosetta.utility.vector1_unsigned_long, atoms_last_controlled_by_chi: pyrosetta.rosetta.utility.vector1_utility_vector1_unsigned_long_std_allocator_unsigned_long_t) → None¶: C++: core::chemical::rna::RNA_Info::rna_update_last_controlling_chi(class std::weak_ptr<const class core::chemical::ResidueType>, class utility::vector1<unsigned long, class std::allocator<unsigned long> > &, class utility::vector1<class utility::vector1<unsigned long, class std::allocator<unsigned long> >, class std::allocator<class utility::vector1<unsigned long, class std::allocator<unsigned long> > > > &) –> void

update_derived_rna_data(self: pyrosetta.rosetta.core.chemical.rna.RNA_Info, residue_type_in: pyrosetta.rosetta.std.weak_ptr_const_core_chemical_ResidueType_t) → None¶: C++: core::chemical::rna::RNA_Info::update_derived_rna_data(class std::weak_ptr<const class core::chemical::ResidueType>) –> void

pyrosetta.rosetta.core.chemical.rna.add_values_from_center(torsions: pyrosetta.rosetta.utility.vector1_double, center: float, max_range: float, bin_size: float) → None¶: C++: core::chemical::rna::add_values_from_center(class utility::vector1<double, class std::allocator<double> > &, const double, const double, const double) –> void

pyrosetta.rosetta.core.chemical.rna.chi1_torsion_atom(rsd: pyrosetta.rosetta.core.chemical.ResidueType) → str¶: C++: core::chemical::rna::chi1_torsion_atom(const class core::chemical::ResidueType &) –> const std::string

pyrosetta.rosetta.core.chemical.rna.chi1_torsion_atom_index(rsd: pyrosetta.rosetta.core.chemical.ResidueType) → int¶: C++: core::chemical::rna::chi1_torsion_atom_index(const class core::chemical::ResidueType &) –> unsigned long

pyrosetta.rosetta.core.chemical.rna.convert_acgu_to_1234(c: str) → int¶: C++: core::chemical::rna::convert_acgu_to_1234(const char) –> unsigned long

pyrosetta.rosetta.core.chemical.rna.default_jump_atom(rsd: pyrosetta.rosetta.core.chemical.ResidueType) → str¶: C++: core::chemical::rna::default_jump_atom(const class core::chemical::ResidueType &) –> const std::string

pyrosetta.rosetta.core.chemical.rna.first_base_atom(rsd: pyrosetta.rosetta.core.chemical.ResidueType) → str¶: C++: core::chemical::rna::first_base_atom(const class core::chemical::ResidueType &) –> const std::string

pyrosetta.rosetta.core.chemical.rna.first_base_atom_index(rsd: pyrosetta.rosetta.core.chemical.ResidueType) → int¶: C++: core::chemical::rna::first_base_atom_index(const class core::chemical::ResidueType &) –> unsigned long

pyrosetta.rosetta.core.chemical.rna.get_LW_orientation_from_char(o: str) → pyrosetta.rosetta.core.chemical.rna.LW_BaseDoubletOrientation¶: C++: core::chemical::rna::get_LW_orientation_from_char(const char) –> enum core::chemical::rna::LW_BaseDoubletOrientation

pyrosetta.rosetta.core.chemical.rna.get_WC_atom(res_type: pyrosetta.rosetta.core.chemical.AA) → str¶: C++: core::chemical::rna::get_WC_atom(const enum core::chemical::AA &) –> std::string

pyrosetta.rosetta.core.chemical.rna.get_edge_from_char(e: str) → pyrosetta.rosetta.core.chemical.rna.BaseEdge¶: C++: core::chemical::rna::get_edge_from_char(const char) –> enum core::chemical::rna::BaseEdge

pyrosetta.rosetta.core.chemical.rna.get_edge_from_num(num: int) → str¶: C++: core::chemical::rna::get_edge_from_num(const unsigned long) –> char

pyrosetta.rosetta.core.chemical.rna.get_epsilon_torsions(*args, **kwargs)¶

Overloaded function.

get_epsilon_torsions(delta: float, extra_epsilon: bool, bin_size: float) -> pyrosetta.rosetta.utility.vector1_double

C++: core::chemical::rna::get_epsilon_torsions(const double, const bool, const double) –> class utility::vector1<double, class std::allocator<double> >

get_epsilon_torsions(north_pucker: bool) -> pyrosetta.rosetta.utility.vector1_double
get_epsilon_torsions(north_pucker: bool, extra_epsilon: bool) -> pyrosetta.rosetta.utility.vector1_double
get_epsilon_torsions(north_pucker: bool, extra_epsilon: bool, bin_size: float) -> pyrosetta.rosetta.utility.vector1_double

C++: core::chemical::rna::get_epsilon_torsions(const bool, const bool, const double) –> class utility::vector1<double, class std::allocator<double> >

pyrosetta.rosetta.core.chemical.rna.get_full_LW_orientation_from_num(num: int) → str¶: C++: core::chemical::rna::get_full_LW_orientation_from_num(const unsigned long) –> std::string

pyrosetta.rosetta.core.chemical.rna.get_full_edge_from_num(num: int) → str¶: C++: core::chemical::rna::get_full_edge_from_num(const unsigned long) –> std::string

pyrosetta.rosetta.core.chemical.rna.get_full_orientation_from_num(num: int) → str¶: C++: core::chemical::rna::get_full_orientation_from_num(const unsigned long) –> std::string

pyrosetta.rosetta.core.chemical.rna.get_full_side_from_num(num: int) → str¶: C++: core::chemical::rna::get_full_side_from_num(const unsigned long) –> std::string

pyrosetta.rosetta.core.chemical.rna.get_full_torsions(*args, **kwargs)¶

Overloaded function.

get_full_torsions() -> pyrosetta.rosetta.utility.vector1_double
get_full_torsions(bin_size: float) -> pyrosetta.rosetta.utility.vector1_double

C++: core::chemical::rna::get_full_torsions(const double) –> class utility::vector1<double, class std::allocator<double> >

pyrosetta.rosetta.core.chemical.rna.get_orientation_from_char(o: str) → pyrosetta.rosetta.core.chemical.rna.BaseDoubletOrientation¶: C++: core::chemical::rna::get_orientation_from_char(const char) –> enum core::chemical::rna::BaseDoubletOrientation

pyrosetta.rosetta.core.chemical.rna.get_orientation_from_num(num: int) → str¶: C++: core::chemical::rna::get_orientation_from_num(const unsigned long) –> char

pyrosetta.rosetta.core.chemical.rna.get_residue_base_state(rsd: core::conformation::Residue) → pyrosetta.rosetta.core.chemical.rna.ChiState¶: C++: core::chemical::rna::get_residue_base_state(const class core::conformation::Residue &) –> enum core::chemical::rna::ChiState

pyrosetta.rosetta.core.chemical.rna.get_residue_pucker_state(rsd: core::conformation::Residue) → pyrosetta.rosetta.core.chemical.rna.PuckerState¶: C++: core::chemical::rna::get_residue_pucker_state(const class core::conformation::Residue &) –> enum core::chemical::rna::PuckerState

pyrosetta.rosetta.core.chemical.rna.get_rna_base_centroid(*args, **kwargs)¶

Overloaded function.

get_rna_base_centroid(rsd: core::conformation::Residue) -> pyrosetta.rosetta.numeric.xyzVector_double_t
get_rna_base_centroid(rsd: core::conformation::Residue, verbose: bool) -> pyrosetta.rosetta.numeric.xyzVector_double_t

C++: core::chemical::rna::get_rna_base_centroid(const class core::conformation::Residue &, bool) –> class numeric::xyzVector<double>

pyrosetta.rosetta.core.chemical.rna.get_rna_base_coordinate_system(rsd: core::conformation::Residue, centroid: pyrosetta.rosetta.numeric.xyzVector_double_t) → pyrosetta.rosetta.numeric.xyzMatrix_double_t¶: C++: core::chemical::rna::get_rna_base_coordinate_system(const class core::conformation::Residue &, const class numeric::xyzVector<double> &) –> class numeric::xyzMatrix<double>

pyrosetta.rosetta.core.chemical.rna.get_rna_base_coordinate_system_stub(rsd: core::conformation::Residue) → core::kinematics::Stub¶: C++: core::chemical::rna::get_rna_base_coordinate_system_stub(const class core::conformation::Residue &) –> class core::kinematics::Stub

pyrosetta.rosetta.core.chemical.rna.get_side_from_num(num: int) → str¶: C++: core::chemical::rna::get_side_from_num(const unsigned long) –> char

pyrosetta.rosetta.core.chemical.rna.get_watson_crick_base_pair_atoms(*args, **kwargs)¶

Overloaded function.

get_watson_crick_base_pair_atoms(rsd_type1: pyrosetta.rosetta.core.chemical.ResidueType, rsd_type2: pyrosetta.rosetta.core.chemical.ResidueType, atom1: str, atom2: str) -> None

C++: core::chemical::rna::get_watson_crick_base_pair_atoms(const class core::chemical::ResidueType &, const class core::chemical::ResidueType &, class std::basic_string<char> &, class std::basic_string<char> &) –> void

get_watson_crick_base_pair_atoms(rsd_type1: pyrosetta.rosetta.core.chemical.ResidueType, rsd_type2: pyrosetta.rosetta.core.chemical.ResidueType, atom_ids1: pyrosetta.rosetta.utility.vector1_std_string, atom_ids2: pyrosetta.rosetta.utility.vector1_std_string) -> None

C++: core::chemical::rna::get_watson_crick_base_pair_atoms(const class core::chemical::ResidueType &, const class core::chemical::ResidueType &, class utility::vector1<class std::basic_string<char>, class std::allocator<class std::basic_string<char> > > &, class utility::vector1<class std::basic_string<char>, class std::allocator<class std::basic_string<char> > > &) –> void

pyrosetta.rosetta.core.chemical.rna.is_base_phosphate_atom_pair(rsd_1: core::conformation::Residue, rsd_2: core::conformation::Residue, atomno_1: int, atomno_2: int) → bool¶: C++: core::chemical::rna::is_base_phosphate_atom_pair(const class core::conformation::Residue &, const class core::conformation::Residue &, const unsigned long, const unsigned long) –> bool

pyrosetta.rosetta.core.chemical.rna.possibly_canonical(aa1: pyrosetta.rosetta.core.chemical.AA, aa2: pyrosetta.rosetta.core.chemical.AA) → bool¶: C++: core::chemical::rna::possibly_canonical(const enum core::chemical::AA &, const enum core::chemical::AA &) –> bool

pyrosetta.rosetta.core.chemical.rna.possibly_canonical_strict(aa1: pyrosetta.rosetta.core.chemical.AA, aa2: pyrosetta.rosetta.core.chemical.AA) → bool¶: C++: core::chemical::rna::possibly_canonical_strict(const enum core::chemical::AA &, const enum core::chemical::AA &) –> bool

pyrosetta.rosetta.core.chemical.rna.rna_dna_match(aa1: pyrosetta.rosetta.core.chemical.AA, aa2: pyrosetta.rosetta.core.chemical.AA) → bool¶: C++: core::chemical::rna::rna_dna_match(const enum core::chemical::AA &, const enum core::chemical::AA &) –> bool