parametric

Bindings for core::conformation::parametric namespace

class pyrosetta.rosetta.core.conformation.parametric.Parameters

Bases: pybind11_builtins.pybind11_object

Parameters class, used to store sets of parameters for parametric backbone generation.

add_residue(self: pyrosetta.rosetta.core.conformation.parametric.Parameters, residue: pyrosetta.rosetta.core.conformation.Residue) → None

Add a residue to the list of residues that these parameters describe.

C++: core::conformation::parametric::Parameters::add_residue(class std::shared_ptr<const class core::conformation::Residue>) –> void

assign(self: pyrosetta.rosetta.core.conformation.parametric.Parameters, : pyrosetta.rosetta.core.conformation.parametric.Parameters) → pyrosetta.rosetta.core.conformation.parametric.Parameters

C++: core::conformation::parametric::Parameters::operator=(const class core::conformation::parametric::Parameters &) –> class core::conformation::parametric::Parameters &

clone(self: pyrosetta.rosetta.core.conformation.parametric.Parameters) → pyrosetta.rosetta.core.conformation.parametric.Parameters

Copy this residue( allocate actual memory for it )

C++: core::conformation::parametric::Parameters::clone() const –> class std::shared_ptr<class core::conformation::parametric::Parameters>

first_residue(self: pyrosetta.rosetta.core.conformation.parametric.Parameters) → pyrosetta.rosetta.core.conformation.Residue

Get a const owning pointer to the first residue in the list of residues that these parameters describe.

Note that this might not be the first residue in linear sequence, if the residues were put in in non-

sequential order or the residue numbering has changed.

C++: core::conformation::parametric::Parameters::first_residue() const –> class std::shared_ptr<const class core::conformation::Residue>

first_residue_index(self: pyrosetta.rosetta.core.conformation.parametric.Parameters) → int

Get the index of the first residue.

MUST BE REWRITTEN when the OP issue is resolved.

C++: core::conformation::parametric::Parameters::first_residue_index() const –> unsigned long

get_self_ptr(self: pyrosetta.rosetta.core.conformation.parametric.Parameters) → pyrosetta.rosetta.core.conformation.parametric.Parameters

C++: core::conformation::parametric::Parameters::get_self_ptr() –> class std::shared_ptr<class core::conformation::parametric::Parameters>

get_self_weak_ptr(self: pyrosetta.rosetta.core.conformation.parametric.Parameters) → pyrosetta.rosetta.std.weak_ptr_core_conformation_parametric_Parameters_t

C++: core::conformation::parametric::Parameters::get_self_weak_ptr() –> class std::weak_ptr<class core::conformation::parametric::Parameters>

last_residue(self: pyrosetta.rosetta.core.conformation.parametric.Parameters) → pyrosetta.rosetta.core.conformation.Residue

Get a const owning pointer to the last residue in the list of residues that these parameters describe.

Note that this might not be the last residue in linear sequence, if the residues were put in in non-

sequential order or the residue numbering has changed.

C++: core::conformation::parametric::Parameters::last_residue() const –> class std::shared_ptr<const class core::conformation::Residue>

last_residue_index(self: pyrosetta.rosetta.core.conformation.parametric.Parameters) → int

Get the index of the last residue.

MUST BE REWRITTEN when the OP issue is resolved.

C++: core::conformation::parametric::Parameters::last_residue_index() const –> unsigned long

n_residue(self: pyrosetta.rosetta.core.conformation.parametric.Parameters) → int

Returns the number (count) of residues that these parameters describe.

C++: core::conformation::parametric::Parameters::n_residue() const –> unsigned long

reset_residue_list(self: pyrosetta.rosetta.core.conformation.parametric.Parameters) → None

Clears the list of residues that these parameters describe.

C++: core::conformation::parametric::Parameters::reset_residue_list() –> void

residue(self: pyrosetta.rosetta.core.conformation.parametric.Parameters, index: int) → pyrosetta.rosetta.core.conformation.Residue

Get an owning pointer to a residue in the list of residues that these parameters describe.

C++: core::conformation::parametric::Parameters::residue(const unsigned long) –> class std::shared_ptr<const class core::conformation::Residue>

residue_cop(self: pyrosetta.rosetta.core.conformation.parametric.Parameters, index: int) → pyrosetta.rosetta.core.conformation.Residue

Get a const owning pointer to a residue in the list of residues that these parameters describe.

C++: core::conformation::parametric::Parameters::residue_cop(const unsigned long) const –> class std::shared_ptr<const class core::conformation::Residue>

set_residue(self: pyrosetta.rosetta.core.conformation.parametric.Parameters, index: int, existing_residue: pyrosetta.rosetta.core.conformation.Residue) → None

Assign an element in the residue list to be an owning pointer to an existing residue.

C++: core::conformation::parametric::Parameters::set_residue(const unsigned long, class std::shared_ptr<const class core::conformation::Residue>) –> void

class pyrosetta.rosetta.core.conformation.parametric.ParametersSet

Bases: pybind11_builtins.pybind11_object

ParametersSet class, used to store sets of parameters for parametric backbone generation.

add_parameters(self: pyrosetta.rosetta.core.conformation.parametric.ParametersSet, new_parameters: pyrosetta.rosetta.core.conformation.parametric.Parameters) → None

Add a Parameters object to the set included in this ParametersSet object.

C++: core::conformation::parametric::ParametersSet::add_parameters(class std::shared_ptr<class core::conformation::parametric::Parameters>) –> void

assign(self: pyrosetta.rosetta.core.conformation.parametric.ParametersSet, : pyrosetta.rosetta.core.conformation.parametric.ParametersSet) → pyrosetta.rosetta.core.conformation.parametric.ParametersSet

C++: core::conformation::parametric::ParametersSet::operator=(const class core::conformation::parametric::ParametersSet &) –> class core::conformation::parametric::ParametersSet &

clear_parameters_list(self: pyrosetta.rosetta.core.conformation.parametric.ParametersSet) → None

Delete all owning pointers in the parameters_ list and reset the list.

C++: core::conformation::parametric::ParametersSet::clear_parameters_list() –> void

clone(self: pyrosetta.rosetta.core.conformation.parametric.ParametersSet) → pyrosetta.rosetta.core.conformation.parametric.ParametersSet

Copy this residue( allocate actual memory for it )

C++: core::conformation::parametric::ParametersSet::clone() const –> class std::shared_ptr<class core::conformation::parametric::ParametersSet>

get_pdb_remark(self: pyrosetta.rosetta.core.conformation.parametric.ParametersSet, remark: pyrosetta.rosetta.std.stringstream) → None

Get a summary of this ParametersSet object, for output to remark lines of a PDB file.

Default function can be overridden by derived classes. The default message just says that the parameterization does not support output to PDB remark lines. Note that messages must have lines less than about fifty characters, or they get truncated in REMARK output.

C++: core::conformation::parametric::ParametersSet::get_pdb_remark(class std::basic_stringstream<char> &) const –> void

get_self_ptr(self: pyrosetta.rosetta.core.conformation.parametric.ParametersSet) → pyrosetta.rosetta.core.conformation.parametric.ParametersSet

C++: core::conformation::parametric::ParametersSet::get_self_ptr() –> class std::shared_ptr<class core::conformation::parametric::ParametersSet>

get_self_weak_ptr(self: pyrosetta.rosetta.core.conformation.parametric.ParametersSet) → pyrosetta.rosetta.std.weak_ptr_core_conformation_parametric_ParametersSet_t

C++: core::conformation::parametric::ParametersSet::get_self_weak_ptr() –> class std::weak_ptr<class core::conformation::parametric::ParametersSet>

n_parameters(self: pyrosetta.rosetta.core.conformation.parametric.ParametersSet) → int

Get the number of Parameters objects associated with this ParametersSet.

C++: core::conformation::parametric::ParametersSet::n_parameters() const –> unsigned long

parameters(self: pyrosetta.rosetta.core.conformation.parametric.ParametersSet, index: int) → pyrosetta.rosetta.core.conformation.parametric.Parameters

Get a Parameters object by index.

C++: core::conformation::parametric::ParametersSet::parameters(const unsigned long) –> class std::shared_ptr<class core::conformation::parametric::Parameters>

Only for copying Conformation objects, this ensures that the new ParametersSet object’s
Parameters objects have lists of ResidueOPs that point to residues in the new Conformation object, rather than to residues that only exist in the Parameters objects.

C++: core::conformation::parametric::ParametersSet::update_residue_links(class core::conformation::Conformation &) –> void