aa_composition¶

Bindings for protocols::aa_composition namespace

class pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover¶

Bases: pyrosetta.rosetta.protocols.moves.Mover

This mover adds sequence constraints to the ends of each helix, requiring at least one positively-charged residue in the three C-terminal residues, and at least one negatively-charged resiude in the three N-terminal 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.

__init__(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) -> None
__init__(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, arg0: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) -> 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__(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → str¶

__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_alanine_constraints(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → bool¶

Should this mover add constraints to the helix requiring a certain alanine fraction?

Default true.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::add_alanine_constraints() const –> bool

add_c_terminal_constraints(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → bool¶

Should this mover add constraints to the C-termini of helices requiring positive charges there?

Default true.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::add_c_terminal_constraints() const –> bool

add_hydrophobic_constraints(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → bool¶

Should this mover add constraints to the helix requiring at minimum fraction of hydrophobic residues?

Default true.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::add_hydrophobic_constraints() const –> bool

add_n_terminal_constraints(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → bool¶

Should this mover add constraints to the N-termini of helices requiring negative charges there?

Default true.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::add_n_terminal_constraints() const –> bool

add_overall_constraints(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → bool¶

Should this mover add constraints to the helix penalizing helix-disfavouring residue types?

Default true.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::add_overall_constraints() const –> bool

ala_constraint_over_strength(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → float¶

Get the penalty for having 1% more than the desired fractional content of alanine.

Penalties ramp quadratically.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::ala_constraint_over_strength() const –> const double &

ala_constraint_under_strength(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → float¶

Get the penalty for having 1% less than the desired fractional content of alanine.

Penalties ramp quadratically.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::ala_constraint_under_strength() const –> const double &

apply(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, pose: pyrosetta.rosetta.core.pose.Pose) → None¶

Apply the mover

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::apply(class core::pose::Pose &) –> void

assign(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, : pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover¶: C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::operator=(const class protocols::aa_composition::AddHelixSequenceConstraintsMover &) –> class protocols::aa_composition::AddHelixSequenceConstraintsMover &

c_terminal_constraint_strength(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → float¶

The weight given to the C-terminal constraints.

The mover applies a quadratic penalty for having fewer than the desired number of positive charges at the C-terminus of each helix. This is the penalty for having one fewer than the desired number. There is no penalty or bonus for having more than the desired number.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::c_terminal_constraint_strength() const –> const double &

c_terminus_size(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → int¶

The number of C-terminal residues in each helix, in which positive charges must be found.

Default 3.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::c_terminus_size() const –> unsigned long

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.aa_composition.AddHelixSequenceConstraintsMover) → pyrosetta.rosetta.protocols.moves.Mover¶

required in the context of the parser/scripting scheme

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::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>

desired_ala_fraction(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → float¶

Get the desired fractional content of alanine in each helix.

Penalties ramp quadratically.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::desired_ala_fraction() const –> const double &

desired_min_hydrophobic_fraction(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → float¶

Get the desired minimum hydrophobic fraction.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::desired_min_hydrophobic_fraction() const –> const double &

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

required in the context of the parser/scripting scheme

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::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.aa_composition.AddHelixSequenceConstraintsMover) → str¶: C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::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

has_residue_selector(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → bool¶

Has a residue selector been specified for this mover?

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::has_residue_selector() const –> bool

hydrophobic_constraint_strength(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → float¶

Get the strength of the hydrophobic constraint. (The penalty for having more than 1% less than the: desired minimum hydrophobic content.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::hydrophobic_constraint_strength() const –> const double &

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

min_c_terminal_charges(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → int¶

The number of positive charges required at the C-terminus of each helix.

Default 2.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::min_c_terminal_charges() const –> unsigned long

min_helix_length(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → int¶

Get the minimum number of residues in a helix for the helix to be considered.

Very short helices (e.g. one turn, five residues) have negligible helix macrodipoles, and can be disregarded. Defaults to 8.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::min_helix_length() const –> unsigned long

min_n_terminal_charges(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → int¶

The number of negative charges required at the N-terminus of each helix.

Default 2.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::min_n_terminal_charges() const –> unsigned long

mover_name() → str¶: C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::mover_name() –> std::string

n_terminal_constraint_strength(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → float¶

The weight given to the N-terminal constraints.

The mover applies a quadratic penalty for having fewer than the desired number of negative charges at the N-terminus of each helix. This is the penalty for having one fewer than the desired number. There is no penalty or bonus for having more than the desired number.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::n_terminal_constraint_strength() const –> const double &

n_terminus_size(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → int¶

The number of N-terminal residues in each helix, in which negative charges must be found.

Default 3.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::n_terminus_size() const –> unsigned long

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

overall_constraints_strength(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → float¶

Get the strength of the helix constraints that penalize helix-disfavouring residue types.

This is the penalty for having one more than the maximum count of the disfavoured residues. Past this, the penalty ramps quadratically.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::overall_constraints_strength() const –> const double &

overall_max_count(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → int¶

Max number of residues from the types to avoid list per helix.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::overall_max_count() const –> unsigned long

provide_xml_schema(xsd: pyrosetta.rosetta.utility.tag.XMLSchemaDefinition) → None¶: C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::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

reset_mode(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → bool¶

Get whether old composition constraints should be deleted before applying this mover.

Default false (i.e. new composition constraints are appended to the old).

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::reset_mode() const –> bool

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

residue_selector(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) → pyrosetta.rosetta.core.select.residue_selector.ResidueSelector¶

An optional residue selector. If provided, only helices that have at least one residue in the selection have: constraints applied. If unused, all heliecs receive constraints.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::residue_selector() const –> class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>

set_add_alanine_constraints(*args, **kwargs)¶

Overloaded function.

set_add_alanine_constraints(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, setting: bool) -> None

Set whether this mover should add constraints to the helix requiring a certain alanine fraction.

Default true.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::set_add_alanine_constraints(const bool) –> void

set_add_alanine_constraints(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, setting: bool, desired_ala_fraction: float, ala_constraint_under_strength: float, ala_constraint_over_strength: float) -> None

Set whether this mover should add constraints to the helix requiring a certain alanine fraction.

Default true.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::set_add_alanine_constraints(const bool, const double &, const double &, const double &) –> void

set_add_c_terminal_constraints(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, setting: bool, min_charges: int, cterm_size: int, strength: float) → None¶

Set whether this mover should add constraints to the C-termini of helices requiring positive charges there.

Default true.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::set_add_c_terminal_constraints(const bool, const unsigned long, const unsigned long, const double &) –> void

set_add_hydrophobic_constraints(*args, **kwargs)¶

Overloaded function.

set_add_hydrophobic_constraints(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, setting: bool) -> None

Set whether this mover should add constraints to the helix requiring at minimum fraction of hydrophobic residues.

Default true.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::set_add_hydrophobic_constraints(const bool) –> void

set_add_hydrophobic_constraints(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, setting: bool, desired_min_hydrophobic_fraction: float, hydrophobic_constraint_strength: float) -> None

Set whether this mover should add constraints to the helix requiring at minimum fraction of hydrophobic residues.

Default true.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::set_add_hydrophobic_constraints(const bool, const double &, const double &) –> void

set_add_n_terminal_constraints(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, setting: bool, min_charges: int, nterm_size: int, strength: float) → None¶

Set whether this mover should add constraints to the N-termini of helices requiring negative charges there.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::set_add_n_terminal_constraints(const bool, const unsigned long, const unsigned long, const double &) –> void

set_add_overall_constraints(*args, **kwargs)¶

Overloaded function.

set_add_overall_constraints(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, setting: bool) -> None

Set whether this mover should add constraints to the helix penalizing helix-disfavouring residue types.

Default true.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::set_add_overall_constraints(const bool) –> void

set_add_overall_constraints(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, setting: bool, types_to_avoid: str, overall_max_count: int, overall_constraints_strength: float) -> None

Set whether this mover should add constraints to the helix penalizing helix-disfavouring residue types.

Default true.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::set_add_overall_constraints(const bool, const class std::basic_string<char> &, const unsigned long, const double &) –> 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_min_helix_length(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, setting: int) → None¶

Set the minimum number of residues in a helix for the helix to be considered.

Very short helices (e.g. one turn, five residues) have negligible helix macrodipoles, and can be disregarded. Defaults to 8.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::set_min_helix_length(const unsigned long) –> 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_reset_mode(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, setting: bool) → None¶

Set whether old composition constraints should be deleted before applying this mover.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::set_reset_mode(const bool) –> void

set_residue_selector(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, selector_in: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) → None¶

Set a residue selector if specified by the user

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::set_residue_selector(class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>) –> 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

show(*args, **kwargs)¶

Overloaded function.

show(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) -> None
show(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, output: pyrosetta.rosetta.std.ostream) -> None

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::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.

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

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

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

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

types_to_avoid(*args, **kwargs)¶

Overloaded function.

types_to_avoid(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover) -> pyrosetta.rosetta.utility.vector1_std_string

Access the vector of types to avoid.

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::types_to_avoid() const –> const class utility::vector1<std::string, class std::allocator<std::string > > &

types_to_avoid(self: pyrosetta.rosetta.protocols.aa_composition.AddHelixSequenceConstraintsMover, index: int) -> str

Access an element in the vector of types to avoid.

Note: no bounds checking!

C++: protocols::aa_composition::AddHelixSequenceConstraintsMover::types_to_avoid(const unsigned long) const –> const std::string &

pyrosetta.rosetta.protocols.aa_composition.find_helices_over_length(pose: pyrosetta.rosetta.core.pose.Pose, helices: pyrosetta.rosetta.utility.vector1_std_pair_unsigned_long_unsigned_long_t, min_length: int) → None¶

Given a pose, run DSSP and populate the helices list.

Ignores helices shorter than min_length.

C++: protocols::aa_composition::find_helices_over_length(const class core::pose::Pose &, class utility::vector1<struct std::pair<unsigned long, unsigned long>, class std::allocator<struct std::pair<unsigned long, unsigned long> > > &, const unsigned long) –> void