protein¶

Bindings for protocols::stepwise::modeler::protein namespace

class pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo¶

Bases: pybind11_object

advance_to_next_pose_segment(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo) → None¶: C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::advance_to_next_pose_segment() –> void

apply_current_pose_segment(*args, **kwargs)¶

Overloaded function.

apply_current_pose_segment(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo, pose: pyrosetta.rosetta.core.pose.Pose) -> None

C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::apply_current_pose_segment(class core::pose::Pose &) –> void

apply_current_pose_segment(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo, pose: pyrosetta.rosetta.core.pose.Pose, import_pose: pyrosetta.rosetta.core.pose.Pose, check_sequence_matches: bool) -> None
apply_current_pose_segment(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo, pose: pyrosetta.rosetta.core.pose.Pose, import_pose: pyrosetta.rosetta.core.pose.Pose, check_sequence_matches: bool, align_pose_to_import_pose: bool) -> None

C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::apply_current_pose_segment(class core::pose::Pose &, class core::pose::Pose &, const bool, const bool) –> void

assign(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo, : pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo) → pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo¶: C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::operator=(const class protocols::stepwise::modeler::protein::InputStreamWithResidueInfo &) –> class protocols::stepwise::modeler::protein::InputStreamWithResidueInfo &

compute_size(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo) → int¶: C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::compute_size() –> unsigned long

copy_next_pose_segment(*args, **kwargs)¶

Overloaded function.

copy_next_pose_segment(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo, pose: pyrosetta.rosetta.core.pose.Pose) -> None

C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::copy_next_pose_segment(class core::pose::Pose &) –> void

copy_next_pose_segment(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo, pose: pyrosetta.rosetta.core.pose.Pose, import_pose: pyrosetta.rosetta.core.pose.Pose, check_sequence_matches: bool) -> None
copy_next_pose_segment(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo, pose: pyrosetta.rosetta.core.pose.Pose, import_pose: pyrosetta.rosetta.core.pose.Pose, check_sequence_matches: bool, align_pose_to_import_pose: bool) -> None

C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::copy_next_pose_segment(class core::pose::Pose &, class core::pose::Pose &, const bool, const bool) –> void

full_to_sub(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo) → pyrosetta.rosetta.std.map_unsigned_long_unsigned_long¶: C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::full_to_sub() –> class std::map<unsigned long, unsigned long, struct std::less<unsigned long>, class std::allocator<struct std::pair<const unsigned long, unsigned long> > > &

has_another_pose(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo) → bool¶: C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::has_another_pose() const –> bool

input_res(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo) → pyrosetta.rosetta.utility.vector1_unsigned_long¶: C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::input_res() –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &

pose_input_stream(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo) → pyrosetta.rosetta.core.import_pose.pose_stream.PoseInputStream¶: C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::pose_input_stream() –> class std::shared_ptr<class core::import_pose::pose_stream::PoseInputStream> &

reset(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo) → None¶: C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::reset() –> void

set_backbone_only(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo, setting: bool) → None¶: C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::set_backbone_only(const bool) –> void

set_full_to_sub(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo, full_to_sub: pyrosetta.rosetta.std.map_unsigned_long_unsigned_long) → None¶: C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::set_full_to_sub(const class std::map<unsigned long, unsigned long, struct std::less<unsigned long>, class std::allocator<struct std::pair<const unsigned long, unsigned long> > > &) –> void

set_rsd_set(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo, rsd_set: pyrosetta.rosetta.std.weak_ptr_const_core_chemical_ResidueTypeSet_t) → None¶: C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::set_rsd_set(class std::weak_ptr<const class core::chemical::ResidueTypeSet> &) –> void

set_slice_res(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo, slice_res: pyrosetta.rosetta.utility.vector1_unsigned_long) → None¶: C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::set_slice_res(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void

slice_res(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.InputStreamWithResidueInfo) → pyrosetta.rosetta.utility.vector1_unsigned_long¶: C++: protocols::stepwise::modeler::protein::InputStreamWithResidueInfo::slice_res() –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &

class pyrosetta.rosetta.protocols.stepwise.modeler.protein.MainChainTorsionSet¶

Bases: pybind11_object

assign(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.MainChainTorsionSet, src: pyrosetta.rosetta.protocols.stepwise.modeler.protein.MainChainTorsionSet) → pyrosetta.rosetta.protocols.stepwise.modeler.protein.MainChainTorsionSet¶: C++: protocols::stepwise::modeler::protein::MainChainTorsionSet::operator=(const class protocols::stepwise::modeler::protein::MainChainTorsionSet &) –> class protocols::stepwise::modeler::protein::MainChainTorsionSet &

mainchain_dihedral_values(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.MainChainTorsionSet) → pyrosetta.rosetta.utility.fixedsizearray1_double_4_t¶: C++: protocols::stepwise::modeler::protein::MainChainTorsionSet::mainchain_dihedral_values() const –> class utility::fixedsizearray1<double, 4>

omega(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.MainChainTorsionSet) → float¶: C++: protocols::stepwise::modeler::protein::MainChainTorsionSet::omega() const –> double

phi(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.MainChainTorsionSet) → float¶: C++: protocols::stepwise::modeler::protein::MainChainTorsionSet::phi() const –> double

psi(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.MainChainTorsionSet) → float¶: C++: protocols::stepwise::modeler::protein::MainChainTorsionSet::psi() const –> double

class pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler¶

Bases: Mover

apply(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, pose_to_visualize: pyrosetta.rosetta.core.pose.Pose) → None¶

Apply the minimizer to one pose

C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::apply(class core::pose::Pose &) –> void

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

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

Return a clone of the Mover object.

C++: protocols::moves::Mover::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>

expand_loop_takeoff(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler) → bool¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::expand_loop_takeoff() const –> bool

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

Generates a new Mover object freshly created with the default ctor.

C++: protocols::moves::Mover::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.

Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.

C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>

get_big_bin(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, phi: float, psi: float) → int¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::get_big_bin(const double, const double) const –> unsigned long

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.stepwise.modeler.protein.StepWiseProteinBackboneSampler) → str¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::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

info(self: pyrosetta.rosetta.protocols.moves.Mover) → pyrosetta.rosetta.std.list_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

main_chain_torsion_set_lists(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler) → pyrosetta.rosetta.utility.vector1_utility_vector1_protocols_stepwise_modeler_protein_MainChainTorsionSet_std_allocator_protocols_stepwise_modeler_protein_MainChainTorsionSet_t¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::main_chain_torsion_set_lists() const –> const class utility::vector1<class utility::vector1<class protocols::stepwise::modeler::protein::MainChainTorsionSet, class std::allocator<class protocols::stepwise::modeler::protein::MainChainTorsionSet> >, class std::allocator<class utility::vector1<class protocols::stepwise::modeler::protein::MainChainTorsionSet, class std::allocator<class protocols::stepwise::modeler::protein::MainChainTorsionSet> > > > &

main_chain_torsion_set_lists_real(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, pose: pyrosetta.rosetta.core.pose.Pose) → pyrosetta.rosetta.utility.vector1_utility_vector1_double_std_allocator_double_t¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::main_chain_torsion_set_lists_real(const class core::pose::Pose &) const –> class utility::vector1<class utility::vector1<double, class std::allocator<double> >, class std::allocator<class utility::vector1<double, class std::allocator<double> > > >

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

parse_my_tag(self: pyrosetta.rosetta.protocols.moves.Mover, tag: pyrosetta.rosetta.utility.tag.Tag, data: pyrosetta.rosetta.basic.datacache.DataMap) → None¶

Called by MoverFactory when constructing new Movers. Takes care of the specific mover’s parsing.

C++: protocols::moves::Mover::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void

provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) → None¶

Provide citations to the passed CitationCollectionList

Subclasses should add the info for themselves and any other classes they use.

The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.

C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void

static 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_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

set_apply_vdw_cut(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, setting: bool) → None¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::set_apply_vdw_cut(const bool) –> void

set_centroid_score_diff_cut(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, setting: float) → None¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::set_centroid_score_diff_cut(const double) –> void

set_centroid_scorefxn(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, scorefxn: pyrosetta.rosetta.core.scoring.ScoreFunction) → None¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::set_centroid_scorefxn(const class std::shared_ptr<class core::scoring::ScoreFunction> &) –> void

set_centroid_screen(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, setting: bool) → None¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::set_centroid_screen(const bool) –> void

set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) → None¶: 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 std::string &) –> void

set_expand_loop_takeoff(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, setting: bool) → None¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::set_expand_loop_takeoff(const bool) –> void

set_filter_native_big_bins(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, setting: bool) → None¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::set_filter_native_big_bins(const bool) –> void

set_fixed_residues(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, fixed_res: pyrosetta.rosetta.utility.vector1_unsigned_long) → None¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::set_fixed_residues(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void

set_ghost_loops(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, setting: bool) → None¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::set_ghost_loops(const bool) –> 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_moving_residues(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, moving_res: pyrosetta.rosetta.utility.vector1_unsigned_long) → None¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::set_moving_residues(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void

set_n_sample(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, setting: int) → None¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::set_n_sample(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_nstruct_centroid(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, setting: int) → None¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::set_nstruct_centroid(const unsigned long) –> void

set_rmsd_cutoff(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, setting: float) → None¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::set_rmsd_cutoff(const double) –> void

set_silent_file(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, setting: str) → None¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::set_silent_file(const std::string &) –> void

set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) → None¶

Set the ‘type’ string

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

setup_centroid_screen(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, centroid_score_diff_cut: float, centroid_weights: str, nstruct_centroid: int, ghost_loops: bool) → None¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::setup_centroid_screen(const double, const std::string &, const unsigned long, const bool) –> void

show(*args, **kwargs)¶

Overloaded function.

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

Outputs details about the Mover, including current settings.

C++: protocols::moves::Mover::show(std::ostream &) 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, type_in: str) -> None

Set the ‘type’ string

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

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

Get the set ‘type’ string

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

which_torsions(self: pyrosetta.rosetta.protocols.stepwise.modeler.protein.StepWiseProteinBackboneSampler, pose: pyrosetta.rosetta.core.pose.Pose) → pyrosetta.rosetta.utility.vector1_core_id_TorsionID¶: C++: protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::which_torsions(const class core::pose::Pose &) –> class utility::vector1<class core::id::TorsionID, class std::allocator<class core::id::TorsionID> >

pyrosetta.rosetta.protocols.stepwise.modeler.protein.contains_protein(*args, **kwargs)¶

Overloaded function.

contains_protein(pose: pyrosetta.rosetta.core.pose.Pose) -> bool
contains_protein(pose: pyrosetta.rosetta.core.pose.Pose, res_list: pyrosetta.rosetta.utility.vector1_unsigned_long) -> bool

C++: protocols::stepwise::modeler::protein::contains_protein(const class core::pose::Pose &, const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> bool

pyrosetta.rosetta.protocols.stepwise.modeler.protein.figure_out_protein_modeling_info(pose: pyrosetta.rosetta.core.pose.Pose, moving_res: int, moving_res_list: pyrosetta.rosetta.utility.vector1_unsigned_long) → None¶: C++: protocols::stepwise::modeler::protein::figure_out_protein_modeling_info(const class core::pose::Pose &, const unsigned long, class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void

pyrosetta.rosetta.protocols.stepwise.modeler.protein.get_bridge_res(pose: pyrosetta.rosetta.core.pose.Pose, moving_res_list: pyrosetta.rosetta.utility.vector1_unsigned_long) → pyrosetta.rosetta.utility.vector1_unsigned_long¶: C++: protocols::stepwise::modeler::protein::get_bridge_res(const class core::pose::Pose &, const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> class utility::vector1<unsigned long, class std::allocator<unsigned long> >

pyrosetta.rosetta.protocols.stepwise.modeler.protein.initialize_input_streams(input_streams: pyrosetta.rosetta.utility.vector1_std_shared_ptr_protocols_stepwise_modeler_protein_InputStreamWithResidueInfo_t) → None¶: C++: protocols::stepwise::modeler::protein::initialize_input_streams(class utility::vector1<class std::shared_ptr<class protocols::stepwise::modeler::protein::InputStreamWithResidueInfo>, class std::allocator<class std::shared_ptr<class protocols::stepwise::modeler::protein::InputStreamWithResidueInfo> > > &) –> void

pyrosetta.rosetta.protocols.stepwise.modeler.protein.initialize_input_streams_with_residue_info(input_streams_with_residue_info: pyrosetta.rosetta.utility.vector1_std_shared_ptr_protocols_stepwise_modeler_protein_InputStreamWithResidueInfo_t, pdb_tags: pyrosetta.rosetta.utility.vector1_std_string, silent_files_in: pyrosetta.rosetta.utility.vector1_std_string, input_res: pyrosetta.rosetta.utility.vector1_unsigned_long, input_res2: pyrosetta.rosetta.utility.vector1_unsigned_long) → None¶: C++: protocols::stepwise::modeler::protein::initialize_input_streams_with_residue_info(class utility::vector1<class std::shared_ptr<class protocols::stepwise::modeler::protein::InputStreamWithResidueInfo>, class std::allocator<class std::shared_ptr<class protocols::stepwise::modeler::protein::InputStreamWithResidueInfo> > > &, const class utility::vector1<std::string, class std::allocator<std::string > > &, const class utility::vector1<std::string, class std::allocator<std::string > > &, const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &, const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void

pyrosetta.rosetta.protocols.stepwise.modeler.protein.just_protein(res_list: pyrosetta.rosetta.utility.vector1_unsigned_long, pose: pyrosetta.rosetta.core.pose.Pose) → pyrosetta.rosetta.utility.vector1_unsigned_long¶: C++: protocols::stepwise::modeler::protein::just_protein(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &, const class core::pose::Pose &) –> class utility::vector1<unsigned long, class std::allocator<unsigned long> >

pyrosetta.rosetta.protocols.stepwise.modeler.protein.setup_pose_input_stream(option_s1: pyrosetta.rosetta.utility.options.StringVectorOption, option_silent1: pyrosetta.rosetta.utility.options.StringVectorOption, option_tags1: pyrosetta.rosetta.utility.options.StringVectorOption) → pyrosetta.rosetta.core.import_pose.pose_stream.PoseInputStream¶: C++: protocols::stepwise::modeler::protein::setup_pose_input_stream(const class utility::options::StringVectorOption &, const class utility::options::StringVectorOption &, const class utility::options::StringVectorOption &) –> class std::shared_ptr<class core::import_pose::pose_stream::PoseInputStream>

pyrosetta.rosetta.protocols.stepwise.modeler.protein.setup_protein_backbone_atom_id_map(pose_1: pyrosetta.rosetta.core.pose.Pose, pose_2: pyrosetta.rosetta.core.pose.Pose, base_res: int, base_res2: int, atom_ID_map: pyrosetta.rosetta.core.id.AtomID_Map_core_id_AtomID_t) → None¶: C++: protocols::stepwise::modeler::protein::setup_protein_backbone_atom_id_map(const class core::pose::Pose &, const class core::pose::Pose &, const unsigned long, const unsigned long, class core::id::AtomID_Map<class core::id::AtomID> &) –> void