residue_selectors

Bindings for protocols::residue_selectors namespace

class pyrosetta.rosetta.protocols.residue_selectors.HBondSelector

Bases: ResidueSelector

apply(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector, pose: pyrosetta.rosetta.core.pose.Pose) → pyrosetta.rosetta.utility.vector1_bool

“Apply” function.

Given the pose, generate a vector of bools with entries for every residue in the pose indicating whether each residue is selected (“true”) or not (“false”).

C++: protocols::residue_selectors::HBondSelector::apply(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >

assign(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector, : pyrosetta.rosetta.protocols.residue_selectors.HBondSelector) → pyrosetta.rosetta.protocols.residue_selectors.HBondSelector

C++: protocols::residue_selectors::HBondSelector::operator=(const class protocols::residue_selectors::HBondSelector &) –> class protocols::residue_selectors::HBondSelector &

static class_name() → str

Get the mover class name.

C++: protocols::residue_selectors::HBondSelector::class_name() –> std::string

clone(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector) → pyrosetta.rosetta.core.select.residue_selector.ResidueSelector

Clone function.

Copy this object and return owning pointer to the copy (created on the heap).

C++: protocols::residue_selectors::HBondSelector::clone() const –> class std::shared_ptr<class core::select::residue_selector::ResidueSelector>

get_hbond_energy_cutoff(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector) → float

Get the threshold for considering something to be a

hydrogen bond.

C++: protocols::residue_selectors::HBondSelector::get_hbond_energy_cutoff() const –> double

get_include_bb_bb(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector) → bool

Get whether backbone-backbone hydrogen bonds are included

C++: protocols::residue_selectors::HBondSelector::get_include_bb_bb() const –> bool

get_input_set_defined(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector) → bool

C++: protocols::residue_selectors::HBondSelector::get_input_set_defined() const –> bool

get_input_set_selector(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector) → pyrosetta.rosetta.core.select.residue_selector.ResidueSelector

C++: protocols::residue_selectors::HBondSelector::get_input_set_selector() const –> class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>

get_input_set_str(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector) → str

C++: protocols::residue_selectors::HBondSelector::get_input_set_str() const –> std::string

get_name(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector) → str

Get the mover class name.

C++: protocols::residue_selectors::HBondSelector::get_name() const –> std::string

get_scorefxn(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector) → pyrosetta.rosetta.core.scoring.ScoreFunction

Get the scorefunction.

C++: protocols::residue_selectors::HBondSelector::get_scorefxn() const –> class std::shared_ptr<const class core::scoring::ScoreFunction>

get_use_input_set_selector(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector) → bool

C++: protocols::residue_selectors::HBondSelector::get_use_input_set_selector() const –> bool

parse_my_tag(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector, tag: pyrosetta.rosetta.utility.tag.Tag, datamap: pyrosetta.rosetta.basic.datacache.DataMap) → None

XML parse.

Parse RosettaScripts tags and set up this mover.

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

provide_citation_info(self: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector, : 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 residue selectors wishing to provide citation information.

C++: core::select::residue_selector::ResidueSelector::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void

static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) → None

Provide XSD information, allowing automatic evaluation of bad XML.

C++: protocols::residue_selectors::HBondSelector::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void

selection_positions(self: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector, pose: pyrosetta.rosetta.core.pose.Pose) → pyrosetta.rosetta.utility.vector1_unsigned_long

Calls apply and returns the Rosetta numbering corresponding to the selected residues

C++: core::select::residue_selector::ResidueSelector::selection_positions(const class core::pose::Pose &) const –> class utility::vector1<unsigned long, class std::allocator<unsigned long> >

set_hbond_energy_cutoff(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector, input_value: float) → None

Set the threshold for considering something to be a

hydrogen bond.

C++: protocols::residue_selectors::HBondSelector::set_hbond_energy_cutoff(double) –> void

set_include_bb_bb(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector, input_setting: bool) → None

Set whether backbone-backbone hydrogen bonds are included

C++: protocols::residue_selectors::HBondSelector::set_include_bb_bb(const bool) –> void

set_input_set_selector(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector, : pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) → None

C++: protocols::residue_selectors::HBondSelector::set_input_set_selector(class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>) –> void

set_input_set_str(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector, : str) → None

C++: protocols::residue_selectors::HBondSelector::set_input_set_str(std::string) –> void

set_scorefxn(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelector, sfxn_in: pyrosetta.rosetta.core.scoring.ScoreFunction) → None

Set the scorefunction.

Clones the input.

C++: protocols::residue_selectors::HBondSelector::set_scorefxn(class std::shared_ptr<const class core::scoring::ScoreFunction>) –> void

class pyrosetta.rosetta.protocols.residue_selectors.HBondSelectorCreator

Bases: ResidueSelectorCreator

assign(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelectorCreator, : pyrosetta.rosetta.protocols.residue_selectors.HBondSelectorCreator) → pyrosetta.rosetta.protocols.residue_selectors.HBondSelectorCreator

C++: protocols::residue_selectors::HBondSelectorCreator::operator=(const class protocols::residue_selectors::HBondSelectorCreator &) –> class protocols::residue_selectors::HBondSelectorCreator &

create_residue_selector(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelectorCreator) → pyrosetta.rosetta.core.select.residue_selector.ResidueSelector

C++: protocols::residue_selectors::HBondSelectorCreator::create_residue_selector() const –> class std::shared_ptr<class core::select::residue_selector::ResidueSelector>

keyname(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelectorCreator) → str

C++: protocols::residue_selectors::HBondSelectorCreator::keyname() const –> std::string

provide_xml_schema(self: pyrosetta.rosetta.protocols.residue_selectors.HBondSelectorCreator, : utility::tag::XMLSchemaDefinition) → None

C++: protocols::residue_selectors::HBondSelectorCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void

class pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector

Bases: ResidueSelector

This residue selector takes a selector or residue number of a ligand and returns any residues in contact with metal atoms in the ligand.

apply(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector, pose: pyrosetta.rosetta.core.pose.Pose) → pyrosetta.rosetta.utility.vector1_bool

“Apply” function.

Given the pose, generate a vector of bools with entries for every residue in the pose indicating whether each residue is selected (“true”) or not (“false”).

C++: protocols::residue_selectors::LigandMetalContactSelector::apply(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >

assign(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector, : pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector) → pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector

C++: protocols::residue_selectors::LigandMetalContactSelector::operator=(const class protocols::residue_selectors::LigandMetalContactSelector &) –> class protocols::residue_selectors::LigandMetalContactSelector &

static class_name() → str

Get the mover class name.

C++: protocols::residue_selectors::LigandMetalContactSelector::class_name() –> std::string

clone(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector) → pyrosetta.rosetta.core.select.residue_selector.ResidueSelector

Clone operator.

Copy the current object (creating the copy on the heap) and return an owning pointer to the copy. All ResidueSelectors must implement this.

C++: protocols::residue_selectors::LigandMetalContactSelector::clone() const –> class std::shared_ptr<class core::select::residue_selector::ResidueSelector>

get_dist_cutoff_multiplier(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector) → float

C++: protocols::residue_selectors::LigandMetalContactSelector::get_dist_cutoff_multiplier() const –> double

get_input_set_selector(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector) → pyrosetta.rosetta.core.select.residue_selector.ResidueSelector

C++: protocols::residue_selectors::LigandMetalContactSelector::get_input_set_selector() const –> class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>

get_name(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector) → str

Get the mover class name.

C++: protocols::residue_selectors::LigandMetalContactSelector::get_name() const –> std::string

get_resnum_string(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector) → str

C++: protocols::residue_selectors::LigandMetalContactSelector::get_resnum_string() const –> std::string

get_using_a_resselect(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector) → bool

C++: protocols::residue_selectors::LigandMetalContactSelector::get_using_a_resselect() const –> bool

parse_my_tag(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector, tag: pyrosetta.rosetta.utility.tag.Tag, datamap: pyrosetta.rosetta.basic.datacache.DataMap) → None

XML parse.

Parse RosettaScripts tags and set up this mover.

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

provide_citation_info(self: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector, : 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 residue selectors wishing to provide citation information.

C++: core::select::residue_selector::ResidueSelector::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void

static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) → None

Provide XSD information, enabling mechanical validation of input XML.

C++: protocols::residue_selectors::LigandMetalContactSelector::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void

selection_positions(self: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector, pose: pyrosetta.rosetta.core.pose.Pose) → pyrosetta.rosetta.utility.vector1_unsigned_long

Calls apply and returns the Rosetta numbering corresponding to the selected residues

C++: core::select::residue_selector::ResidueSelector::selection_positions(const class core::pose::Pose &) const –> class utility::vector1<unsigned long, class std::allocator<unsigned long> >

set_dist_cutoff_multiplier(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector, : float) → None

C++: protocols::residue_selectors::LigandMetalContactSelector::set_dist_cutoff_multiplier(const double) –> void

set_input_set_selector(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector, : pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) → None

C++: protocols::residue_selectors::LigandMetalContactSelector::set_input_set_selector(class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>) –> void

set_resnum_string(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector, : str) → None

C++: protocols::residue_selectors::LigandMetalContactSelector::set_resnum_string(const std::string &) –> void

set_using_a_resselect(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelector, : bool) → None

C++: protocols::residue_selectors::LigandMetalContactSelector::set_using_a_resselect(bool) –> void

class pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelectorCreator

Bases: ResidueSelectorCreator

assign(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelectorCreator, : pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelectorCreator) → pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelectorCreator

C++: protocols::residue_selectors::LigandMetalContactSelectorCreator::operator=(const class protocols::residue_selectors::LigandMetalContactSelectorCreator &) –> class protocols::residue_selectors::LigandMetalContactSelectorCreator &

create_residue_selector(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelectorCreator) → pyrosetta.rosetta.core.select.residue_selector.ResidueSelector

C++: protocols::residue_selectors::LigandMetalContactSelectorCreator::create_residue_selector() const –> class std::shared_ptr<class core::select::residue_selector::ResidueSelector>

keyname(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelectorCreator) → str

C++: protocols::residue_selectors::LigandMetalContactSelectorCreator::keyname() const –> std::string

provide_xml_schema(self: pyrosetta.rosetta.protocols.residue_selectors.LigandMetalContactSelectorCreator, : utility::tag::XMLSchemaDefinition) → None

C++: protocols::residue_selectors::LigandMetalContactSelectorCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void

class pyrosetta.rosetta.protocols.residue_selectors.NativeSelector

Bases: ResidueSelector

apply(self: pyrosetta.rosetta.protocols.residue_selectors.NativeSelector, pose: pyrosetta.rosetta.core.pose.Pose) → pyrosetta.rosetta.utility.vector1_bool

Calls apply on the inner residue selector but passes the native pose instead of pose

C++: protocols::residue_selectors::NativeSelector::apply(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >

assign(self: pyrosetta.rosetta.protocols.residue_selectors.NativeSelector, : pyrosetta.rosetta.protocols.residue_selectors.NativeSelector) → pyrosetta.rosetta.protocols.residue_selectors.NativeSelector

C++: protocols::residue_selectors::NativeSelector::operator=(const class protocols::residue_selectors::NativeSelector &) –> class protocols::residue_selectors::NativeSelector &

static class_name() → str

Get the mover class name.

C++: protocols::residue_selectors::NativeSelector::class_name() –> std::string

clone(self: pyrosetta.rosetta.protocols.residue_selectors.NativeSelector) → pyrosetta.rosetta.core.select.residue_selector.ResidueSelector

Clone function.

Copy this object and return owning pointer to the copy.

C++: protocols::residue_selectors::NativeSelector::clone() const –> class std::shared_ptr<class core::select::residue_selector::ResidueSelector>

get_name(self: pyrosetta.rosetta.protocols.residue_selectors.NativeSelector) → str

Get the mover class name.

C++: protocols::residue_selectors::NativeSelector::get_name() const –> std::string

parse_my_tag(self: pyrosetta.rosetta.protocols.residue_selectors.NativeSelector, tag: pyrosetta.rosetta.utility.tag.Tag, datamap: pyrosetta.rosetta.basic.datacache.DataMap) → None

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

provide_citation_info(self: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector, : 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 residue selectors wishing to provide citation information.

C++: core::select::residue_selector::ResidueSelector::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void

static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) → None

Provide XSD information, allowing automatic evaluation of bad XML.

C++: protocols::residue_selectors::NativeSelector::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void

selection_positions(self: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector, pose: pyrosetta.rosetta.core.pose.Pose) → pyrosetta.rosetta.utility.vector1_unsigned_long

Calls apply and returns the Rosetta numbering corresponding to the selected residues

C++: core::select::residue_selector::ResidueSelector::selection_positions(const class core::pose::Pose &) const –> class utility::vector1<unsigned long, class std::allocator<unsigned long> >

set_native_pose(self: pyrosetta.rosetta.protocols.residue_selectors.NativeSelector, native: pyrosetta.rosetta.core.pose.Pose) → None

set the pose that will be passed to the inner residue selector

C++: protocols::residue_selectors::NativeSelector::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void

set_residue_selector(self: pyrosetta.rosetta.protocols.residue_selectors.NativeSelector, selector: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) → None

set the inner residue selector. This selector’s apply function will be called with the native pose

C++: protocols::residue_selectors::NativeSelector::set_residue_selector(class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>) –> void

class pyrosetta.rosetta.protocols.residue_selectors.NativeSelectorCreator

Bases: ResidueSelectorCreator

assign(self: pyrosetta.rosetta.protocols.residue_selectors.NativeSelectorCreator, : pyrosetta.rosetta.protocols.residue_selectors.NativeSelectorCreator) → pyrosetta.rosetta.protocols.residue_selectors.NativeSelectorCreator

C++: protocols::residue_selectors::NativeSelectorCreator::operator=(const class protocols::residue_selectors::NativeSelectorCreator &) –> class protocols::residue_selectors::NativeSelectorCreator &

create_residue_selector(self: pyrosetta.rosetta.protocols.residue_selectors.NativeSelectorCreator) → pyrosetta.rosetta.core.select.residue_selector.ResidueSelector

C++: protocols::residue_selectors::NativeSelectorCreator::create_residue_selector() const –> class std::shared_ptr<class core::select::residue_selector::ResidueSelector>

keyname(self: pyrosetta.rosetta.protocols.residue_selectors.NativeSelectorCreator) → str

C++: protocols::residue_selectors::NativeSelectorCreator::keyname() const –> std::string

provide_xml_schema(self: pyrosetta.rosetta.protocols.residue_selectors.NativeSelectorCreator, : utility::tag::XMLSchemaDefinition) → None

C++: protocols::residue_selectors::NativeSelectorCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void

class pyrosetta.rosetta.protocols.residue_selectors.StoreResidueSubsetMover

Bases: Mover

mover that can be used to save or restore a task at an arbitrary point during a rosetta scripts protocol. other task operations, movers, or filters can be set up to access tasks saved by this mover during their apply calls.

apply(self: pyrosetta.rosetta.protocols.residue_selectors.StoreResidueSubsetMover, pose: pyrosetta.rosetta.core.pose.Pose) → None

C++: protocols::residue_selectors::StoreResidueSubsetMover::apply(class core::pose::Pose &) –> void

assign(self: pyrosetta.rosetta.protocols.residue_selectors.StoreResidueSubsetMover, : pyrosetta.rosetta.protocols.residue_selectors.StoreResidueSubsetMover) → pyrosetta.rosetta.protocols.residue_selectors.StoreResidueSubsetMover

C++: protocols::residue_selectors::StoreResidueSubsetMover::operator=(const class protocols::residue_selectors::StoreResidueSubsetMover &) –> class protocols::residue_selectors::StoreResidueSubsetMover &

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.residue_selectors.StoreResidueSubsetMover) → pyrosetta.rosetta.protocols.moves.Mover

C++: protocols::residue_selectors::StoreResidueSubsetMover::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>

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

C++: protocols::residue_selectors::StoreResidueSubsetMover::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_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.residue_selectors.StoreResidueSubsetMover) → str

C++: protocols::residue_selectors::StoreResidueSubsetMover::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

static mover_name() → str

C++: protocols::residue_selectors::StoreResidueSubsetMover::mover_name() –> std::string

static name() → str

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

parse_my_tag(self: pyrosetta.rosetta.protocols.residue_selectors.StoreResidueSubsetMover, tag: pyrosetta.rosetta.utility.tag.Tag, data_map: pyrosetta.rosetta.basic.datacache.DataMap) → None

C++: protocols::residue_selectors::StoreResidueSubsetMover::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 provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) → None

C++: protocols::residue_selectors::StoreResidueSubsetMover::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> 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_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_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_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_subset(self: pyrosetta.rosetta.protocols.residue_selectors.StoreResidueSubsetMover, subset: pyrosetta.rosetta.utility.vector1_bool, name: str, overwrite: bool) → None

C++: protocols::residue_selectors::StoreResidueSubsetMover::set_subset(class std::shared_ptr<const class utility::vector1<bool, class std::allocator<bool> > >, std::string, bool) –> 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

show(*args, **kwargs)

Overloaded function.

1. show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None

2. 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.

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

Set the ‘type’ string

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

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

Get the set ‘type’ string

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

class pyrosetta.rosetta.protocols.residue_selectors.StoreResidueSubsetMoverCreator

Bases: MoverCreator

assign(self: pyrosetta.rosetta.protocols.residue_selectors.StoreResidueSubsetMoverCreator, : pyrosetta.rosetta.protocols.residue_selectors.StoreResidueSubsetMoverCreator) → pyrosetta.rosetta.protocols.residue_selectors.StoreResidueSubsetMoverCreator

C++: protocols::residue_selectors::StoreResidueSubsetMoverCreator::operator=(const class protocols::residue_selectors::StoreResidueSubsetMoverCreator &) –> class protocols::residue_selectors::StoreResidueSubsetMoverCreator &

create_mover(self: pyrosetta.rosetta.protocols.residue_selectors.StoreResidueSubsetMoverCreator) → pyrosetta.rosetta.protocols.moves.Mover

C++: protocols::residue_selectors::StoreResidueSubsetMoverCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>

keyname(self: pyrosetta.rosetta.protocols.residue_selectors.StoreResidueSubsetMoverCreator) → str

C++: protocols::residue_selectors::StoreResidueSubsetMoverCreator::keyname() const –> std::string

provide_xml_schema(self: pyrosetta.rosetta.protocols.residue_selectors.StoreResidueSubsetMoverCreator, xsd: utility::tag::XMLSchemaDefinition) → None

C++: protocols::residue_selectors::StoreResidueSubsetMoverCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void

class pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelector

Bases: ResidueSelector

The StoredResidueSubsetSelector returns a ResidueSubset, i.e. a utility::vector1< bool > containing ‘true’ for residue positions which are located near the given selected residues in primary sequence space

apply(self: pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelector, pose: pyrosetta.rosetta.core.pose.Pose) → pyrosetta.rosetta.utility.vector1_bool

C++: protocols::residue_selectors::StoredResidueSubsetSelector::apply(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >

assign(self: pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelector, : pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelector) → pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelector

C++: protocols::residue_selectors::StoredResidueSubsetSelector::operator=(const class protocols::residue_selectors::StoredResidueSubsetSelector &) –> class protocols::residue_selectors::StoredResidueSubsetSelector &

static class_name() → str

C++: protocols::residue_selectors::StoredResidueSubsetSelector::class_name() –> std::string

clone(self: pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelector) → pyrosetta.rosetta.core.select.residue_selector.ResidueSelector

Clone operator.

Copy this object and return an owning pointer to the new object.

C++: protocols::residue_selectors::StoredResidueSubsetSelector::clone() const –> class std::shared_ptr<class core::select::residue_selector::ResidueSelector>

get_name(self: pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelector) → str

C++: protocols::residue_selectors::StoredResidueSubsetSelector::get_name() const –> std::string

get_subset_name(self: pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelector) → str

C++: protocols::residue_selectors::StoredResidueSubsetSelector::get_subset_name() const –> const std::string &

parse_my_tag(self: pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelector, tag: pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) → None

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

provide_citation_info(self: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector, : 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 residue selectors wishing to provide citation information.

C++: core::select::residue_selector::ResidueSelector::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void

static provide_xml_schema(: utility::tag::XMLSchemaDefinition) → None

C++: protocols::residue_selectors::StoredResidueSubsetSelector::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void

selection_positions(self: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector, pose: pyrosetta.rosetta.core.pose.Pose) → pyrosetta.rosetta.utility.vector1_unsigned_long

Calls apply and returns the Rosetta numbering corresponding to the selected residues

C++: core::select::residue_selector::ResidueSelector::selection_positions(const class core::pose::Pose &) const –> class utility::vector1<unsigned long, class std::allocator<unsigned long> >

class pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelectorCreator

Bases: ResidueSelectorCreator

assign(self: pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelectorCreator, : pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelectorCreator) → pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelectorCreator

C++: protocols::residue_selectors::StoredResidueSubsetSelectorCreator::operator=(const class protocols::residue_selectors::StoredResidueSubsetSelectorCreator &) –> class protocols::residue_selectors::StoredResidueSubsetSelectorCreator &

create_residue_selector(self: pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelectorCreator) → pyrosetta.rosetta.core.select.residue_selector.ResidueSelector

C++: protocols::residue_selectors::StoredResidueSubsetSelectorCreator::create_residue_selector() const –> class std::shared_ptr<class core::select::residue_selector::ResidueSelector>

keyname(self: pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelectorCreator) → str

C++: protocols::residue_selectors::StoredResidueSubsetSelectorCreator::keyname() const –> std::string

provide_xml_schema(self: pyrosetta.rosetta.protocols.residue_selectors.StoredResidueSubsetSelectorCreator, : utility::tag::XMLSchemaDefinition) → None

C++: protocols::residue_selectors::StoredResidueSubsetSelectorCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void

class pyrosetta.rosetta.protocols.residue_selectors.TaskSelector

Bases: ResidueSelector

The TaskSelector returns a ResidueSubset, i.e. a utility::vector1< bool > containing ‘true’ for residue positions which are located near the given selected residues in primary sequence space

apply(self: pyrosetta.rosetta.protocols.residue_selectors.TaskSelector, pose: pyrosetta.rosetta.core.pose.Pose) → pyrosetta.rosetta.utility.vector1_bool

C++: protocols::residue_selectors::TaskSelector::apply(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >

assign(self: pyrosetta.rosetta.protocols.residue_selectors.TaskSelector, : pyrosetta.rosetta.protocols.residue_selectors.TaskSelector) → pyrosetta.rosetta.protocols.residue_selectors.TaskSelector

C++: protocols::residue_selectors::TaskSelector::operator=(const class protocols::residue_selectors::TaskSelector &) –> class protocols::residue_selectors::TaskSelector &

static class_name() → str

C++: protocols::residue_selectors::TaskSelector::class_name() –> std::string

clone(self: pyrosetta.rosetta.protocols.residue_selectors.TaskSelector) → pyrosetta.rosetta.core.select.residue_selector.ResidueSelector

Clone operator.

Copy this object and return an owning pointer to the new object.

C++: protocols::residue_selectors::TaskSelector::clone() const –> class std::shared_ptr<class core::select::residue_selector::ResidueSelector>

get_name(self: pyrosetta.rosetta.protocols.residue_selectors.TaskSelector) → str

C++: protocols::residue_selectors::TaskSelector::get_name() const –> std::string

parse_my_tag(self: pyrosetta.rosetta.protocols.residue_selectors.TaskSelector, tag: pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) → None

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

provide_citation_info(self: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector, : 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 residue selectors wishing to provide citation information.

C++: core::select::residue_selector::ResidueSelector::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void

static provide_xml_schema(: utility::tag::XMLSchemaDefinition) → None

C++: protocols::residue_selectors::TaskSelector::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void

selection_positions(self: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector, pose: pyrosetta.rosetta.core.pose.Pose) → pyrosetta.rosetta.utility.vector1_unsigned_long

Calls apply and returns the Rosetta numbering corresponding to the selected residues

C++: core::select::residue_selector::ResidueSelector::selection_positions(const class core::pose::Pose &) const –> class utility::vector1<unsigned long, class std::allocator<unsigned long> >

set_select_designable(self: pyrosetta.rosetta.protocols.residue_selectors.TaskSelector, sel_designable: bool) → None

C++: protocols::residue_selectors::TaskSelector::set_select_designable(const bool) –> void

set_select_fixed(self: pyrosetta.rosetta.protocols.residue_selectors.TaskSelector, sel_fixed: bool) → None

C++: protocols::residue_selectors::TaskSelector::set_select_fixed(const bool) –> void

set_select_packable(self: pyrosetta.rosetta.protocols.residue_selectors.TaskSelector, sel_packable: bool) → None

C++: protocols::residue_selectors::TaskSelector::set_select_packable(const bool) –> void

set_task_factory(self: pyrosetta.rosetta.protocols.residue_selectors.TaskSelector, tf: pyrosetta.rosetta.core.pack.task.TaskFactory) → None

C++: protocols::residue_selectors::TaskSelector::set_task_factory(class std::shared_ptr<class core::pack::task::TaskFactory>) –> void

class pyrosetta.rosetta.protocols.residue_selectors.TaskSelectorCreator

Bases: ResidueSelectorCreator

assign(self: pyrosetta.rosetta.protocols.residue_selectors.TaskSelectorCreator, : pyrosetta.rosetta.protocols.residue_selectors.TaskSelectorCreator) → pyrosetta.rosetta.protocols.residue_selectors.TaskSelectorCreator

C++: protocols::residue_selectors::TaskSelectorCreator::operator=(const class protocols::residue_selectors::TaskSelectorCreator &) –> class protocols::residue_selectors::TaskSelectorCreator &

create_residue_selector(self: pyrosetta.rosetta.protocols.residue_selectors.TaskSelectorCreator) → pyrosetta.rosetta.core.select.residue_selector.ResidueSelector

C++: protocols::residue_selectors::TaskSelectorCreator::create_residue_selector() const –> class std::shared_ptr<class core::select::residue_selector::ResidueSelector>

keyname(self: pyrosetta.rosetta.protocols.residue_selectors.TaskSelectorCreator) → str

C++: protocols::residue_selectors::TaskSelectorCreator::keyname() const –> std::string

provide_xml_schema(self: pyrosetta.rosetta.protocols.residue_selectors.TaskSelectorCreator, : utility::tag::XMLSchemaDefinition) → None

C++: protocols::residue_selectors::TaskSelectorCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void