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protocols::denovo_design::movers::BuildDeNovoBackboneMover Class Reference

#include <FoldArchitectMover.hh>

Inheritance diagram for protocols::denovo_design::movers::BuildDeNovoBackboneMover:
Inheritance graph
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Public Member Functions

std::string get_name () const override
 Each derived class must specify its name. The class name. More...
 
- Public Member Functions inherited from protocols::denovo_design::movers::FoldArchitectMover
 FoldArchitectMover ()
 
 ~FoldArchitectMover () override
 
protocols::moves::MoverOP fresh_instance () const override
 required in the context of the parser/scripting scheme More...
 
protocols::moves::MoverOP clone () const override
 required in the context of the parser/scripting scheme More...
 
void apply (core::pose::Pose &pose) override
 Main Method. More...
 
void parse_my_tag (utility::tag::TagCOP tag, basic::datacache::DataMap &data) override
 parse XML tag (to use this Mover in Rosetta Scripts) More...
 
std::string const & id () const
 
void set_id (std::string const &id_value)
 Sets the ID of this mover. More...
 
void set_architect (architects::DeNovoArchitect const &architect)
 Sets the architect that will be used to build blueprints dynamically. More...
 
void set_folder (components::PoseFolder const &folder)
 Sets the pose folder that will be used to sample conformations. More...
 
void set_folder (components::PoseFolderOP folder)
 Sets the pose folder that will be used to sample conformations. More...
 
void set_builder (components::PoseBuilder const &builder)
 Sets the pose builder that will be used to create the extended-chain pose. More...
 
void set_builder (components::PoseBuilderOP builder)
 Sets the pose builder that will be used to create the extended-chain pose. More...
 
void set_perturber (components::StructureDataPerturber const &perturber)
 Sets the perturber that will be used to change the plans of the architects. More...
 
void set_perturber (components::StructureDataPerturberOP perturber)
 Sets the perturber that will be used to change the plans of the architects. More...
 
void set_start_segments (std::string const &segments_csv)
 sets names of segments to be included in the starting build phase More...
 
void set_start_segments (SegmentNameSet const &segments)
 sets names of segments to be included in the starting build phase More...
 
void set_stop_segments (std::string const &segments_csv)
 sets names of segments to be included in the final build phase More...
 
void set_stop_segments (SegmentNameSet const &segments)
 sets names of segments to be included in the final build phase More...
 
void set_build_overlap (core::Size const overlap_val)
 Sets the number of residues of overlap to use between build phases. More...
 
void set_score_filter (protocols::filters::Filter const &filter)
 Sets the filter that will be used to evaluate the generated conformations. Used to return a score, not to evaluate true/false. More...
 
void setup_from_xml_file (std::string const &xml_file, basic::datacache::DataMap &data)
 Reads/parses an XML file and uses it to set up the mover. More...
 
void setup_from_xml_string (std::string const &xml_string, basic::datacache::DataMap &data)
 Reads/parses an XML string and uses it to set up the mover. More...
 
void setup_from_xml_tag (utility::tag::TagCOP tag, basic::datacache::DataMap &data)
 Reads/parses a Tag object and uses it to set up the mover. More...
 
void clear_prefold_movers ()
 Clears the list of prefold movers. More...
 
void add_prefold_mover (protocols::moves::Mover const &mover)
 Adds a mover to the list of prefold movers. More...
 
void clear_postfold_movers ()
 Clears the list of postfold movers. More...
 
void add_postfold_mover (protocols::moves::Mover const &mover)
 Adds a mover to the list of postfold movers. More...
 
void add_filter (protocols::filters::Filter const &filter)
 Adds a filter to the list of filters that indicate whether a given folding attempt is was successful or not. All filters must pass for a successful folding attempt. More...
 
void clear_filters ()
 Clears the list of filters used to indicate whether a given folding attempt is successful. More...
 
void set_dump_pdbs (bool const dump)
 If true, extra PDBs will be outputted for debugging purposes. Could be useful for figuring out why folding attempts are failing. If false, no extra files are outputted. More...
 
void set_debug (bool const debug)
 The debug value of the poseBuilder will be set based on this. More...
 
void set_iterations_per_phase (core::Size const niter)
 Sets the number of folding attempts for each build phase. More...
 
- Public Member Functions inherited from protocols::moves::Mover
 Mover ()
 
virtual MoverOP create ()
 
MoverCOP get_self_ptr () const
 
MoverOP get_self_ptr ()
 
MoverCAP get_self_weak_ptr () const
 
MoverAP get_self_weak_ptr ()
 
 Mover (std::string const &type_name)
 sets the type for a mover; name_ has been removed (2010/05/14) More...
 
virtual void test_move (Pose &pose)
 : Unit test support function. Apply one move to a given pose. Allows extra test specific functions to be called before applying More...
 
virtual bool reinitialize_for_each_job () const
 Inform the Job Distributor (August '08 vintage) whether this object needs to be freshly regenerated on each use. More...
 
virtual bool reinitialize_for_new_input () const
 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). More...
 
MoverStatus get_last_move_status () const
 end parser interface, start Job Distributor interface///////////// More...
 
void reset_status ()
 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. More...
 
virtual core::pose::PoseOP get_additional_output ()
 Mechanism by which a mover may return multiple output poses from a single input pose. More...
 
void set_type (std::string const &setting)
 Set the 'type' string. More...
 
std::string get_type () const
 
void type (const std::string &type_in)
 Set the 'type' string. More...
 
std::string const & type () const
 Get the set 'type' string. More...
 
virtual void set_input_pose (PoseCOP pose)
 setter for poses contained for rms More...
 
virtual void set_native_pose (PoseCOP pose)
 setter for native poses contained for rms -— we should get rid of this method? it is widely used, but a bit unsafe More...
 
PoseCOP get_input_pose () const
 
PoseCOP get_native_pose () const
 
void set_current_job (protocols::jobdist::BasicJobCOP job)
 
jobdist::BasicJobCOP get_current_job () const
 
virtual void set_current_tag (std::string const &new_tag)
 
std::string get_current_tag () const
 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. More...
 
virtual void show (std::ostream &output=std::cout) const
 Outputs details about the Mover, including current settings. More...
 
virtual core::Real last_proposal_density_ratio ()
 
virtual void clear_info ()
 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. More...
 
virtual Stringsinfo ()
 non-const accessor More...
 
virtual Strings const & info () const
 const accessor More...
 
virtual void provide_citation_info (basic::citation_manager::CitationCollectionList &) const
 Provide citations to the passed CitationCollectionList Subclasses should add the info for themselves and any other classes they use. More...
 

Static Public Member Functions

static std::string mover_name ()
 
static void provide_xml_schema (utility::tag::XMLSchemaDefinition &xsd)
 
- Static Public Member Functions inherited from protocols::denovo_design::movers::FoldArchitectMover
static std::string mover_name ()
 
static void provide_xml_schema (utility::tag::XMLSchemaDefinition &xsd)
 
static void provide_xml_schema_with_name (utility::tag::XMLSchemaDefinition &xsd, std::string const &mover_name)
 
- Static Public Member Functions inherited from protocols::moves::Mover
static std::string name ()
 
static void register_options ()
 Overload this static method if you access options within the mover. More...
 

Additional Inherited Members

- Public Types inherited from protocols::denovo_design::movers::FoldArchitectMover
typedef core::Real FoldScore
 
typedef utility::vector1
< connection::ConnectionArchitectCOP
ConnectionArchitectCOPs
 
typedef utility::vector1
< protocols::moves::MoverOP
MoverOPs
 
typedef utility::vector1
< protocols::filters::FilterCOP
FilterCOPs
 
typedef
core::select::residue_selector::ResidueVector 
ResidueVector
 
typedef
protocols::constraint_generator::ConstraintGeneratorOP 
ConstraintGeneratorOP
 
typedef
protocols::constraint_generator::ConstraintGeneratorCOP 
ConstraintGeneratorCOP
 
typedef
protocols::constraint_generator::ConstraintGeneratorCOPs 
ConstraintGeneratorCOPs
 
typedef components::RegisterShift RegisterShift
 
typedef
components::StrandOrientation 
StrandOrientation
 
- Public Types inherited from protocols::moves::Mover
typedef utility::tag::TagCOP TagCOP
 
typedef core::pose::Pose Pose
 
typedef core::pose::PoseCOP PoseCOP
 
typedef std::list< std::string > Strings
 
- Protected Member Functions inherited from protocols::moves::Mover
void set_last_move_status (MoverStatus status)
 nonvirtual setter for MoverStatus last_status_. Protected means that only the mover itself will be able to change its own status. The job distributor (august 08 vintage) is aware of status set with this function and will do what the MoverStatus says. More...
 

Member Function Documentation

std::string protocols::denovo_design::movers::BuildDeNovoBackboneMover::get_name ( ) const
overridevirtual

Each derived class must specify its name. The class name.

Reimplemented from protocols::denovo_design::movers::FoldArchitectMover.

References protocols::denovo_design::movers::FoldArchitectMover::mover_name().

std::string protocols::denovo_design::movers::BuildDeNovoBackboneMover::mover_name ( )
static
void protocols::denovo_design::movers::BuildDeNovoBackboneMover::provide_xml_schema ( utility::tag::XMLSchemaDefinition &  xsd)
static

The documentation for this class was generated from the following files: