Rosetta Protocols  2014.35
Public Member Functions | Protected Member Functions | Protected Attributes | Private Attributes | List of all members
protocols::abinitio::KinematicTaskControl Class Referenceabstract

#include <KinematicTaskControl.hh>

Public Member Functions

 KinematicTaskControl ()
 KinematicTaskControl (ProtocolOP sampler)
 ~KinematicTaskControl ()
virtual KinematicControlOP new_kinematics (core::pose::Pose &pose)=0
virtual void apply (core::pose::Pose &pose)
virtual std::string get_name () const
 Each derived class must specify its name. The class name. More...
virtual void init (core::pose::Pose const &pose)
KinematicControlOP current_kinematics ()
void set_input_pose_is_fa (bool setting=true)
ProtocolOP sampling_protocol ()
virtual checkpoint::CheckPointerget_checkpoints ()
- Public Member Functions inherited from protocols::abinitio::Protocol
 Protocol ()
 ~Protocol ()
void set_evaluation (evaluation::MetaPoseEvaluatorOP ev)
void add_evaluation (evaluation::PoseEvaluatorOP ev)
void evaluate_pose (core::pose::Pose &pose, std::string tag, core::io::silent::SilentStruct &pss) const
evaluation::MetaPoseEvaluatorOP evaluator ()
virtual void output_debug_structure (core::pose::Pose &pose, std::string prefix)
void set_kinematics (abinitio::KinematicControlOP kc)
abinitio::KinematicControl const & kinematics ()
virtual bool start_from_centroid () const
virtual bool return_centroid () const
virtual void return_centroid (bool setting)
void set_fullatom_scorefxn (core::scoring::ScoreFunctionOP sfxn)
void set_centroid_scorefxn (core::scoring::ScoreFunctionOP sfxn)
void set_silentout_file_name (std::string str)
core::scoring::ScoreFunctionOP fullatom_scorefxn ()
core::scoring::ScoreFunctionOP centroid_scorefxn ()
- Public Member Functions inherited from protocols::moves::Mover
 Mover ()
virtual ~Mover ()
virtual MoverSP create ()
virtual void apply (core::io::serialization::PipeMap &pmap)
virtual void parse_state (SerializableState const &state)
virtual void parse_def (utility::lua::LuaObject const &def, utility::lua::LuaObject const &score_fxns, utility::lua::LuaObject const &tasks, MoverCacheSP cache)
virtual void save_state (SerializableState &state)
 Mover (std::string const &type_name)
 sets the type for a mover; name_ has been removed (2010/05/14) More...
 Mover (Mover const &other)
Moveroperator= (Mover const &other)
 assignment operator More...
virtual core::Real last_proposal_density_ratio ()
std::string const & type () const
void set_type (std::string const &setting)
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...
void set_current_tag (std::string const &new_tag)
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
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...
void type (const std::string &type_in)
virtual MoverOP clone () const
 Return a clone of the Mover object. More...
virtual void parse_my_tag (TagCOP tag, basic::datacache::DataMap &data, Filters_map const &filters, Movers_map const &movers, Pose const &pose)
 Called by MoverFactory when constructing new Movers. Takes care of the specific mover's parsing. More...
std::string get_type () const
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...
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 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...
virtual MoverOP fresh_instance () const
 Generates a new Mover object freshly created with the default ctor. More...
void set_current_job (protocols::jobdist::BasicJobCOP job)
jobdist::BasicJobCOP get_current_job () const
virtual void show (std::ostream &output=std::cout) const
 Outputs details about the Mover, including current settings. More...

Protected Member Functions

virtual bool inner_loop (core::pose::Pose &pose)
void set_extended_torsions_and_idealize_loops (core::pose::Pose &pose, loops::Loops loops) const
ResolutionSwitcherres_switch ()
- 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...

Protected Attributes

KinematicControlOP current_kinematics_

Private Attributes

ResolutionSwitcherOP res_switch_
ProtocolOP sampling_protocol_
bool b_input_is_fullatom_

Additional Inherited Members

- Public Types inherited from protocols::abinitio::Protocol
typedef Mover BaseClass
- 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::stringStrings
- Static Public Member Functions inherited from protocols::abinitio::Protocol
static void register_options ()
- 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...

Constructor & Destructor Documentation

protocols::abinitio::KinematicTaskControl::KinematicTaskControl ( )
protocols::abinitio::KinematicTaskControl::KinematicTaskControl ( ProtocolOP  sampler)
protocols::abinitio::KinematicTaskControl::~KinematicTaskControl ( )

Member Function Documentation

void protocols::abinitio::KinematicTaskControl::apply ( core::pose::Pose pose)
KinematicControlOP protocols::abinitio::KinematicTaskControl::current_kinematics ( )
virtual checkpoint::CheckPointer& protocols::abinitio::KinematicTaskControl::get_checkpoints ( )

Reimplemented from protocols::abinitio::Protocol.

References sampling_protocol_.

std::string protocols::abinitio::KinematicTaskControl::get_name ( ) const

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

Reimplemented from protocols::abinitio::Protocol.

Reimplemented in protocols::abinitio::LoopJumpFoldCst, and protocols::abinitio::DoubleLayerKinematicAbinitio.

void protocols::abinitio::KinematicTaskControl::init ( core::pose::Pose const &  pose)

Reimplemented from protocols::abinitio::Protocol.

bool protocols::abinitio::KinematicTaskControl::inner_loop ( core::pose::Pose pose)
virtual KinematicControlOP protocols::abinitio::KinematicTaskControl::new_kinematics ( core::pose::Pose pose)
pure virtual
ResolutionSwitcher& protocols::abinitio::KinematicTaskControl::res_switch ( )

References res_switch_.

ProtocolOP protocols::abinitio::KinematicTaskControl::sampling_protocol ( )

References sampling_protocol_.

void protocols::abinitio::KinematicTaskControl::set_extended_torsions_and_idealize_loops ( core::pose::Pose pose,
loops::Loops  loops 
) const
void protocols::abinitio::KinematicTaskControl::set_input_pose_is_fa ( bool  setting = true)

References b_input_is_fullatom_.

Member Data Documentation

bool protocols::abinitio::KinematicTaskControl::b_input_is_fullatom_

Referenced by set_input_pose_is_fa().

KinematicControlOP protocols::abinitio::KinematicTaskControl::current_kinematics_

Referenced by current_kinematics().

ResolutionSwitcherOP protocols::abinitio::KinematicTaskControl::res_switch_

Referenced by res_switch().

ProtocolOP protocols::abinitio::KinematicTaskControl::sampling_protocol_

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