Public Member Functions | Private Attributes | List of all members
protocols::simple_moves::CombinePoseMover Class Reference

#include <CombinePoseMover.hh>

Inheritance diagram for protocols::simple_moves::CombinePoseMover:
Inheritance graph

Public Member Functions

 CombinePoseMover (core::scoring::ScoreFunctionCOP sfxn, core::pose::Pose const &pose_ref)
 ~CombinePoseMover () override
void apply (core::pose::Pose &pose2) override
 Main Method. More...
std::string get_name () const override
 Each derived class must specify its name. The class name. More...
void set_default ()
void set_max_struct (core::Size const n)
void set_max_try (core::Size const n)
void set_minfrac_crossover (core::Real const value)
void set_maxfrac_crossover (core::Real const value)
void set_nonideal (bool const setting)
void set_minimize (bool const setting)
void set_cartesian (bool const setting)
void set_rmsdcut (core::Real const setting)
core::Size max_struct () const
core::Size max_struct_try () const
core::pose::Pose const pose_ref () const
std::string pose_tag () const
void set_pose_tag (std::string const value)
void set_store_silents (bool const value)
std::vector< core::io::silent::SilentStructOPreturn_silent () const
void clear_combine_history ()
void append_combine_history (std::vector< core::Size > const v)
std::vector< std::vector< core::Size > > return_combine_history () const
- 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 MoverOP clone () const
 Return a clone of the Mover object. 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...
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
virtual void parse_my_tag (TagCOP tag, basic::datacache::DataMap &data)
 Called by MoverFactory when constructing new Movers. Takes care of the specific mover's parsing. More...
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...

Private Attributes

core::pose::Pose pose_ref_
core::Size max_struct_
core::Size max_struct_try_
core::Real minfrac_crossover_
core::Real maxfrac_crossover_
bool cartesian_crossover_
bool nonideal_
bool store_silents_
bool do_minimize_
std::string pose_tag_
core::scoring::ScoreFunctionCOP sfxn_
core::scoring::ScoreFunctionCOP sfxn0_
core::Real vdwcut_
core::Real rmsdcut_
std::vector< std::vector< core::Size > > combine_history_
std::vector< core::io::silent::SilentStructOPsampled_structures_

Additional Inherited Members

- 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
- 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...
- 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...

Constructor & Destructor Documentation

◆ CombinePoseMover()

protocols::simple_moves::CombinePoseMover::CombinePoseMover ( core::scoring::ScoreFunctionCOP  sfxn,
core::pose::Pose const &  pose_ref 

◆ ~CombinePoseMover()

protocols::simple_moves::CombinePoseMover::~CombinePoseMover ( )

Member Function Documentation

◆ append_combine_history()

void protocols::simple_moves::CombinePoseMover::append_combine_history ( std::vector< core::Size > const  v)

References combine_history_.

◆ apply()

void protocols::simple_moves::CombinePoseMover::apply ( core::pose::Pose )

◆ clear_combine_history()

void protocols::simple_moves::CombinePoseMover::clear_combine_history ( )

References combine_history_.

◆ get_name()

std::string protocols::simple_moves::CombinePoseMover::get_name ( ) const

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

Implements protocols::moves::Mover.

◆ max_struct()

core::Size protocols::simple_moves::CombinePoseMover::max_struct ( ) const

References max_struct_.

◆ max_struct_try()

core::Size protocols::simple_moves::CombinePoseMover::max_struct_try ( ) const

References max_struct_try_.

◆ pose_ref()

core::pose::Pose const protocols::simple_moves::CombinePoseMover::pose_ref ( ) const

References pose_ref_.

◆ pose_tag()

std::string protocols::simple_moves::CombinePoseMover::pose_tag ( ) const

References pose_tag_.

◆ return_combine_history()

std::vector< std::vector< core::Size > > protocols::simple_moves::CombinePoseMover::return_combine_history ( ) const

References combine_history_.

◆ return_silent()

std::vector< core::io::silent::SilentStructOP > protocols::simple_moves::CombinePoseMover::return_silent ( ) const

◆ set_cartesian()

void protocols::simple_moves::CombinePoseMover::set_cartesian ( bool const  setting)

◆ set_default()

void protocols::simple_moves::CombinePoseMover::set_default ( )

◆ set_max_struct()

void protocols::simple_moves::CombinePoseMover::set_max_struct ( core::Size const  n)

◆ set_max_try()

void protocols::simple_moves::CombinePoseMover::set_max_try ( core::Size const  n)

◆ set_maxfrac_crossover()

void protocols::simple_moves::CombinePoseMover::set_maxfrac_crossover ( core::Real const  value)

◆ set_minfrac_crossover()

void protocols::simple_moves::CombinePoseMover::set_minfrac_crossover ( core::Real const  value)

◆ set_minimize()

void protocols::simple_moves::CombinePoseMover::set_minimize ( bool const  setting)

References do_minimize_.

◆ set_nonideal()

void protocols::simple_moves::CombinePoseMover::set_nonideal ( bool const  setting)

◆ set_pose_tag()

void protocols::simple_moves::CombinePoseMover::set_pose_tag ( std::string const  value)

References pose_tag_.

◆ set_rmsdcut()

void protocols::simple_moves::CombinePoseMover::set_rmsdcut ( core::Real const  setting)

◆ set_store_silents()

void protocols::simple_moves::CombinePoseMover::set_store_silents ( bool const  value)

Member Data Documentation

◆ cartesian_crossover_

bool protocols::simple_moves::CombinePoseMover::cartesian_crossover_

Referenced by set_cartesian().

◆ combine_history_

std::vector< std::vector< core::Size > > protocols::simple_moves::CombinePoseMover::combine_history_

◆ do_minimize_

bool protocols::simple_moves::CombinePoseMover::do_minimize_

Referenced by set_minimize().

◆ max_struct_

core::Size protocols::simple_moves::CombinePoseMover::max_struct_

Referenced by max_struct(), and set_max_struct().

◆ max_struct_try_

core::Size protocols::simple_moves::CombinePoseMover::max_struct_try_

Referenced by max_struct_try(), and set_max_try().

◆ maxfrac_crossover_

core::Real protocols::simple_moves::CombinePoseMover::maxfrac_crossover_

Referenced by set_maxfrac_crossover().

◆ minfrac_crossover_

core::Real protocols::simple_moves::CombinePoseMover::minfrac_crossover_

Referenced by set_minfrac_crossover().

◆ nonideal_

bool protocols::simple_moves::CombinePoseMover::nonideal_

Referenced by set_nonideal().

◆ pose_ref_

core::pose::Pose protocols::simple_moves::CombinePoseMover::pose_ref_

Referenced by pose_ref().

◆ pose_tag_

std::string protocols::simple_moves::CombinePoseMover::pose_tag_

Referenced by pose_tag(), and set_pose_tag().

◆ rmsdcut_

core::Real protocols::simple_moves::CombinePoseMover::rmsdcut_

Referenced by set_rmsdcut().

◆ sampled_structures_

std::vector< core::io::silent::SilentStructOP > protocols::simple_moves::CombinePoseMover::sampled_structures_

Referenced by return_silent().

◆ sfxn0_

core::scoring::ScoreFunctionCOP protocols::simple_moves::CombinePoseMover::sfxn0_

◆ sfxn_

core::scoring::ScoreFunctionCOP protocols::simple_moves::CombinePoseMover::sfxn_

◆ store_silents_

bool protocols::simple_moves::CombinePoseMover::store_silents_

Referenced by set_store_silents().

◆ vdwcut_

core::Real protocols::simple_moves::CombinePoseMover::vdwcut_

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