Rosetta Protocols  2014.35
Public Member Functions | Private Member Functions | Private Attributes | List of all members
protocols::simple_moves::HelicalPeptideLengthMover Class Reference

#include <HelicalPeptideLengthMover.hh>

Public Member Functions

 HelicalPeptideLengthMover (core::Size const seqpos, std::string const resname, residue_addition_type const addition_type)
virtual void apply (core::pose::Pose &pose)
 Places and minimizes a PeptideStaple (i+4 or i+7, depending on staple_gap) at seqpos in pose. More...
virtual protocols::moves::MoverOP clone () const
 Return a clone of the Mover object. More...
- 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 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...
virtual std::string get_name () const =0
 Each derived class must specify its name. The class name. 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...

Private Member Functions

core::conformation::ResidueCOP create_residue_from_resname_ (std::string const resname)
void add_residue_ (core::pose::Pose &pose, core::Size const seqpos, core::conformation::ResidueCOP residue, residue_addition_type const append_prepend)

Private Attributes

core::Size seqpos_
std::string resname_
residue_addition_type addition_type_

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::stringStrings
- 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

protocols::simple_moves::HelicalPeptideLengthMover::HelicalPeptideLengthMover ( core::Size const  seqpos,
std::string const  resname,
residue_addition_type const  addition_type 

Member Function Documentation

void protocols::simple_moves::HelicalPeptideLengthMover::add_residue_ ( core::pose::Pose pose,
core::Size const  seqpos,
core::conformation::ResidueCOP  residue,
residue_addition_type const  append_prepend 
void protocols::simple_moves::HelicalPeptideLengthMover::apply ( core::pose::Pose pose)

Places and minimizes a PeptideStaple (i+4 or i+7, depending on staple_gap) at seqpos in pose.

Implements protocols::moves::Mover.

References add_residue_(), addition_type_, create_residue_from_resname_(), core::pose::Pose::num_jump(), residue, resname_, seqpos_, and protocols::simple_moves::TR.

virtual protocols::moves::MoverOP protocols::simple_moves::HelicalPeptideLengthMover::clone ( ) const

Return a clone of the Mover object.

clone is meant to return an OP'ed deep copy of this object. This really should be a pure virtual in the base class, but adding pure virtuals to Mover would massively disrupt the code. This default implementation crashes at runtime instead of compiletime if you try to call it. If this code is causing you problems, your Mover needs to override this function.

Reimplemented from protocols::moves::Mover.

References addition_type_, resname_, and seqpos_.

core::conformation::ResidueCOP protocols::simple_moves::HelicalPeptideLengthMover::create_residue_from_resname_ ( std::string const  resname)

Member Data Documentation

residue_addition_type protocols::simple_moves::HelicalPeptideLengthMover::addition_type_

Referenced by apply(), and clone().

std::string protocols::simple_moves::HelicalPeptideLengthMover::resname_

Referenced by apply(), and clone().

core::Size protocols::simple_moves::HelicalPeptideLengthMover::seqpos_

Referenced by apply(), and clone().

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