Membrane Unit Test Mover Class. More...

#include <MembraneUnitTestMover.hh>

Public Member Functions
	MembraneUnitTestMover ()
	Standard Constructor. More...

	MembraneUnitTestMover (MembraneUnitTestMover const &src)
	Copy Constructor. More...

	~MembraneUnitTestMover ()
	Standard Destructor. More...

void	register_options ()
	Register Relevant Options. More...

void	init_from_cmd ()
	Initialize Options from the Command line. More...

core::pose::PoseOP	get_membrane_pose ()
	Return a Membrane pose. More...

core::pose::PoseOP	get_non_membrane_pose ()

virtual std::string	get_name () const
	Return the name of the Mover. More...

virtual protocols::moves::MoverOP	clone () const
	Clone Method. More...

virtual protocols::moves::MoverOP	fresh_instance () const
	Fresh Instance. More...

virtual void	apply (core::pose::Pose &pose)
	Apply the corresponding move to the pose. 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)

Mover &	operator= (Mover const &other)
	assignment operator More...

virtual core::Real	last_proposal_density_ratio ()

std::string const &	type () const

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...

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 Strings &	info ()
	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...

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
std::map< core::Size, std::string >	initialize_chains ()
	Initialize Chains. More...

core::pose::PoseOP	initialize_non_membrane_pose (std::map< core::Size, std::string > chain_descriptions)
	Make a Non membrane Pose. More...

Private Attributes
core::pose::PoseOP	membrane_pose_

core::pose::PoseOP	non_mp_pose_

bool	fullatom_

std::string	chains_

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 protocols::filters::Filters_map	Filters_map

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...

Detailed Description

Membrane Unit Test Mover Class.

Helper Mover class for testing the membrane protein factory

Constructor & Destructor Documentation

protocols::membrane::MembraneUnitTestMover::MembraneUnitTestMover ( )

Standard Constructor.

Constructors /////////////////////////////.

Standard Constructor

Referenced by clone(), and fresh_instance().

protocols::membrane::MembraneUnitTestMover::MembraneUnitTestMover ( MembraneUnitTestMover const & src )

Copy Constructor.

References membrane_pose_.

protocols::membrane::MembraneUnitTestMover::~MembraneUnitTestMover ( )

Standard Destructor.

Member Function Documentation

void protocols::membrane::MembraneUnitTestMover::apply ( core::pose::Pose & pose )

virtual

Apply the corresponding move to the pose.

Mover Apply.

Apply the corresponding move to the pose

Implements protocols::moves::Mover.

References chains_, fullatom_, initialize_chains(), initialize_non_membrane_pose(), membrane_pose_, non_mp_pose_, and protocols::TR.

protocols::moves::MoverOP protocols::membrane::MembraneUnitTestMover::clone ( ) const

virtual

Clone Method.

Reimplemented from protocols::moves::Mover.

References MembraneUnitTestMover().

protocols::moves::MoverOP protocols::membrane::MembraneUnitTestMover::fresh_instance ( ) const

virtual

Fresh Instance.

Reimplemented from protocols::moves::Mover.

References MembraneUnitTestMover().

core::pose::PoseOP protocols::membrane::MembraneUnitTestMover::get_membrane_pose ( )

Return a Membrane pose.

Mover Inherited Methods ////////////////////////.

Return your poses

References membrane_pose_.

std::string protocols::membrane::MembraneUnitTestMover::get_name ( ) const

virtual

Return the name of the Mover.

Implements protocols::moves::Mover.

core::pose::PoseOP protocols::membrane::MembraneUnitTestMover::get_non_membrane_pose ( )

References non_mp_pose_.

void protocols::membrane::MembraneUnitTestMover::init_from_cmd ( )

Initialize Options from the Command line.

References chains_, fullatom_, option, and user.

std::map< core::Size, std::string > protocols::membrane::MembraneUnitTestMover::initialize_chains ( )

private

Initialize Chains.

Initialize Chains List from Resource Options

References getline(), l, and option.

Referenced by apply().

core::pose::PoseOP protocols::membrane::MembraneUnitTestMover::initialize_non_membrane_pose ( std::map< core::Size, std::string > chain_descriptions )