#include <RemodelWorkingSet.hh>

Public Member Functions
	RemodelWorkingSet ()

	RemodelWorkingSet (RemodelWorkingSet const &rval)
	copy constructor. More...

RemodelWorkingSet &	operator= (RemodelWorkingSet const &rval)

	~RemodelWorkingSet ()

void	workingSetGen (core::pose::Pose const &input_pose, protocols::forge::remodel::RemodelData const &data)
	checks value of option -remodelgeneric_aa More...

void	manualPackerTaskGen (core::pose::Pose const &built_pose, protocols::forge::remodel::RemodelData const &data)
	Takes in a pose and remodel data objects and constructs a packer task for that pose. Uses the resfile string that was created while reading in the blueprint file. What happens if the resfile string is "" ? More...

Public Attributes
protocols::loops::Loops	loops
	If remodel loop setup is calling for n-terminus movement then return true, otherwise false. More...

int	safe_root_

std::string	sequence

std::string	ss

std::string	abego

std::map< int, int >	translate_index

std::vector< int >	begin

std::vector< int >	end

std::vector< int >	copy_begin

std::vector< int >	copy_end

std::vector< int >	src_begin

std::vector< int >	src_end

std::string	aa

bool	hasInsertion

protocols::forge::build::BuildManager	manager

core::pack::task::PackerTaskOP	task

core::pose::Pose	rvjump_pose

bool	buildDisulfide

ObjexxFCL::FArray2D_int	disulfide_jump_points

int	disulfide_cutpoint

std::string	disulfide_ss

int	insertionStartIndex

int	insertionEndIndex

ObjexxFCL::FArray2D_bool	design_matrix

Constructor & Destructor Documentation

protocols::forge::remodel::RemodelWorkingSet::RemodelWorkingSet ( )

protocols::forge::remodel::RemodelWorkingSet::RemodelWorkingSet ( RemodelWorkingSet const & rval )

copy constructor.

RemodelWorkingSet::RemodelWorkingSet( RemodelWorkingSet )

References abego, begin, end, hasInsertion, loops, sequence, and ss.

protocols::forge::remodel::RemodelWorkingSet::~RemodelWorkingSet ( )

inline

Member Function Documentation

void protocols::forge::remodel::RemodelWorkingSet::manualPackerTaskGen	(	core::pose::Pose const &	built_pose,
		protocols::forge::remodel::RemodelData const &	data
	)

Takes in a pose and remodel data objects and constructs a packer task for that pose. Uses the resfile string that was created while reading in the blueprint file. What happens if the resfile string is "" ?

RemodelWorkingSet::manualPackerTaskGen

References core::pack::task::TaskFactory::create_task_and_apply_taskoperations(), core::pack::task::parse_resfile_string(), protocols::forge::remodel::RemodelData::parsed_string_for_resfile, protocols::forge::methods::remodel_generic_taskfactory(), and task.

RemodelWorkingSet & protocols::forge::remodel::RemodelWorkingSet::operator= ( RemodelWorkingSet const & rval )

References abego, begin, copy_begin, copy_end, end, hasInsertion, loops, manager, rvjump_pose, sequence, src_begin, src_end, ss, task, and translate_index.

void protocols::forge::remodel::RemodelWorkingSet::workingSetGen	(	core::pose::Pose const &	input_pose,
		protocols::forge::remodel::RemodelData const &	data
	)

checks value of option -remodelgeneric_aa

RemodelWorkingSet::workingSetGen

Referenced by protocols::forge::remodel::RemodelEnzdesCstModule::apply(), and protocols::forge::remodel::RemodelMover::apply().

Member Data Documentation

std::string protocols::forge::remodel::RemodelWorkingSet::aa

Referenced by workingSetGen().

std::string protocols::forge::remodel::RemodelWorkingSet::abego

Referenced by protocols::forge::remodel::RemodelMover::centroid_build(), operator=(), RemodelWorkingSet(), and workingSetGen().

std::vector<int> protocols::forge::remodel::RemodelWorkingSet::begin

Referenced by operator=(), and workingSetGen().

bool protocols::forge::remodel::RemodelWorkingSet::buildDisulfide

std::vector<int> protocols::forge::remodel::RemodelWorkingSet::copy_begin

Referenced by operator=().

std::vector<int> protocols::forge::remodel::RemodelWorkingSet::copy_end

Referenced by operator=().

ObjexxFCL::FArray2D_bool protocols::forge::remodel::RemodelWorkingSet::design_matrix

int protocols::forge::remodel::RemodelWorkingSet::disulfide_cutpoint

ObjexxFCL::FArray2D_int protocols::forge::remodel::RemodelWorkingSet::disulfide_jump_points

std::string protocols::forge::remodel::RemodelWorkingSet::disulfide_ss

std::vector<int> protocols::forge::remodel::RemodelWorkingSet::end

Referenced by operator=(), and workingSetGen().

bool protocols::forge::remodel::RemodelWorkingSet::hasInsertion

Referenced by operator=(), and RemodelWorkingSet().

int protocols::forge::remodel::RemodelWorkingSet::insertionEndIndex

int protocols::forge::remodel::RemodelWorkingSet::insertionStartIndex

protocols::loops::Loops protocols::forge::remodel::RemodelWorkingSet::loops

If remodel loop setup is calling for n-terminus movement then return true, otherwise false.

build a fold tree for loop modeling using the defined loops

Note: builds directly from internal loop data and does not randomize cutpoints, so inside a fully stochastic loop building routine you most likely do not want to use this function

Referenced by operator=(), and workingSetGen().

protocols::forge::build::BuildManager protocols::forge::remodel::RemodelWorkingSet::manager

Referenced by protocols::forge::remodel::RemodelMover::apply(), operator=(), protocols::forge::remodel::RemodelDesignMover::RemodelDesignMover(), and workingSetGen().

core::pose::Pose protocols::forge::remodel::RemodelWorkingSet::rvjump_pose

Referenced by operator=().

int protocols::forge::remodel::RemodelWorkingSet::safe_root_

Referenced by protocols::forge::remodel::RemodelMover::apply(), and workingSetGen().

std::string protocols::forge::remodel::RemodelWorkingSet::sequence

Referenced by operator=(), RemodelWorkingSet(), and workingSetGen().

std::vector<int> protocols::forge::remodel::RemodelWorkingSet::src_begin

Referenced by operator=().

std::vector<int> protocols::forge::remodel::RemodelWorkingSet::src_end