protocols::checkpoint::CheckPointer Class Reference

#include <CheckPointer.hh>

Public Member Functions
	CheckPointer (std::string const &type)
virtual	~CheckPointer ()
void	clear_checkpoints ()
void	flush_checkpoints ()
bool	recover_checkpoint (core::pose::Pose &pose, moves::MonteCarlo *mc, std::string const &current_tag, std::string const &id, bool fullatom=false, bool foldtree=false)
bool	recover_checkpoint (core::pose::Pose &pose, moves::MonteCarloOP mc, std::string const &current_tag, std::string const &id, bool fullatom=false, bool foldtree=false)
bool	recover_checkpoint (core::pose::Pose &pose, std::string const &current_tag, std::string const &id, bool fullatom=false, bool foldtree=false)
void	checkpoint (core::pose::Pose &pose, moves::MonteCarlo *mc, std::string const &current_tag, std::string const &id, bool foldtree=false)
void	checkpoint (core::pose::Pose &pose, moves::MonteCarloOP mc, std::string const &current_tag, std::string const &id, bool foldtree=false)
void	checkpoint (core::pose::Pose &pose, std::string const &current_tag, std::string const &id, bool foldtree=false)
std::string const &	type () const
void	set_type (const std::string &new_type)
void	debug (const std::string &tag, const std::string &label, core::Real data1, core::Real data2=0.0, core::Real data3=0.0) const
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void	set_disabled (bool value=true)
bool	get_disabled () const
core::Size	get_checkpoint_recoveries () const

Private Member Functions
core::Size	file_buffer_size ()

Private Attributes
std::string	type_
std::vector< std::string >	checkpoint_ids_
bool	disabled_
bool	delete_checkpoints_
core::Size	count_checkpoint_recoveries_
std::vector< FileBuffer >	file_buffer

Constructor & Destructor Documentation

protocols::checkpoint::CheckPointer::CheckPointer

(

std::string const &

type

)

References delete_checkpoints_, disabled_, and option.

virtual protocols::checkpoint::CheckPointer::~CheckPointer ( )

inlinevirtual

References clear_checkpoints().

Member Function Documentation

void protocols::checkpoint::CheckPointer::checkpoint	(	core::pose::Pose &	pose,
		moves::MonteCarlo *	mc,
		std::string const &	current_tag,
		std::string const &	id,
		bool	foldtree = false
	)

References protocols::boinc::watchdog::bailout_mutex, protocols::boinc::watchdog::bailout_silent_structure, protocols::boinc::watchdog::bailout_silent_structure_header, checkpoint_ids_, disabled_, file_buffer, file_buffer_size(), flush_checkpoints(), core::pose::Pose::is_fullatom(), protocols::checkpoint::Timer::is_on(), protocols::moves::MonteCarlo::last_accepted_pose(), protocols::moves::MonteCarlo::lowest_score_pose(), protocols::checkpoint::pose_to_binary_silent_file(), protocols::checkpoint::Timer::reset(), numeric::random::RandomGenerator::saveAllStates(), protocols::checkpoint::FileBuffer::set_contents(), ss, protocols::checkpoint::Timer::time_to_checkpoint(), core::pose::Pose::total_residue(), protocols::checkpoint::TR, and type().

Referenced by protocols::relax::ClassicRelax::apply(), protocols::comparative_modeling::LoopRelaxMover::apply(), protocols::relax::FastRelax::apply(), protocols::abinitio::ClassicAbinitio::apply(), checkpoint(), protocols::abinitio::MembraneAbinitio::checkpoint(), protocols::abinitio::FragmentSampler::checkpointed_cycle_block(), protocols::jumping::close_chainbreaks(), protocols::abinitio::AbrelaxApplication::close_loops(), protocols::abinitio::FragmentSampler::do_stage3_cycles(), protocols::abinitio::ClassicAbinitio::do_stage3_cycles(), protocols::abinitio::FragmentSampler::do_stage4_cycles(), protocols::abinitio::ClassicAbinitio::do_stage4_cycles(), protocols::abinitio::AbrelaxApplication::fold(), and protocols::abinitio::AbrelaxApplication::relax().

void protocols::checkpoint::CheckPointer::checkpoint ( core::pose::Pose &  pose, moves::MonteCarloOP  mc, std::string const &  current_tag, std::string const &  id, bool  foldtree = false  )

inline

References checkpoint().

void protocols::checkpoint::CheckPointer::checkpoint ( core::pose::Pose &  pose, std::string const &  current_tag, std::string const &  id, bool  foldtree = false  )

inline

References checkpoint().

void protocols::checkpoint::CheckPointer::clear_checkpoints

(

void

)

References checkpoint_ids_, delete_checkpoints_, disabled_, file_buffer, utility::file::file_delete(), protocols::checkpoint::TR, and type().

Referenced by protocols::relax::FastRelax::apply(), protocols::abinitio::MembraneAbinitio::clear_checkpoints(), protocols::abinitio::AbrelaxApplication::fold(), and ~CheckPointer().

void protocols::checkpoint::CheckPointer::debug	(	const std::string &	tag,
		const std::string &	label,
		core::Real	data1,
		core::Real	data2 = 0.0,
		core::Real	data3 = 0.0
	)		const

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References disabled_, option, protocols::checkpoint::TR, and user.

Referenced by protocols::comparative_modeling::LoopRelaxMover::apply(), protocols::abinitio::ClassicAbinitio::apply(), protocols::abinitio::FragmentSampler::checkpointed_cycle_block(), protocols::abinitio::AbrelaxApplication::close_loops(), protocols::abinitio::FragmentSampler::do_stage3_cycles(), protocols::abinitio::ClassicAbinitio::do_stage3_cycles(), protocols::abinitio::FragmentSampler::do_stage4_cycles(), protocols::abinitio::ClassicAbinitio::do_stage4_cycles(), protocols::abinitio::AbrelaxApplication::fold(), recover_checkpoint(), and protocols::abinitio::AbrelaxApplication::relax().

core::Size protocols::checkpoint::CheckPointer::file_buffer_size ( )

private

References file_buffer.

Referenced by checkpoint().

void protocols::checkpoint::CheckPointer::flush_checkpoints

(

)

References file_buffer.

Referenced by protocols::abinitio::ClassicAbinitio::apply(), checkpoint(), and protocols::abinitio::FragmentSampler::checkpointed_cycle_block().

core::Size protocols::checkpoint::CheckPointer::get_checkpoint_recoveries ( ) const

inline

References count_checkpoint_recoveries_.

Referenced by protocols::abinitio::AbrelaxApplication::fold().

bool protocols::checkpoint::CheckPointer::get_disabled ( ) const

inline

References disabled_.

bool protocols::checkpoint::CheckPointer::recover_checkpoint	(	core::pose::Pose &	pose,
		moves::MonteCarlo *	mc,
		std::string const &	current_tag,
		std::string const &	id,
		bool	fullatom = false,
		bool	foldtree = false
	)

References CENTROID, checkpoint_ids_, utility::io::izstream::close(), count_checkpoint_recoveries_, debug(), disabled_, core::io::pdb::FileData::dump_pdb(), FA_STANDARD, utility::file::file_exists(), core::pose::Pose::is_fullatom(), protocols::checkpoint::Timer::is_on(), protocols::moves::MonteCarlo::last_accepted_pose(), protocols::moves::MonteCarlo::lowest_score_pose(), option, protocols::checkpoint::pose_from_binary_silent_file(), numeric::random::RandomGenerator::restoreAllStates(), protocols::moves::MonteCarlo::set_last_accepted_pose(), protocols::moves::MonteCarlo::set_lowest_score_pose(), protocols::checkpoint::TR, type(), and utility_exit_with_message.

Referenced by protocols::relax::ClassicRelax::apply(), protocols::comparative_modeling::LoopRelaxMover::apply(), protocols::relax::FastRelax::apply(), protocols::jumping::close_chainbreaks(), protocols::abinitio::AbrelaxApplication::close_loops(), protocols::abinitio::AbrelaxApplication::fold(), recover_checkpoint(), protocols::abinitio::MembraneAbinitio::recover_checkpoint(), and protocols::abinitio::AbrelaxApplication::relax().

bool protocols::checkpoint::CheckPointer::recover_checkpoint ( core::pose::Pose &  pose, moves::MonteCarloOP  mc, std::string const &  current_tag, std::string const &  id, bool  fullatom = false, bool  foldtree = false  )

inline

References fullatom, and recover_checkpoint().

bool protocols::checkpoint::CheckPointer::recover_checkpoint ( core::pose::Pose &  pose, std::string const &  current_tag, std::string const &  id, bool  fullatom = false, bool  foldtree = false  )

inline

References fullatom, and recover_checkpoint().

void protocols::checkpoint::CheckPointer::set_disabled ( bool  value = true )

inline

References disabled_.

void protocols::checkpoint::CheckPointer::set_type ( const std::string &  new_type )

inline

References type_.

Referenced by protocols::abinitio::ClassicAbinitio::ClassicAbinitio().

std::string const& protocols::checkpoint::CheckPointer::type ( ) const

inline

References type_.

Referenced by checkpoint(), clear_checkpoints(), and recover_checkpoint().

Member Data Documentation

std::vector< std::string > protocols::checkpoint::CheckPointer::checkpoint_ids_

private

Referenced by checkpoint(), clear_checkpoints(), and recover_checkpoint().

core::Size protocols::checkpoint::CheckPointer::count_checkpoint_recoveries_

private

Referenced by get_checkpoint_recoveries(), and recover_checkpoint().

bool protocols::checkpoint::CheckPointer::delete_checkpoints_

private

Referenced by CheckPointer(), and clear_checkpoints().

bool protocols::checkpoint::CheckPointer::disabled_

private

Referenced by checkpoint(), CheckPointer(), clear_checkpoints(), debug(), get_disabled(), recover_checkpoint(), and set_disabled().

std::vector< FileBuffer > protocols::checkpoint::CheckPointer::file_buffer

private

Referenced by checkpoint(), clear_checkpoints(), file_buffer_size(), and flush_checkpoints().

std::string protocols::checkpoint::CheckPointer::type_

private

Referenced by set_type(), and type().

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

• src/protocols/checkpoint/CheckPointer.hh
• src/protocols/checkpoint/CheckPointer.cc