#include <ArchiveBase.hh>

Inheritance diagram for protocols::jd2::archive::DebugArchive:

Collaboration diagram for protocols::jd2::archive::DebugArchive:

Public Member Functions
	DebugArchive (ArchiveManagerAP ptr)

virtual bool	add_structure (core::io::silent::SilentStructOP, Batch const &)
	add structure to Archive.. return false if structure is rejected. More...

virtual bool	finished () const
	is archive converged ? More...

virtual void	generate_batch ()
	create a new batch with manager().start_new_batch() and manager().finalize_batch(); More...

virtual void	score (core::pose::Pose &pose) const

virtual void	save_status (std::ostream &) const
	save and restore status of archive to file-system More...

virtual void	restore_status (std::istream &)

Public Member Functions inherited from protocols::jd2::archive::ArchiveBase
	ArchiveBase (ArchiveManagerAP ptr=NULL)

	~ArchiveBase ()

virtual void	initialize ()

core::Size	nstruct () const
	how many structures should be in archive .. varies from decoys().size() in startup phase. More...

void	set_nstruct (core::Size set)
	set target size of pool More...

virtual void	save_to_file (std::string suffix="")
	save and restore archive to file-system More...

virtual bool	restore_from_file ()
	restore archive More...

virtual void	idle ()
	called when nothing is happening More...

virtual void	init_from_decoy_set (core::io::silent::SilentFileData const &sfd)
	read externally provided structures from decoy_file into archive More...

virtual void	read_structures (core::io::silent::SilentFileData &, Batch const &batch)
	SilentFileData contains the new structures belonging to this batch. More...

core::Size &	accepts_since_last_batch ()

core::Size	accepts_since_last_batch () const

core::Size	proposed_since_last_batch () const

core::Real	current_acceptance_ratio () const

void	reset_accept_counter ()

core::Size	total_proposed ()

core::Size	total_accepts ()

bool	statistics_valid ()

SilentStructs const &	decoys () const

SilentStructs &	decoys ()

Public Member Functions inherited from protocols::jd2::archive::AbstractArchiveBase
virtual	~AbstractArchiveBase ()
	Automatically generated virtual destructor for class deriving directly from ReferenceCount. More...

	AbstractArchiveBase (ArchiveManagerAP ptr)

	AbstractArchiveBase ()

virtual bool	still_interested (jd2::archive::Batch const &) const
	old-batches might be outdated and should not be computed anymore return true for this query if this is the case for old_batch More...

void	set_name (std::string const &set)
	set name of archive ( used also for save_to_file and restore_from_file ) More...

std::string const &	name () const

ArchiveManager &	manager ()
	access to the ArchiveManager (control of batches) More...

virtual void	set_manager (ArchiveManagerAP manager)

Private Attributes
core::Size	ct_batches_

core::scoring::ScoreFunctionOP	cen_score_

bool	make_mistake_

Additional Inherited Members
Static Public Member Functions inherited from protocols::jd2::archive::ArchiveBase
static void	register_options ()

Protected Types inherited from protocols::jd2::archive::ArchiveBase
typedef std::list < core::io::silent::SilentStructOP >	SilentStructs

typedef SilentStructs::const_iterator	const_decoy_iterator

typedef SilentStructs::const_iterator	decoy_iterator

Protected Member Functions inherited from protocols::jd2::archive::ArchiveBase
virtual void	count_structure (Batch const &batch, bool accepted)
	count the structure for the acceptance statistics only count if not from expired batch More...

void	count_removed_structures (core::Size n_removed)
	count the structure for the acceptance statistics only count if not from expired batch More...

void	set_max_nstruct (core::Size setting)

void	add_structure_at_position (SilentStructs::iterator iss, core::io::silent::SilentStructOP new_decoy)
	call to insert structure at position given by iterator More...

Static Protected Attributes inherited from protocols::jd2::archive::ArchiveBase
static std::string const	TAG_IN_FILE

static std::string const	SOURCE_FILE