ClassicAbinitio.cc File Reference

ab-initio fragment assembly protocol for proteins More...

#include <protocols/abinitio/ClassicAbinitio.hh>
#include <protocols/simple_moves/SymmetricFragmentMover.hh>
#include <protocols/simple_moves/GunnCost.hh>
#include <core/pose/Pose.hh>
#include <core/kinematics/MoveMap.hh>
#include <core/types.hh>
#include <core/scoring/ScoreFunction.fwd.hh>
#include <core/scoring/ScoreType.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <core/scoring/rms_util.hh>
#include <core/scoring/constraints/ConstraintSet.hh>
#include <core/scoring/constraints/ConstraintSet.fwd.hh>
#include <protocols/moves/Mover.hh>
#include <protocols/simple_moves/BackboneMover.hh>
#include <protocols/moves/MoverContainer.hh>
#include <protocols/moves/TrialMover.hh>
#include <protocols/moves/RepeatMover.hh>
#include <protocols/moves/WhileMover.hh>
#include <protocols/abinitio/AllResiduesChanged.hh>
#include <protocols/moves/CompositionMover.hh>
#include <core/pack/task/PackerTask.hh>
#include <core/pack/task/TaskFactory.hh>
#include <core/pack/task/operation/TaskOperations.hh>
#include <protocols/simple_moves/PackRotamersMover.hh>
#include <basic/options/keys/corrections.OptionKeys.gen.hh>
#include <protocols/simple_moves/SwitchResidueTypeSetMover.hh>
#include <ObjexxFCL/string.functions.hh>
#include <utility/exit.hh>
#include <utility/vector1.fwd.hh>
#include <utility/pointer/ReferenceCount.hh>
#include <utility/io/ozstream.hh>
#include <numeric/numeric.functions.hh>
#include <basic/prof.hh>
#include <basic/Tracer.hh>
#include <basic/options/option.hh>
#include <basic/options/keys/abinitio.OptionKeys.gen.hh>
#include <basic/options/keys/run.OptionKeys.gen.hh>
#include <basic/options/keys/templates.OptionKeys.gen.hh>
#include <cstdlib>
#include <protocols/moves/MonteCarlo.hh>
#include <utility/vector0.hh>
#include <utility/vector1.hh>

Classes
class	protocols::abinitio::hConvergenceCheck

Namespaces
	protocols
	The instance of Loops contained by AbrelaxApplication should be replaced by a LoopsOP.
	protocols::abinitio

Typedefs
typedef utility::pointer::shared_ptr < hConvergenceCheck >	protocols::abinitio::hConvergenceCheckOP

Functions
static thread_local basic::Tracer	tr ("protocols.abinitio")
bool	protocols::abinitio::contains_stageid (utility::vector1< ClassicAbinitio::StageID > vec, ClassicAbinitio::StageID query)

Detailed Description

ab-initio fragment assembly protocol for proteins

Detailed:

Contains currently: Classic Abinitio

Author

Oliver Lange

James Thompson

Mike Tyka

Function Documentation

static thread_local basic::Tracer tr ( "protocols.abinitio"  )

static

Referenced by protocols::abinitio::ClassicAbinitio::apply(), protocols::abinitio::ClassicAbinitio::do_stage1_cycles(), protocols::abinitio::ClassicAbinitio::do_stage3_cycles(), protocols::abinitio::ClassicAbinitio::do_stage4_cycles(), protocols::abinitio::hConvergenceCheck::operator()(), protocols::abinitio::ClassicAbinitio::prepare_loop_in_stage3(), protocols::abinitio::ClassicAbinitio::prepare_stage4(), protocols::abinitio::ClassicAbinitio::set_default_scores(), and protocols::abinitio::ClassicAbinitio::set_score_weight().