FragmentSampler.cc File Reference

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

#include <core/types.hh>
#include <protocols/abinitio/FragmentSampler.hh>
#include <protocols/topology_broker/TopologyBroker.hh>
#include <protocols/topology_broker/TopologyClaimer.hh>
#include <core/pose/Pose.hh>
#include <core/pose/datacache/CacheableDataType.hh>
#include <basic/datacache/BasicDataCache.hh>
#include <core/conformation/Residue.hh>
#include <core/scoring/ScoreFunction.fwd.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/ScoreType.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <protocols/rigid/RigidBodyMover.hh>
#include <core/scoring/MembraneTopology.hh>
#include <protocols/canonical_sampling/mc_convergence_checks/util.hh>
#include <core/scoring/constraints/ConstraintSet.hh>
#include <core/kinematics/Jump.hh>
#include <protocols/jd2/util.hh>
#include <protocols/moves/TrialMover.hh>
#include <protocols/moves/RepeatMover.hh>
#include <protocols/moves/MonteCarloExceptionConverge.hh>
#include <protocols/moves/MoverStatus.hh>
#include <protocols/loophash/LoopHashLibrary.fwd.hh>
#include <protocols/loophash/LoopHashLibrary.hh>
#include <protocols/loophash/LoopHashMap.hh>
#include <utility/exit.hh>
#include <utility/excn/Exceptions.hh>
#include <utility/pointer/ReferenceCount.hh>
#include <utility/vector1.hh>
#include <numeric/numeric.functions.hh>
#include <numeric/random/random.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/in.OptionKeys.gen.hh>
#include <basic/options/keys/membrane.OptionKeys.gen.hh>
#include <basic/options/keys/lh.OptionKeys.gen.hh>
#include <cstdlib>
#include <utility>
#include <iostream>

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

Functions
static thread_local basic::Tracer	tr ("protocols.abinitio")
bool	protocols::abinitio::contains_stageid (utility::vector1< abinitio::StageID > vec, abinitio::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::FragmentSampler::apply(), protocols::abinitio::FragmentSampler::check_loops(), protocols::abinitio::FragmentSampler::checkpointed_cycle_block(), protocols::abinitio::FragmentSampler::do_stage3_cycles(), protocols::abinitio::FragmentSampler::do_stage4_cycles(), protocols::abinitio::FragmentSampler::recover_low(), protocols::abinitio::FragmentSampler::set_default_scores(), and protocols::abinitio::FragmentSampler::set_score_weight().