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Rosetta
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#include <core/conformation/Conformation.hh>#include <core/pose/Pose.hh>#include <core/pose/PDBPoseMap.hh>#include <core/pose/PDBInfo.hh>#include <core/chemical/ChemicalManager.fwd.hh>#include <core/kinematics/MoveMap.hh>#include <core/kinematics/FoldTree.hh>#include <core/kinematics/util.hh>#include <core/fragment/ConstantLengthFragSet.hh>#include <core/pack/task/TaskFactory.hh>#include <core/pack/task/operation/TaskOperations.hh>#include <core/scoring/ScoreFunctionFactory.hh>#include <core/scoring/ScoreFunction.hh>#include <core/scoring/constraints/util.hh>#include <protocols/moves/MonteCarlo.hh>#include <protocols/loops/Loop.hh>#include <protocols/loops/Loops.hh>#include <protocols/loops/loop_closure/kinematic_closure/KinematicMover.hh>#include <protocols/loops/loop_closure/kinematic_closure/KinematicWrapper.hh>#include <protocols/loops/loop_closure/kinematic_closure/KinematicPerturber.hh>#include <basic/options/keys/loops.OptionKeys.gen.hh>#include <protocols/pose_metric_calculators/NeighborhoodByDistanceCalculator.hh>#include <protocols/simple_moves/BackboneMover.hh>#include <protocols/simple_moves/FragmentMover.hh>#include <protocols/minimization_packing/MinMover.hh>#include <protocols/moves/MoverContainer.hh>#include <protocols/minimization_packing/PackRotamersMover.hh>#include <protocols/minimization_packing/RotamerTrialsMover.hh>#include <protocols/simple_moves/SwitchResidueTypeSetMover.hh>#include <protocols/simple_moves/ReturnSidechainMover.hh>#include <protocols/minimization_packing/TaskAwareMinMover.hh>#include <protocols/moves/OutputMovers.hh>#include <protocols/pose_metric_calculators/InterGroupNeighborsCalculator.hh>#include <core/pose/metrics/CalculatorFactory.hh>#include <protocols/task_operations/RestrictByCalculatorsOperation.hh>#include <protocols/jd2/JobDistributor.hh>#include <protocols/jd2/JobOutputter.hh>#include <protocols/jd2/Job.hh>#include <devel/init.hh>#include <basic/options/option.hh>#include <basic/Tracer.hh>#include <utility/exit.hh>#include <basic/options/keys/run.OptionKeys.gen.hh>#include <basic/options/keys/AnchoredDesign.OptionKeys.gen.hh>#include <basic/options/keys/in.OptionKeys.gen.hh>#include <basic/options/keys/packing.OptionKeys.gen.hh>#include <protocols/moves/MoverStatistics.hh>#include <utility/vector0.hh>#include <utility/vector1.hh>Classes | |
| class | FloppyTailMover |
| FloppyTail mover. More... | |
Namespaces | |
| basic | |
| Tags used to tag messeges sent by MPI functions used to decide whether a slave is requesting a new job id or flagging as job as being a bad input. | |
| basic::options | |
| basic::options::OptionKeys | |
Typedefs | |
| typedef utility::pointer::owning_ptr< FloppyTailMover > | FloppyTailMoverOP |
Functions | |
| void | create_extra_output (core::pose::Pose &pose, core::scoring::ScoreFunctionCOP score_fxn) |
| int | main (int argc, char *argv[]) |
Variables | |
| static basic::Tracer | TR ("apps.public.scenarios.FloppyTail") |
| basic::options::IntegerOptionKey const | basic::options::OptionKeys::flexible_start_resnum ("flexible_start_resnum") |
| basic::options::IntegerOptionKey const | basic::options::OptionKeys::flexible_stop_resnum ("flexible_stop_resnum") |
| basic::options::StringOptionKey const | basic::options::OptionKeys::flexible_chain ("flexible_chain") |
| basic::options::RealOptionKey const | basic::options::OptionKeys::shear_on ("shear_on") |
| basic::options::RealOptionKey const | basic::options::OptionKeys::short_tail_fraction ("short_tail_fraction") |
| basic::options::RealOptionKey const | basic::options::OptionKeys::short_tail_off ("short_tail_off") |
| basic::options::BooleanOptionKey const | basic::options::OptionKeys::pair_off ("pair_off") |
| basic::options::BooleanOptionKey const | basic::options::OptionKeys::publication ("publication") |
| basic::options::BooleanOptionKey const | basic::options::OptionKeys::C_root ("C_root") |
| typedef utility::pointer::owning_ptr< FloppyTailMover > FloppyTailMoverOP |
| void create_extra_output | ( | core::pose::Pose & | pose, |
| core::scoring::ScoreFunctionCOP | score_fxn | ||
| ) |
This function is specific to the original system for which this code was written - if you are not trying to duplicate the initial results you should remove it!
References beta_nonlocal::pose, and beta_nonlocal::score_fxn.
Referenced by FloppyTailMover::apply().
| int main | ( | int | argc, |
| char * | argv[] | ||
| ) |
References argv, basic::options::OptionKeys::C_root, test.T009_Exceptions::e, basic::options::OptionKeys::flexible_chain, basic::options::OptionKeys::flexible_start_resnum, basic::options::OptionKeys::flexible_stop_resnum, basic::init(), basic::options::option, option, basic::options::OptionKeys::pair_off, basic::options::OptionKeys::publication, basic::options::OptionKeys::shear_on, basic::options::OptionKeys::short_tail_fraction, basic::options::OptionKeys::short_tail_off, and TR.
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static |
Referenced by FloppyTailMover::apply(), FloppyTailMover::FloppyTailMover(), FloppyTailMover::init_on_new_input(), and main().
1.9.1