util.cc File Reference

Util functions for Carbohydrates. More...

#include <core/pack/task/TaskFactory.hh>
#include <core/pack/task/operation/TaskOperations.hh>
#include <core/pack/task/operation/OperateOnResidueSubset.hh>
#include <core/pack/task/operation/ResLvlTaskOperations.hh>
#include <core/chemical/ResidueProperty.hh>
#include <core/conformation/carbohydrates/GlycanTreeSet.hh>
#include <core/select/residue_selector/NeighborhoodResidueSelector.hh>
#include <core/select/residue_selector/ResiduePropertySelector.hh>
#include <core/select/residue_selector/GlycanLayerSelector.hh>
#include <core/select/residue_selector/GlycanResidueSelector.hh>
#include <core/select/residue_selector/AndResidueSelector.hh>
#include <core/select/residue_selector/util.hh>
#include <core/pose/Pose.hh>
#include <protocols/minimization_packing/MinMover.hh>
#include <protocols/minimization_packing/PackRotamersMover.hh>
#include <protocols/simple_moves/BackboneMover.hh>
#include <protocols/moves/MonteCarlo.hh>
#include <basic/Tracer.hh>
#include <basic/options/option.hh>
#include <basic/options/keys/carbohydrates.OptionKeys.gen.hh>
#include <basic/options/keys/packing.OptionKeys.gen.hh>
#include <utility/pointer/owning_ptr.hh>
#include <utility/string_util.hh>
#include <cmath>

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

Functions
static basic::Tracer	TR ("protocols.carbohydrates.util")
core::pack::task::TaskFactoryOP	protocols::carbohydrates::get_all_glycans_and_neighbor_res_task_factory (utility::vector1< bool > const &subset, core::Real pack_distance=6.0, bool read_resfile=true)
	Get a TaskFactory of all residues in the subset and neighboring residues. More...
void	protocols::carbohydrates::run_shear_min_pack (protocols::minimization_packing::MinMover &min_mover, protocols::minimization_packing::PackRotamersMover &packer, protocols::simple_moves::ShearMover &shear, protocols::moves::MonteCarlo &mc, core::Size n_glycan_residues, core::pose::Pose &pose, bool use_shear=true)
	Run a shear/min/pack on all residues set to move. More...
core::Size	protocols::carbohydrates::get_total_rounds_for_overlap_one_layer_two (core::pose::Pose const &pose, utility::vector1< bool > const &residue_subset, core::Size sampler_rounds)
	Used for benchmarking to test even sampling of different kinematic protocols Get the total number of sampling rounds for the GlycanTreeModeler protocol with previous default settings. More...

Detailed Description

Util functions for Carbohydrates.

Author

Jared Adolf-Bryfogle (jadol.nosp@m.fbr@.nosp@m.gmail.nosp@m..com)

Function Documentation

static basic::Tracer TR ( "protocols.carbohydrates.util"  )

static