calibur.cc File Reference

#include <devel/init.hh>
#include <basic/options/option_macros.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <protocols/cluster/calibur/AdjacentList.hh>
#include <protocols/cluster/calibur/Clustering.hh>
#include <protocols/cluster/calibur/SimPDB.hh>
#include <utility/string_constants.hh>
#include <utility/string_util.hh>
#include <utility/stream_util.hh>

Macros
#define	RANDOM_DECOY_SIZE_FOR_THRESHOLD   101
#define	NUM_TRIALS_FOR_THRESHOLD   16

Functions
	OPT_1GRP_KEY (String, input, pdb_list) OPT_1GRP_KEY(Integer
start	OPT_1GRP_KEY (Integer, res, end) OPT_1GRP_KEY(String
start chains	OPT_1GRP_KEY (Real, strategy, thres) OPT_1GRP_KEY(Boolean
start chains nofilter	OPT_1GRP_KEY (Integer, strategy, thres_finder) int main(int argc

Variables
	res
start chains	strategy
start chains nofilter char **	argv

Macro Definition Documentation

NUM_TRIALS_FOR_THRESHOLD

#define NUM_TRIALS_FOR_THRESHOLD   16

RANDOM_DECOY_SIZE_FOR_THRESHOLD

#define RANDOM_DECOY_SIZE_FOR_THRESHOLD   101

Function Documentation

OPT_1GRP_KEY() [1/4]

start OPT_1GRP_KEY	(	Integer	,
		res	,
		end
	)

OPT_1GRP_KEY() [2/4]

start chains nofilter OPT_1GRP_KEY	(	Integer	,
		strategy	,
		thres_finder
	)

OPT_1GRP_KEY() [3/4]

start chains OPT_1GRP_KEY	(	Real	,
		strategy	,
		thres
	)

OPT_1GRP_KEY() [4/4]

OPT_1GRP_KEY	(	String	,
		input	,
		pdb_list
	)

Variable Documentation

argv

start chains nofilter char** argv

res

start res

Referenced by accum_hbdon_shoene(), PoseWrap::add_apcs_local(), utility::tag::add_schema_restrictions_for_strings(), adjust_pose_chi(), analyze_poses_for_convergence(), zinc_helix_cap::apply(), xtal_water_bunsat::apply(), BuriedUnsatPolarsFinder::apply(), InterfaceStrandFinderMover::bb_score(), ExposedStrandMover::bb_score(), HDmakerMover::bb_score(), Bola::Bola(), HbondZinc::build_rotamers(), bunsats(), BuriedUnsatPolarsFinder::bunsats_thorough_check(), basic::TracerImpl::calculate_tracer_level(), binder::class_name(), clean_up_database(), cnlres_store_hbs(), correlation(), count_backbone_atoms(), MPDomainAssembly::create_residue_from_olc(), numeric::statistics::Dawson(), dock(), dump_bundle_pose(), dump_pair_pose(), ui::task::Project::erase(), fill_chainTORS_info(), find_closest_atom(), find_nearest_res(), fix_alpha_for_pack_phosphate(), gen_pep_bb_sequential(), MPInterfaceStatistics::get_charge(), zinc_stats::ZincStatisticGenerator::get_local_zn_coords(), MPInterfaceStatistics::get_number_charges(), get_symm_corrected_angle(), PerformanceBenchmark::getOneReport(), PerformanceBenchmark::getReport(), gmtime(), HbondZincBackbone::has_backbone_hbond(), in_cnl(), initialize_peptide(), basic::database::insert_or_ignore(), KIC_loop_close(), utility::options::OptionCollection::load_option_from_file(), localtime(), basic::resource_manager::locator::DatabaseResourceLocator::locate_resource_stream(), loop_closure_test(), main(), CheeseFunction::operator()(), output_residue_types(), output_seq_with_residue_emphasis(), parse_extra_atom_list(), ConstraintConfig::parse_residues(), print_atom_pdbid(), print_node(), readFile(), rep_hb_atom(), rescore_test(), rotate_into_nucleobase_frame(), run(), ScoreEachBenchmark::run_long_ranged_two_body_energy(), ScoreEachBenchmark::run_one_body_energy(), ScoreEachBenchmark::run_short_ranged_two_body_energy(), sasa_bunsats(), UniformPerturber::set_pose_after_closure(), binder::simplify_std_class_name_raw(), store_hb_counts(), sweep_params_from_match_constraint_file(), ui::task::TaskSyncer_NodeStrategy::syncing_progress(), basic::database::table_exists(), test_cofactor(), test_GA(), test_kc(), test_sugar(), and vsasa_bunsats().

strategy

start chains strategy

Referenced by my_main().