sequence_tolerance.cc File Reference

App for predicting the sequence tolerance of a structure or set of structures. More...

#include <protocols/genetic_algorithm/GeneticAlgorithm.hh>
#include <protocols/multistate_design/MultiStatePacker.hh>
#include <protocols/multistate_design/PackingState.hh>
#include <protocols/multistate_design/MetricCalculatorFitnessFunction.hh>
#include <protocols/multistate_design/MultiStateEntity.hh>
#include <protocols/pose_metric_calculators/DecomposeAndReweightEnergiesCalculator.hh>
#include <protocols/pose_metric_calculators/ResidueDecompositionByChainCalculator.hh>
#include <core/pose/metrics/simple_calculators/SasaCalculatorLegacy.hh>
#include <protocols/simple_pose_metric_calculators/NumberHBondsCalculator.hh>
#include <protocols/simple_pose_metric_calculators/BuriedUnsatisfiedPolarsCalculator.hh>
#include <protocols/pose_metric_calculators/SurfaceCalculator.hh>
#include <protocols/pose_metric_calculators/MetricValueGetter.hh>
#include <protocols/dna/PDBOutput.hh>
#include <protocols/dna/util.hh>
#include <protocols/viewer/viewers.hh>
#include <devel/init.hh>
#include <core/types.hh>
#include <core/chemical/ResidueType.hh>
#include <basic/options/option.hh>
#include <core/pack/task/PackerTask.hh>
#include <core/pack/task/TaskFactory.hh>
#include <core/pack/task/operation/TaskOperations.hh>
#include <core/pose/Pose.hh>
#include <core/pose/metrics/CalculatorFactory.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <utility/file/FileName.hh>
#include <utility/vector1.hh>
#include <basic/prof.hh>
#include <basic/Tracer.hh>
#include <ObjexxFCL/format.hh>
#include <ObjexxFCL/string.functions.hh>
#include <iostream>
#include <string>
#include <list>
#include <basic/options/keys/out.OptionKeys.gen.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/ms.OptionKeys.gen.hh>
#include <basic/options/keys/packing.OptionKeys.gen.hh>
#include <utility/excn/Exceptions.hh>
#include <basic/options/option_macros.hh>
#include <core/import_pose/import_pose.hh>
#include <utility/vector0.hh>
#include <basic/MetricValue.hh>

Functions
void *	sequence_tolerance_main (void *)
int	main (int argc, char *argv[])
template<typename A , typename B >
bool	cmpscnd (std::pair< A, B > const &a, std::pair< A, B > const &b)

Variables
static basic::Tracer	TR ("app.sequence_tolerance")

Detailed Description

App for predicting the sequence tolerance of a structure or set of structures.

Function Documentation

template<typename A , typename B >

bool cmpscnd	(	std::pair< A, B > const &	a,
		std::pair< A, B > const &	b
	)

int main	(	int	argc,
		char *	argv[]
	)

References utility::io::oc::cout, test.T009_Exceptions::e, devel::init(), utility::excn::Exception::msg(), NEW_OPT, and sequence_tolerance_main().

void * sequence_tolerance_main

(

void *

)

References basic::options::OptionKeys::mh::match::aa, demo.D060_Folding::counter, utility::pointer::dynamic_pointer_cast(), basic::options::OptionKeys::cutoutdomain::end, ObjexxFCL::format::F(), ms::fraction_by_recombination(), ms::generations(), ms::checkpoint::gz(), ms::checkpoint::interval(), ObjexxFCL::lead_zero_string_of(), ms::mutate_rate(), ms::num_packs(), ms::numresults(), option, options, clean_pdb_keep_ligand::pdbname, ms::pop_from_ss(), ms::pop_size(), make_symmdef_file_denovo::pos, demo.D010_Pose_structure::pose, pyrosetta.distributed.io::pose_from_file, erraser_single_res_analysis::prefix, out::prefix(), ms::checkpoint::prefix(), basic::prof_reset(), basic::prof_show(), ms::checkpoint::rename(), packing::resfile(), in::file::s(), basic::options::OptionKeys::in::file::s, basic::options::OptionKeys::dna::specificity::score_function, amino_acids::size, basic::options::OptionKeys::in::file::t, basic::t_debug, basic::t_info, TR, basic::options::OptionKeys::inout::dbms::user, and utility_exit_with_message.

Referenced by main().

Variable Documentation

basic::Tracer TR("app.sequence_tolerance")

static

Referenced by sequence_tolerance_main().