multistate_design_ga.cc File Reference

#include <protocols/genetic_algorithm/GeneticAlgorithm.hh>
#include <protocols/multistate_design/MultiStatePacker.hh>
#include <protocols/multistate_design/PackingState.hh>
#include <protocols/multistate_design/PartitionAggregateFunction.hh>
#include <protocols/dna/DnaChains.hh>
#include <protocols/dna/PDBOutput.hh>
#include <protocols/dna/RestrictDesignToProteinDNAInterface.hh>
#include <protocols/dna/RotamerDNAHBondFilter.hh>
#include <protocols/dna/util.hh>
#include <protocols/viewer/viewers.hh>
#include <devel/init.hh>
#include <core/types.hh>
#include <core/chemical/ResidueTypeSelector.hh>
#include <core/chemical/ResidueType.hh>
#include <core/chemical/ResidueTypeSet.hh>
#include <core/conformation/Residue.hh>
#include <core/io/pdb/pdb_writer.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/PDBInfo.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <core/scoring/dna/setup.hh>
#include <utility/file/file_sys_util.hh>
#include <utility/file/FileName.hh>
#include <utility/vector1.hh>
#include <utility/string_util.hh>
#include <basic/prof.hh>
#include <basic/Tracer.hh>
#include <ObjexxFCL/format.hh>
#include <ObjexxFCL/string.functions.hh>
#include <fstream>
#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/score.OptionKeys.gen.hh>
#include <basic/options/keys/ms.OptionKeys.gen.hh>
#include <basic/options/keys/packing.OptionKeys.gen.hh>
#include <core/import_pose/import_pose.hh>
#include <protocols/pose_metric_calculators/MetricValueGetter.hh>

Functions
void	add_dna_states (MultiStatePacker &func, pose::Pose const &pose, PackerTaskCOP ptask)
template<typename A , typename B >
bool	cmpscnd (std::pair< A, B > const &a, std::pair< A, B > const &b)
void *	ga_main (void *)
int	main (int argc, char *argv[])

Variables
static basic::Tracer	TR ("app.ga", t_info)

Function Documentation

add_dna_states()

void add_dna_states	(	MultiStatePacker &	func,
		pose::Pose const &	pose,
		PackerTaskCOP	ptask
	)

References func, ObjexxFCL::index(), make_symmdef_file_denovo::pos, beta_nonlocal::pose, beta_nonlocal::rts, runtime_assert, basic::t_info, and TR.

Referenced by ga_main().

cmpscnd()

template<typename A , typename B >

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

References a, and compute_difference::b.

ga_main()

void* ga_main

(

void *

)

References aa, add_dna_states(), ms::anchor_offset(), ms::Boltz_temp(), run_backbone::choices, demo.D060_Folding::counter, pyrosetta::create_score_function, end, ObjexxFCL::format::F(), ms::fraction_by_recombination(), func, ms::generations(), ms::checkpoint::gz(), create_a3b_hbs::i, ms::checkpoint::interval(), ObjexxFCL::lead_zero_string_of(), ms::mutate_rate(), ms::num_packs(), ms::numresults(), option, predPRE::pdbname, ms::pop_from_ss(), ms::pop_size(), make_symmdef_file_denovo::pos, beta_nonlocal::pose, pyrosetta.distributed.io::pose_from_file, create_a3b_hbs::prefix, ms::checkpoint::prefix(), out::prefix(), basic::prof_reset(), basic::prof_show(), ms::checkpoint::rename(), basic::options::OptionKeys::packing::resfile, docking::s, in::file::s(), basic::options::OptionKeys::dna::specificity::score_function, predPRE::t, basic::t_debug, basic::t_info, TR, basic::options::OptionKeys::inout::dbms::user, score::weights(), and basic::options::OptionKeys::dna::specificity::weights_tag.

Referenced by main().

main()

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

References argv, test.T009_Exceptions::e, ga_main(), basic::init(), and viewer_main().

Variable Documentation

TR

basic::Tracer TR("app.ga", t_info) ( "app.ga"  , t_info    )

static

Referenced by add_dna_states(), and ga_main().