Rosetta  2020.46
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segment_file_generator.cc File Reference
#include <apps/public/sewing/segment_file_generator.hh>
#include <basic/Tracer.hh>
#include <algorithm>
#include <regex>
#include <utility/string_util.hh>
#include <utility/exit.hh>
#include <boost/algorithm/string.hpp>
#include <devel/init.hh>
#include <core/pose/Pose.hh>
#include <core/conformation/Residue.hh>
#include <core/import_pose/import_pose.hh>
#include <core/scoring/dssp/Dssp.hh>
#include <core/scoring/dssp/Dssp.fwd.hh>
#include <core/select/residue_selector/ResidueSelector.hh>
#include <iostream>
#include <string>
#include <stdlib.h>
#include <numeric/random/random.hh>
#include <utility/io/ozstream.hh>
#include <utility/io/izstream.hh>
#include <protocols/sewing/hashing/AlignmentFileGeneratorMover.hh>
#include <protocols/sewing/hashing/hasher_data.hh>
#include <protocols/sewing/data_storage/LigandResidue.hh>
#include <protocols/sewing/data_storage/SmartSegment.hh>
#include <core/conformation/Atom.hh>
#include <basic/options/option.hh>
#include <basic/options/keys/sewing.OptionKeys.gen.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/inout.OptionKeys.gen.hh>

Namespaces

 apps
 
 apps::pilot
 
 apps::pilot::frankdt
 

Functions

utility::vector1< Motif > apps::pilot::frankdt::import_motifs (std::string motif_filename)
 
void apps::pilot::frankdt::invalid_motif (std::string bad_motif, std::string error_msg)
 
Motif apps::pilot::frankdt::reverse_motif (Motif const motif)
 
bool apps::pilot::frankdt::lt (Motif i, Motif j)
 
std::set< Motif, bool(*)(Motif,
Motif) > 
apps::pilot::frankdt::check_motifs (utility::vector1< Motif > motifs)
 
void apps::pilot::frankdt::check_for_chain_breaks (std::map< core::Size, protocols::sewing::data_storage::SmartSegmentOP > &pdb_segments)
 
utility::vector1< Motif > apps::pilot::frankdt::copy_set_to_vector (std::set< Motif, bool(*)(Motif, Motif) > const copy_set)
 
bool apps::pilot::frankdt::dssp_code_matches (std::string motif_dssp, std::string segment_dssp)
 
utility::vector1< Motif > apps::pilot::frankdt::compare_segment_to_motif (utility::vector1< Motif > &motifs_to_match, core::Size position, protocols::sewing::data_storage::SmartSegmentOP current_segment)
 
protocols::sewing::hashing::SegmentVectorOP apps::pilot::frankdt::store_segment_motif_match (protocols::sewing::data_storage::SmartSegmentOP segment, core::Size last_segment_position)
 
void apps::pilot::frankdt::write_segments_to_file (protocols::sewing::hashing::SegmentVectorOP seg_vec, utility::pointer::shared_ptr< utility::io::ozstream > file)
 
int apps::pilot::frankdt::main (int argc, char *argv[])
 
int main (int argc, char *argv[])
 

Variables

static basic::Tracer TR ("apps.pilot.frankdt.segment_file_generator")
 
FileOptionKey const motif_file ("motif_file")
 
FileOptionKey const pdb_list_file ("pdb_list_file")
 
BooleanOptionKey const strict_dssp_changes ("strict_dssp_changes")
 

Function Documentation

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

Variable Documentation

FileOptionKey const motif_file("motif_file")
FileOptionKey const pdb_list_file("pdb_list_file")
BooleanOptionKey const strict_dssp_changes("strict_dssp_changes")
basic::Tracer TR("apps.pilot.frankdt.segment_file_generator")
static