Rosetta  2021.16
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SpliceSegment.cc File Reference
#include <core/pose/extra_pose_info_util.hh>
#include <protocols/splice/SpliceSegment.hh>
#include <core/sequence/SequenceProfile.hh>
#include <basic/Tracer.hh>
#include <basic/options/option.hh>
#include <basic/options/keys/out.OptionKeys.gen.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/OptionKeys.hh>
#include <core/pose/util.hh>
#include <utility/file/FileName.hh>
#include <utility/io/izstream.hh>
#include <iostream>
#include <sstream>
#include <utility/string_util.hh>
#include <basic/database/open.hh>
#include <dirent.h>

Namespaces

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

Functions

static basic::Tracer protocols::splice::TR ("protocols.splice.SpliceSegment")
 
SequenceProfileOP protocols::splice::concatenate_profiles (utility::vector1< SequenceProfileOP > const &profiles, utility::vector1< std::string > segment_names_ordered, std::string H3_seq)
 generate one long sequence profile out of several sequence-profile segments. More...
 
std::map< std::string,
std::string > 
protocols::splice::read_H3_seq (std::string const &Protein_family_path)
 Reads from given file the H3 sequences from all PDBs in the db. More...
 
std::map< std::string,
std::string > 
protocols::splice::read_pdb_seq (std::string const &Protein_family_path)
 in cases where we have only one sequence per pdb we store the sequences in a seperate map we can later use them to create pssms using blosum More...