Rosetta Utilities  2014.35
Namespaces | Functions | Variables
basic::options::OptionKeys::frags Namespace Reference

Namespaces

 ABEGO
 
 contacts
 
 nonlocal
 
 picking
 
 scoring
 

Functions

BooleanOptionKey const frags ("frags")
 
BooleanOptionKey const filter_JC ("frags:filter_JC")
 
BooleanOptionKey const bounded_protocol ("frags:bounded_protocol")
 
BooleanOptionKey const keep_all_protocol ("frags:keep_all_protocol")
 
BooleanOptionKey const quota_protocol ("frags:quota_protocol")
 
BooleanOptionKey const nonlocal_pairs ("frags:nonlocal_pairs")
 
BooleanOptionKey const fragment_contacts ("frags:fragment_contacts")
 
BooleanOptionKey const p_value_selection ("frags:p_value_selection")
 
IntegerOptionKey const n_frags ("frags:n_frags")
 
FileOptionKey const allowed_pdb ("frags:allowed_pdb")
 
StringVectorOptionKey const ss_pred ("frags:ss_pred")
 
FileOptionKey const spine_x ("frags:spine_x")
 
FileOptionKey const depth ("frags:depth")
 
FileOptionKey const denied_pdb ("frags:denied_pdb")
 
IntegerVectorOptionKey const frag_sizes ("frags:frag_sizes")
 
BooleanOptionKey const write_ca_coordinates ("frags:write_ca_coordinates")
 
BooleanOptionKey const write_scores ("frags:write_scores")
 
BooleanOptionKey const annotate ("frags:annotate")
 
IntegerOptionKey const nr_large_copies ("frags:nr_large_copies")
 
IntegerOptionKey const n_candidates ("frags:n_candidates")
 
BooleanOptionKey const write_rama_tables ("frags:write_rama_tables")
 
RealOptionKey const rama_C ("frags:rama_C")
 
RealOptionKey const rama_B ("frags:rama_B")
 
RealOptionKey const sigmoid_cs_A ("frags:sigmoid_cs_A")
 
RealOptionKey const sigmoid_cs_B ("frags:sigmoid_cs_B")
 
RealOptionKey const seqsim_H ("frags:seqsim_H")
 
RealOptionKey const seqsim_E ("frags:seqsim_E")
 
RealOptionKey const seqsim_L ("frags:seqsim_L")
 
RealOptionKey const rama_norm ("frags:rama_norm")
 
StringOptionKey const describe_fragments ("frags:describe_fragments")
 
RealOptionKey const picking_old_max_score ("frags:picking_old_max_score")
 
BooleanOptionKey const write_sequence_only ("frags:write_sequence_only")
 
BooleanOptionKey const output_silent ("frags:output_silent")
 
BooleanOptionKey const score_output_silent ("frags:score_output_silent")
 

Variables

BooleanOptionKey const frags
 
BooleanOptionKey const filter_JC
 
BooleanOptionKey const bounded_protocol
 
BooleanOptionKey const keep_all_protocol
 
BooleanOptionKey const quota_protocol
 
BooleanOptionKey const nonlocal_pairs
 
BooleanOptionKey const fragment_contacts
 
BooleanOptionKey const p_value_selection
 
IntegerOptionKey const n_frags
 
FileOptionKey const allowed_pdb
 
StringVectorOptionKey const ss_pred
 
FileOptionKey const spine_x
 
FileOptionKey const depth
 
FileOptionKey const denied_pdb
 
IntegerVectorOptionKey const frag_sizes
 
BooleanOptionKey const write_ca_coordinates
 
BooleanOptionKey const write_scores
 
BooleanOptionKey const annotate
 
IntegerOptionKey const nr_large_copies
 
IntegerOptionKey const n_candidates
 
BooleanOptionKey const write_rama_tables
 
RealOptionKey const rama_C
 
RealOptionKey const rama_B
 
RealOptionKey const sigmoid_cs_A
 
RealOptionKey const sigmoid_cs_B
 
RealOptionKey const seqsim_H
 
RealOptionKey const seqsim_E
 
RealOptionKey const seqsim_L
 
RealOptionKey const rama_norm
 
StringOptionKey const describe_fragments
 
RealOptionKey const picking_old_max_score
 
BooleanOptionKey const write_sequence_only
 
BooleanOptionKey const output_silent
 
BooleanOptionKey const score_output_silent
 

Function Documentation

FileOptionKey const basic::options::OptionKeys::frags::allowed_pdb ( "frags:allowed_pdb"  )
BooleanOptionKey const basic::options::OptionKeys::frags::annotate ( "frags:annotate"  )
BooleanOptionKey const basic::options::OptionKeys::frags::bounded_protocol ( "frags:bounded_protocol"  )
FileOptionKey const basic::options::OptionKeys::frags::denied_pdb ( "frags:denied_pdb"  )
FileOptionKey const basic::options::OptionKeys::frags::depth ( "frags:depth"  )
StringOptionKey const basic::options::OptionKeys::frags::describe_fragments ( "frags:describe_fragments"  )
BooleanOptionKey const basic::options::OptionKeys::frags::filter_JC ( "frags:filter_JC"  )
IntegerVectorOptionKey const basic::options::OptionKeys::frags::frag_sizes ( "frags:frag_sizes"  )
BooleanOptionKey const basic::options::OptionKeys::frags::fragment_contacts ( "frags:fragment_contacts"  )
BooleanOptionKey const basic::options::OptionKeys::frags::frags ( "frags"  )
BooleanOptionKey const basic::options::OptionKeys::frags::keep_all_protocol ( "frags:keep_all_protocol"  )
IntegerOptionKey const basic::options::OptionKeys::frags::n_candidates ( "frags:n_candidates"  )
IntegerOptionKey const basic::options::OptionKeys::frags::n_frags ( "frags:n_frags"  )
BooleanOptionKey const basic::options::OptionKeys::frags::nonlocal_pairs ( "frags:nonlocal_pairs"  )
IntegerOptionKey const basic::options::OptionKeys::frags::nr_large_copies ( "frags:nr_large_copies"  )
BooleanOptionKey const basic::options::OptionKeys::frags::output_silent ( "frags:output_silent"  )
BooleanOptionKey const basic::options::OptionKeys::frags::p_value_selection ( "frags:p_value_selection"  )
RealOptionKey const basic::options::OptionKeys::frags::picking_old_max_score ( "frags:picking_old_max_score"  )
BooleanOptionKey const basic::options::OptionKeys::frags::quota_protocol ( "frags:quota_protocol"  )
RealOptionKey const basic::options::OptionKeys::frags::rama_B ( "frags:rama_B"  )
RealOptionKey const basic::options::OptionKeys::frags::rama_C ( "frags:rama_C"  )
RealOptionKey const basic::options::OptionKeys::frags::rama_norm ( "frags:rama_norm"  )
BooleanOptionKey const basic::options::OptionKeys::frags::score_output_silent ( "frags:score_output_silent"  )
RealOptionKey const basic::options::OptionKeys::frags::seqsim_E ( "frags:seqsim_E"  )
RealOptionKey const basic::options::OptionKeys::frags::seqsim_H ( "frags:seqsim_H"  )
RealOptionKey const basic::options::OptionKeys::frags::seqsim_L ( "frags:seqsim_L"  )
RealOptionKey const basic::options::OptionKeys::frags::sigmoid_cs_A ( "frags:sigmoid_cs_A"  )
RealOptionKey const basic::options::OptionKeys::frags::sigmoid_cs_B ( "frags:sigmoid_cs_B"  )
FileOptionKey const basic::options::OptionKeys::frags::spine_x ( "frags:spine_x"  )
StringVectorOptionKey const basic::options::OptionKeys::frags::ss_pred ( "frags:ss_pred"  )
BooleanOptionKey const basic::options::OptionKeys::frags::write_ca_coordinates ( "frags:write_ca_coordinates"  )
BooleanOptionKey const basic::options::OptionKeys::frags::write_rama_tables ( "frags:write_rama_tables"  )
BooleanOptionKey const basic::options::OptionKeys::frags::write_scores ( "frags:write_scores"  )
BooleanOptionKey const basic::options::OptionKeys::frags::write_sequence_only ( "frags:write_sequence_only"  )

Variable Documentation

FileOptionKey const basic::options::OptionKeys::frags::allowed_pdb("frags:allowed_pdb")

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::frags::annotate("frags:annotate")

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::frags::bounded_protocol("frags:bounded_protocol")

Referenced by add_rosetta_options_2().

FileOptionKey const basic::options::OptionKeys::frags::denied_pdb("frags:denied_pdb")

Referenced by add_rosetta_options_2().

FileOptionKey const basic::options::OptionKeys::frags::depth("frags:depth")
StringOptionKey const basic::options::OptionKeys::frags::describe_fragments("frags:describe_fragments")

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::frags::filter_JC("frags:filter_JC")

Referenced by add_rosetta_options_2().

IntegerVectorOptionKey const basic::options::OptionKeys::frags::frag_sizes("frags:frag_sizes")

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::frags::fragment_contacts("frags:fragment_contacts")

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::frags::frags("frags")

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::frags::keep_all_protocol("frags:keep_all_protocol")

Referenced by add_rosetta_options_2().

IntegerOptionKey const basic::options::OptionKeys::frags::n_candidates("frags:n_candidates")

Referenced by add_rosetta_options_2().

IntegerOptionKey const basic::options::OptionKeys::frags::n_frags("frags:n_frags")

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::frags::nonlocal_pairs("frags:nonlocal_pairs")

Referenced by add_rosetta_options_2().

IntegerOptionKey const basic::options::OptionKeys::frags::nr_large_copies("frags:nr_large_copies")
BooleanOptionKey const basic::options::OptionKeys::frags::output_silent("frags:output_silent")

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::frags::p_value_selection("frags:p_value_selection")

Referenced by add_rosetta_options_2().

RealOptionKey const basic::options::OptionKeys::frags::picking_old_max_score("frags:picking_old_max_score")

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::frags::quota_protocol("frags:quota_protocol")

Referenced by add_rosetta_options_2().

RealOptionKey const basic::options::OptionKeys::frags::rama_B("frags:rama_B")

Referenced by add_rosetta_options_2().

RealOptionKey const basic::options::OptionKeys::frags::rama_C("frags:rama_C")

Referenced by add_rosetta_options_2().

RealOptionKey const basic::options::OptionKeys::frags::rama_norm("frags:rama_norm")

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::frags::score_output_silent("frags:score_output_silent")

Referenced by add_rosetta_options_2().

RealOptionKey const basic::options::OptionKeys::frags::seqsim_E("frags:seqsim_E")

Referenced by add_rosetta_options_2().

RealOptionKey const basic::options::OptionKeys::frags::seqsim_H("frags:seqsim_H")

Referenced by add_rosetta_options_2().

RealOptionKey const basic::options::OptionKeys::frags::seqsim_L("frags:seqsim_L")

Referenced by add_rosetta_options_2().

RealOptionKey const basic::options::OptionKeys::frags::sigmoid_cs_A("frags:sigmoid_cs_A")

Referenced by add_rosetta_options_2().

RealOptionKey const basic::options::OptionKeys::frags::sigmoid_cs_B("frags:sigmoid_cs_B")

Referenced by add_rosetta_options_2().

FileOptionKey const basic::options::OptionKeys::frags::spine_x("frags:spine_x")

Referenced by add_rosetta_options_2().

StringVectorOptionKey const basic::options::OptionKeys::frags::ss_pred("frags:ss_pred")

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::frags::write_ca_coordinates("frags:write_ca_coordinates")

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::frags::write_rama_tables("frags:write_rama_tables")

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::frags::write_scores("frags:write_scores")

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::frags::write_sequence_only("frags:write_sequence_only")

Referenced by add_rosetta_options_2().