exhaustive_align.cc File Reference

#include <core/types.hh>
#include <devel/init.hh>
#include <basic/options/option.hh>
#include <core/sequence/SequenceProfile.hh>
#include <core/sequence/SequenceAlignment.hh>
#include <core/sequence/SWAligner.hh>
#include <core/sequence/PairScoringScheme.hh>
#include <core/sequence/ScoringSchemeFactory.hh>
#include <core/sequence/ScoringScheme.fwd.hh>
#include <core/sequence/CompositeScoringScheme.hh>
#include <protocols/comparative_modeling/AlignmentSet.hh>
#include <utility/vector1.hh>
#include <utility/io/ozstream.hh>
#include <utility/file/FileName.hh>
#include <ObjexxFCL/format.hh>
#include <ObjexxFCL/string.functions.hh>
#include <map>
#include <iostream>
#include <string>
#include <basic/options/keys/out.OptionKeys.gen.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/cm.OptionKeys.gen.hh>
#include <utility/excn/Exceptions.hh>

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

Function Documentation

main()

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

References out::file::alignment(), argv, utility::file::FileName::base(), utility::options::StringOptionKey::clone(), utility::io::oc::cout, test.T009_Exceptions::e, end, create_a3b_hbs::i, basic::init(), create_a3b_hbs::j, basic::options::OptionKeys::cm::min_gap_extend, basic::options::OptionKeys::cm::min_gap_open, cm::min_gap_open(), option, bin_torsions::output, in::file::pssm(), cm::seq_score(), and challenge::ss.