crossaln.cc File Reference

#include <core/types.hh>
#include <devel/init.hh>
#include <basic/options/option.hh>
#include <core/sequence/util.hh>
#include <core/sequence/Sequence.hh>
#include <core/id/SequenceMapping.hh>
#include <core/sequence/SequenceAlignment.hh>
#include <utility/vector1.hh>
#include <utility/io/ozstream.hh>
#include <utility/file/FileName.fwd.hh>
#include <utility/string_util.hh>
#include <utility/excn/Exceptions.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/cm.OptionKeys.gen.hh>
#include <basic/options/keys/out.OptionKeys.gen.hh>

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

Function Documentation

main()

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

References in::file::alignment(), out::file::alignment(), in::file::alignment2(), aln, cm::aln_format(), cm::aln_length_filter(), cm::aln_length_filter_quantile(), argv, count, utility::io::oc::cout, test.T009_Exceptions::e, create_a3b_hbs::i, basic::init(), enumerate_junctions::int, kmeans_adaptive_kernel_density_bb_dependent_rotlib::m, option, bin_torsions::output, basic::options::OptionKeys::relax::sequence, utility::to_string(), and basic::options::OptionKeys::inout::dbms::user.