src/sparse.cc File Reference

Defines main function of SPARSE. More...

#include <iostream>
#include <fstream>
#include <vector>
#include "LocARNA/sequence.hh"
#include "LocARNA/basepairs.hh"
#include "LocARNA/alignment.hh"
#include "LocARNA/aligner_n.hh"
#include "LocARNA/rna_data.hh"
#include "LocARNA/arc_matches.hh"
#include "LocARNA/match_probs.hh"
#include "LocARNA/ribosum.hh"
#include "LocARNA/ribofit.hh"
#include "LocARNA/anchor_constraints.hh"
#include "LocARNA/sequence_annotation.hh"
#include "LocARNA/trace_controller.hh"
#include "LocARNA/multiple_alignment.hh"
#include "LocARNA/sparsification_mapper.hh"
#include "LocARNA/global_stopwatch.hh"
#include "LocARNA/pfold_params.hh"
#include "LocARNA/main_helper.icc"
#include "LocARNA/options.hh"

Functions
int	main (int argc, char **argv)
	Main method of executable locarna.
Variables
const std::string	VERSION_STRING = (std::string)PACKAGE_STRING
	Version string (from configure.ac via autoconf system)
const bool	DO_TRACE = true
	Switch on/off trace back.
command_line_parameters	clp
	holds command line parameters of locarna
option_def	my_options []
	defines command line parameters

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Detailed Description

Defines main function of SPARSE.

Copyright (C) Milad Miladi <miladim(@)informatik.uni-freiburg.de>

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Function Documentation

int main	(	int	argc,
		char **	argv
	)

Main method of executable locarna.

Parameters:

argc	argument counter
argv	argument vector

Returns:

success

---

Variable Documentation

const bool DO_TRACE = true

Switch on/off trace back.

Note:

never made it into command line