pheniqs.cpp

/*
    Pheniqs : PHilology ENcoder wIth Quality Statistics
    Copyright (C) 2018  Lior Galanti
    NYU Center for Genetics and System Biology

    Author: Lior Galanti <lior.galanti@nyu.edu>

    This program is free software: you can redistribute it and/or modify
    it under the terms of the GNU Affero General Public License as
    published by the Free Software Foundation, either version 3 of the
    License, or (at your option) any later version.

    This program is distributed in the hope that it will be useful,
    but WITHOUT ANY WARRANTY; without even the implied warranty of
    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
    GNU Affero General Public License for more details.

    You should have received a copy of the GNU Affero General Public License
    along with this program.  If not, see <http://www.gnu.org/licenses/>.
*/

#include "pipeline.h"

#include<sys/stat.h>

int main(int argc, char** argv) {
    int return_code(static_cast< int >(ErrorCode::OK));
    try {

        Pipeline Pipeline(argc, (const char**)argv);
        Pipeline.execute();

    } catch(Error& error) {
        error.describe(cerr);
        return_code = static_cast< int >(error.code);

    } catch(exception& error) {
        cerr << error.what();
        return_code =  static_cast< int >(ErrorCode::UNKNOWN_ERROR);

    }
    return return_code;
};