/**
 * UGENE - Integrated Bioinformatics Tools.
 * Copyright (C) 2008-2024 UniPro <ugene@unipro.ru>
 * http://ugene.net
 *
 * This program is free software; you can redistribute it and/or
 * modify it under the terms of the GNU General Public License
 * as published by the Free Software Foundation; either version 2
 * 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 General Public License for more details.
 *
 * You should have received a copy of the GNU General Public License
 * along with this program; if not, write to the Free Software
 * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston,
 * MA 02110-1301, USA.
 */

#include "MsaHighlightingSchemeTransitions.h"

#include <QColor>

namespace U2 {

MsaHighlightingSchemeTransitions::MsaHighlightingSchemeTransitions(QObject* parent, const MsaHighlightingSchemeFactory* factory, MsaObject* maObj)
    : MsaHighlightingScheme(parent, factory, maObj) {
}

void MsaHighlightingSchemeTransitions::process(const char refChar, char& seqChar, QColor& color, bool& highlight, int refCharColumn, int refCharRow) const {
    switch (refChar) {
        case 'N':
            highlight = true;
            break;
        case 'A':
            highlight = (seqChar == 'G');
            break;
        case 'C':
            highlight = (seqChar == 'T');
            break;
        case 'G':
            highlight = (seqChar == 'A');
            break;
        case 'T':
            highlight = (seqChar == 'C');
            break;
        default:
            highlight = false;
            break;
    }

    if (!highlight) {
        color = QColor();
    }

    MsaHighlightingScheme::process(refChar, seqChar, color, highlight, refCharColumn, refCharRow);
}

MsaHighlightingSchemeTransitionsFactory::MsaHighlightingSchemeTransitionsFactory(QObject* parent, const QString& id, const QString& name, const AlphabetFlags& supportedAlphabets)
    : MsaHighlightingSchemeFactory(parent, id, name, supportedAlphabets) {
}

MsaHighlightingScheme* MsaHighlightingSchemeTransitionsFactory::create(QObject* parent, MsaObject* maObj) const {
    return new MsaHighlightingSchemeTransitions(parent, this, maObj);
}

}  // namespace U2
