1 /**
2 * UGENE - Integrated Bioinformatics Tools.
3 * Copyright (C) 2008-2021 UniPro <ugene@unipro.ru>
4 * http://ugene.net
5 *
6 * This program is free software; you can redistribute it and/or
7 * modify it under the terms of the GNU General Public License
8 * as published by the Free Software Foundation; either version 2
9 * of the License, or (at your option) any later version.
10 *
11 * This program is distributed in the hope that it will be useful,
12 * but WITHOUT ANY WARRANTY; without even the implied warranty of
13 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
14 * GNU General Public License for more details.
15 *
16 * You should have received a copy of the GNU General Public License
17 * along with this program; if not, write to the Free Software
18 * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston,
19 * MA 02110-1301, USA.
20 */
21
22 #include "AvgQualStep.h"
23
24 #include <U2Core/U2SafePoints.h>
25
26 #include "trimmomatic/util/QualitySettingsWidget.h"
27
28 namespace U2 {
29 namespace LocalWorkflow {
30
31 const QString AvgQualStepFactory::ID = "AVGQUAL";
32
AvgQualStep()33 AvgQualStep::AvgQualStep()
34 : TrimmomaticStep(AvgQualStepFactory::ID) {
35 name = "AVGQUAL";
36 description = tr("<html><head></head><body>"
37 "<h4>AVGQUAL</h4>"
38 "<p>This step drops a read if the average quality is below the specified level.</p>"
39 "<p>Input the following values:</p>"
40 "<ul>"
41 "<li><b>Quality threshold</b>: the minimum average quality required to keep a read.</li>"
42 "</ul>"
43 "</body></html>");
44 }
45
createWidget() const46 TrimmomaticStepSettingsWidget *AvgQualStep::createWidget() const {
47 return new QualitySettingsWidget(tr("The minimum average quality required to keep a read."));
48 }
49
serializeState(const QVariantMap & widgetState) const50 QString AvgQualStep::serializeState(const QVariantMap &widgetState) const {
51 return QualitySettingsWidget::serializeState(widgetState);
52 }
53
parseState(const QString & command) const54 QVariantMap AvgQualStep::parseState(const QString &command) const {
55 return QualitySettingsWidget::parseState(command, id);
56 }
57
AvgQualStepFactory()58 AvgQualStepFactory::AvgQualStepFactory()
59 : TrimmomaticStepFactory(ID) {
60 }
61
createStep() const62 AvgQualStep *AvgQualStepFactory::createStep() const {
63 return new AvgQualStep();
64 }
65
66 } // namespace LocalWorkflow
67 } // namespace U2
68