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 #ifndef _U2_HMMER_BUILD_FROM_FILE_TASK_H_
23 #define _U2_HMMER_BUILD_FROM_FILE_TASK_H_
24 
25 #include "HmmerBuildTask.h"
26 
27 namespace U2 {
28 
29 class ConvertAlignment2Stockholm;
30 
31 class HmmerBuildFromFileTask : public ExternalToolSupportTask {
32     Q_OBJECT
33 public:
34     HmmerBuildFromFileTask(const HmmerBuildSettings &settigngs, const QString &msaUrl);
35 
36     const QString &getHmmProfileUrl() const;
37 
38 private:
39     void prepare();
40     QList<Task *> onSubTaskFinished(Task *subTask);
41     ReportResult report();
42     QString generateReport() const;
43 
44     bool isStockholm();
45     void prepareConvertTask();
46     void prepareBuildTask(const QString &stockholmMsaUrl);
47 
48     void removeTempDir();
49 
50     ConvertAlignment2Stockholm *convertTask;
51     HmmerBuildTask *buildTask;
52 
53     const HmmerBuildSettings settings;
54     const QString msaUrl;
55 };
56 
57 }    // namespace U2
58 
59 #endif    // _U2_HMMER_BUILD_FROM_FILE_TASK_H_
60