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