libpappsomspp
Library for mass spectrometry
fastaoutputstream.cpp
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1 
2 /*******************************************************************************
3  * Copyright (c) 2015 Olivier Langella <Olivier.Langella@moulon.inra.fr>.
4  *
5  * This file is part of the PAPPSOms++ library.
6  *
7  * PAPPSOms++ is free software: you can redistribute it and/or modify
8  * it under the terms of the GNU General Public License as published by
9  * the Free Software Foundation, either version 3 of the License, or
10  * (at your option) any later version.
11  *
12  * PAPPSOms++ is distributed in the hope that it will be useful,
13  * but WITHOUT ANY WARRANTY; without even the implied warranty of
14  * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
15  * GNU General Public License for more details.
16  *
17  * You should have received a copy of the GNU General Public License
18  * along with PAPPSOms++. If not, see <http://www.gnu.org/licenses/>.
19  *
20  * Contributors:
21  * Olivier Langella <Olivier.Langella@moulon.inra.fr> - initial API and
22  *implementation
23  ******************************************************************************/
24 #include "fastaoutputstream.h"
25 
26 namespace pappso
27 {
28 FastaOutputStream::FastaOutputStream(QTextStream &otxtstream)
29  : m_ofastastream(otxtstream)
30 {
31 }
32 
34 {
35 }
36 
37 void
39 {
40 
41  m_ofastastream << ">" << protein.getAccession() << " "
42  << protein.getDescription() << Qt::endl;
43  m_ofastastream << protein.getSequence() << Qt::endl;
44 }
45 
46 } // namespace pappso
FastaOutputStream(QTextStream &otxtstream)
void writeProtein(const Protein &protein) override
const QString & getAccession() const
Definition: protein.cpp:127
const QString & getDescription() const
Definition: protein.cpp:137
const QString & getSequence() const
Definition: protein.cpp:122
tries to keep as much as possible monoisotopes, removing any possible C13 peaks and changes multichar...
Definition: aa.cpp:39