libpappsomspp
Library for mass spectrometry
timsmsfilereader.h
Go to the documentation of this file.
1 /**
2  * \file pappsomspp/msfile/timsmsfilereader.h
3  * \date 06/09/2019
4  * \author Olivier Langella
5  * \brief MSrun file reader for native Bruker TimsTOF raw data
6  */
7 
8 /*******************************************************************************
9  * Copyright (c) 2019 Olivier Langella <Olivier.Langella@u-psud.fr>.
10  *
11  * This file is part of the PAPPSOms++ library.
12  *
13  * PAPPSOms++ is free software: you can redistribute it and/or modify
14  * it under the terms of the GNU General Public License as published by
15  * the Free Software Foundation, either version 3 of the License, or
16  * (at your option) any later version.
17  *
18  * PAPPSOms++ is distributed in the hope that it will be useful,
19  * but WITHOUT ANY WARRANTY; without even the implied warranty of
20  * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
21  * GNU General Public License for more details.
22  *
23  * You should have received a copy of the GNU General Public License
24  * along with PAPPSOms++. If not, see <http://www.gnu.org/licenses/>.
25  *
26  ******************************************************************************/
27 
28 
29 #pragma once
30 
31 #include "msfilereader.h"
32 #include "../msrun/msrunid.h"
33 #include "../msrun/msrunreader.h"
34 
35 namespace pappso
36 {
37 
38 /**
39  * @todo write docs
40  */
42 {
43  public:
44  TimsMsFileReader(const QString &file_name);
45  virtual ~TimsMsFileReader();
46 
47  virtual MzFormat getFileFormat() override;
48 
49  virtual std::vector<MsRunIdCstSPtr>
50  getMsRunIds(const QString &run_prefix) override;
51 
52  MsRunReader *selectMsRunReader(const QString &file_name) const;
53 
54  private:
55  virtual std::size_t initialize();
56 };
57 } // namespace pappso
base class to read MSrun the only way to build a MsRunReader object is to use the MsRunReaderFactory
Definition: msrunreader.h:192
virtual std::size_t initialize()
virtual std::vector< MsRunIdCstSPtr > getMsRunIds(const QString &run_prefix) override
MsRunReader * selectMsRunReader(const QString &file_name) const
virtual MzFormat getFileFormat() override
TimsMsFileReader(const QString &file_name)
tries to keep as much as possible monoisotopes, removing any possible C13 peaks and changes multichar...
Definition: aa.cpp:39
MzFormat
Definition: types.h:108