libpappsomspp
Library for mass spectrometry
timsxicextractorinterface.cpp
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1 /**
2  * \file pappsomspp/vendors/tims/xicextractor/timsxicextractorinterface.cpp
3  * \date 21/09/2019
4  * \author Olivier Langella
5  * \brief minimum functions to extract XICs from Tims 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 
29 #include "../../../msrun/private/timsmsrunreaderms2.h"
30 #include "../../../exception/exceptionnotpossible.h"
31 
32 using namespace pappso;
33 
35  MsRunReaderSPtr &msrun_reader)
36  : MsRunXicExtractorInterface(msrun_reader)
37 {
38 
39  pappso::TimsMsRunReaderMs2 *tims2_reader =
40  dynamic_cast<pappso::TimsMsRunReaderMs2 *>(msrun_reader.get());
41  if(tims2_reader != nullptr)
42  {
43  mp_timsData = tims2_reader->getTimsDataSPtr().get();
44  }
45  else
46  {
47  throw pappso::ExceptionNotPossible(QObject::tr(
48  "error: TimsXicExtractorInterface must use a TimsMsRunReaderMs2"));
49  }
50 }
51 
53 {
54 }
virtual TimsDataSp getTimsDataSPtr()
give an access to the underlying raw data pointer
TimsXicExtractorInterface(MsRunReaderSPtr &msrun_reader)
tries to keep as much as possible monoisotopes, removing any possible C13 peaks and changes multichar...
Definition: aa.cpp:39
std::shared_ptr< MsRunReader > MsRunReaderSPtr
Definition: msrunreader.h:185
minimum functions to extract XICs from Tims Data