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
32using namespace pappso;
33
34TimsXicExtractorInterface::TimsXicExtractorInterface(
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
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:184
minimum functions to extract XICs from Tims Data