32#include "../../types.h"
33#include "../../msfile/msfileaccessor.h"
34#include "../../msfile/msfilereader.h"
35#include "../../vendors/tims/timsdata.h"
51 massSpectrumSPtr(std::size_t spectrum_index)
override;
53 massSpectrumCstSPtr(std::size_t spectrum_index)
override;
56 qualifiedMassSpectrum(std::size_t spectrum_index,
57 bool want_binary_data =
true)
const override;
73 unsigned int ms_level)
override;
75 virtual std::size_t spectrumListSize()
const override;
77 virtual bool hasScanNumbers()
const override;
84 void setMs2BuiltinCentroid(
bool centroid);
89 virtual std::vector<std::size_t>
90 getPrecursorsIDFromMzRt(
int charge,
double mz_val,
double rt_sec,
double k0);
93 virtual bool releaseDevice()
override;
95 virtual bool acquireDevice()
override;
106 virtual std::vector<double> getRetentionTimeLine()
override;
108 virtual Trace getTicChromatogram()
override;
111 virtual void initialize()
override;
112 virtual bool accept(
const QString &file_name)
const override;
121 bool m_builtinMs2Centroid =
true;
base class to read MSrun the only way to build a MsRunReader object is to use the MsRunReaderFactory
Class representing a fully specified mass spectrum.
interface to collect spectrums from the MsRunReader class
pappso::FilterInterfaceCstSPtr msp_ms2Filter
pappso::FilterInterfaceCstSPtr msp_ms1Filter
A simple container of DataPoint instances.
tries to keep as much as possible monoisotopes, removing any possible C13 peaks and changes multichar...
std::shared_ptr< const MsRunId > MsRunIdCstSPtr
std::shared_ptr< TimsData > TimsDataSp
shared pointer on a TimsData object
std::shared_ptr< const MassSpectrum > MassSpectrumCstSPtr
std::shared_ptr< const FilterInterface > FilterInterfaceCstSPtr
std::shared_ptr< MassSpectrum > MassSpectrumSPtr
std::shared_ptr< XicCoord > XicCoordSPtr