45 msp_timsData(msrun_reader_base.msp_timsData)
62 std::make_shared<TimsData>(
mcsp_msRunId.get()->getFileName());
67 QObject::tr(
"ERROR in TimsMsRunReaderBase::initialize "
68 "msp_timsData is null for MsRunId %1")
77 qDebug() << file_name;
129 return msp_timsData.get()->getRetentionTimeLineInSeconds();
135 std::size_t spectrum_index [[maybe_unused]],
base class to read MSrun the only way to build a MsRunReader object is to use the MsRunReaderFactory
MsRunIdCstSPtr mcsp_msRunId
Class representing a fully specified mass spectrum.
TimsMsRunReaderBase(MsRunIdCstSPtr &msrun_id_csp)
virtual Trace getTicChromatogram() override
get a TIC chromatogram
virtual bool releaseDevice() override
release data back end device if a the data back end is released, the developper has to use acquireDev...
virtual void initialize() override
virtual pappso::XicCoordSPtr newXicCoordSPtrFromSpectrumIndex(std::size_t spectrum_index, pappso::PrecisionPtr precision) const override
get a xic coordinate object from a given spectrum index
virtual std::vector< double > getRetentionTimeLine() override
retention timeline get retention times along the MSrun in seconds
virtual ~TimsMsRunReaderBase()
virtual bool hasScanNumbers() const override
tells if spectra can be accessed using scan numbers by default, it returns false. Only overrided func...
virtual pappso::XicCoordSPtr newXicCoordSPtrFromQualifiedMassSpectrum(const pappso::QualifiedMassSpectrum &mass_spectrum, pappso::PrecisionPtr precision) const override
get a xic coordinate object from a given spectrum
virtual bool acquireDevice() override
acquire data back end device
virtual bool accept(const QString &file_name) const override
tells if the reader is able to handle this file must be implemented by private MS run reader,...
virtual TimsDataSp getTimsDataSPtr()
give an access to the underlying raw data pointer
A simple container of DataPoint instances.
process interrupted exception
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< XicCoord > XicCoordSPtr
Base class for all tims ms run reader objects.