Method exportFeatureMap

src/openms/source/QC/MQMsmsExporter.cpp:256–287

}

void MQMsms::exportFeatureMap(const FeatureMap& feature_map, const ConsensusMap& cmap, const MSExperiment& exp, const std::map<String,String>& prot_mapper)
{
  if (!MQExporterHelper::isValid(filename_))
  {
    OPENMS_LOG_ERROR << "MqMsms object is not valid." << std::endl;
    throw Exception::FileNotWritable(__FILE__, __LINE__, OPENMS_PRETTY_FUNCTION, filename_);
  }
  const std::map<Size, Size>& fTc = MQExporterHelper::makeFeatureUIDtoConsensusMapIndex_(cmap);
  StringList spectra_data;
  feature_map.getPrimaryMSRunPath(spectra_data);
  String raw_file = File::basename(spectra_data.empty() ? feature_map.getLoadedFilePath() : spectra_data[0]);

  ProteinIdentification::Mapping mp_f;
  mp_f.create(feature_map.getProteinIdentifications());

  std::multimap<String, std::pair<Size, Size>> UIDs = PeptideIdentification::buildUIDsFromAllPepIDs(cmap);

  for (const Feature& f : feature_map)
  {
    const Size& f_id = f.getUniqueId();
    const auto& c_id = fTc.find(f_id);
    if (c_id != fTc.end())
    {
      exportRowFromFeature_(f, cmap, c_id->second, raw_file, UIDs, mp_f, exp, prot_mapper);
    }
    else
    {
      throw Exception::MissingInformation(__FILE__, __LINE__, OPENMS_PRETTY_FUNCTION, "Feature in FeatureMap has no associated ConsensusFeature.");
    }
  }
  file_.flush();
}