Method writeUserParam_

src/openms/source/FORMAT/HANDLERS/MzMLHandler.cpp:3489–3596

    }

    void MzMLHandler::writeUserParam_(std::ostream& os, const MetaInfoInterface& meta, UInt indent, const String& path, const Internal::MzMLValidator& validator, const std::set<String>& exclude) const
    {
      std::vector<String> cvParams;
      std::vector<String> userParams;

      std::vector<String> keys;
      meta.getKeys(keys);

      for (std::vector<String>::iterator key = keys.begin(); key != keys.end(); ++key)
      {
        if (exclude.count(*key)) continue; // skip excluded entries

        // special treatment of GO and BTO terms
        // <cvParam cvRef="BTO" accession="BTO:0000199" name="cardiac muscle"/>

        if (*key == "GO cellular component" || *key == "brenda source tissue")
        {
          // the CVTerm info is in the meta value
          const ControlledVocabulary::CVTerm* c = cv_.checkAndGetTermByName(meta.getMetaValue(*key));

          if (c != nullptr)
          {
            // TODO: validate CV, we currently cannot do this as the relations in the BTO and GO are not captured by our CV impl
            cvParams.push_back(writeCV_(*c, DataValue::EMPTY));
          }
        }
        else
        {
          bool writtenAsCVTerm = false;
          const ControlledVocabulary::CVTerm* c = cv_.checkAndGetTermByName(*key);
          if (c != nullptr)
          {
            if (validateCV_(*c, path, validator))
            {
              // write CV
              cvParams.push_back(writeCV_(*c, meta.getMetaValue(*key)));
              writtenAsCVTerm = true;
            }
          }

          // if we could not write it as CVTerm we will store it at least as userParam
          if (!writtenAsCVTerm)
          {
            String userParam = "<userParam name=\"" + *key + "\" type=\"";

            const DataValue& d = meta.getMetaValue(*key);
            //determine type
            if (d.valueType() == DataValue::INT_VALUE)
            {
              userParam += "xsd:integer";
            }
            else if (d.valueType() == DataValue::DOUBLE_VALUE)
            {
              userParam += "xsd:double";
            }
            else //string or lists are converted to string
            {
              userParam += "xsd:string";