Method writeMzIdentMLFile

src/openms/source/FORMAT/HANDLERS/MzIdentMLDOMHandler.cpp:305–481

    }

    void MzIdentMLDOMHandler::writeMzIdentMLFile(const std::string& mzid_file)
    {
      DOMImplementation* impl =  DOMImplementationRegistry::getDOMImplementation(CONST_XMLCH("XML 1.0")); //XML 3?!
      if (impl != nullptr)
      {
        try
        {
          xercesc::DOMDocument* xmlDoc = impl->createDocument(
            CONST_XMLCH("http://psidev.info/psi/pi/mzIdentML/1.1"),
            CONST_XMLCH("MzIdentML"), // root element name
            nullptr); // document type object (DTD).

          DOMElement* rootElem = xmlDoc->getDocumentElement();
          rootElem->setAttribute(CONST_XMLCH("version"),
                                 StringManager::convertPtr(schema_version_).get());
          rootElem->setAttribute(CONST_XMLCH("xsi:schemaLocation"),
                                 CONST_XMLCH("http://psidev.info/psi/pi/mzIdentML/1.1 ../../schema/mzIdentML1.1.0.xsd"));
          rootElem->setAttribute(CONST_XMLCH("creationDate"),
                                 StringManager::convertPtr(String(DateTime::now().getDate() + "T" + DateTime::now().getTime())).get());

          // * cvList *
          DOMElement* cvl_p = xmlDoc->createElement(CONST_XMLCH("cvList")); // TODO add generically
          buildCvList_(cvl_p);
          rootElem->appendChild(cvl_p);

          // * AnalysisSoftwareList *
          DOMElement* asl_p = xmlDoc->createElement(CONST_XMLCH("AnalysisSoftwareList"));
          for (vector<ProteinIdentification>::const_iterator pi = cpro_id_->begin(); pi != cpro_id_->end(); ++pi)
          {
//                  search_engine_version_ = pi->getSearchEngineVersion();
//                  search_engine_ = pi->getSearchEngine();
          }
          buildAnalysisSoftwareList_(asl_p);
          rootElem->appendChild(asl_p);

//              // * AnalysisSampleCollection *
//              DOMElement* asc_p = xmlDoc->createElement(CONST_XMLCH("AnalysisSampleCollection"));
//              buildAnalysisSampleCollection_(asc_p);
//              rootElem->appendChild(asc_p);

          // * SequenceCollection *
          DOMElement* sc_p = xmlDoc->createElement(CONST_XMLCH("SequenceCollection"));

          for (vector<ProteinIdentification>::const_iterator pi = cpro_id_->begin(); pi != cpro_id_->end(); ++pi)
          {
            String dbref = pi->getSearchParameters().db +  pi->getSearchParameters().db_version + pi->getSearchParameters().taxonomy; //TODO @mths : this needs to be more unique, btw add tax etc. as cv to DBSequence
            for (vector<ProteinHit>::const_iterator ph = pi->getHits().begin(); ph != pi->getHits().end(); ++ph)
            {
              CVTermList cvs;
              DBSequence temp_struct = {ph->getSequence(), dbref, ph->getAccession(), cvs};
              db_sq_map_.insert(make_pair(ph->getAccession(), temp_struct));
            }
          }

          set<AASequence> pepset;
          for (vector<PeptideIdentification>::const_iterator pi = cpep_id_->begin(); pi != cpep_id_->end(); ++pi)
          {
            for (vector<PeptideHit>::const_iterator ph = pi->getHits().begin(); ph != pi->getHits().end(); ++ph)