Method endElement

src/openms/source/FORMAT/PepXMLFileMascot.cpp:124–206

  }

  void PepXMLFileMascot::endElement(const XMLCh * const /*uri*/, const XMLCh * const /*local_name*/, const XMLCh * const qname)
  {
    String element = sm_.convert(qname);

    ///SEARCH PARAMETERS
    if (element == "search_hit")
    {
      AASequence temp_aa_sequence = AASequence::fromString(actual_sequence_);

      // modification position is 1-based
      for (vector<pair<String, UInt> >::const_iterator it = actual_modifications_.begin(); it != actual_modifications_.end(); ++it)
      {
        // e.g. Carboxymethyl (C)
        vector<String> mod_split;
        it->first.split(' ', mod_split);
        if (it->first.hasSubstring("C-term"))
        {
          temp_aa_sequence.setCTerminalModification(it->first);
        }
        else if (it->first.hasSubstring("N-term"))
        {
          temp_aa_sequence.setNTerminalModification(it->first);
        }
        if (mod_split.size() == 2)
        {
          temp_aa_sequence.setModification(it->second - 1, mod_split[0]);
        }
        else
        {
          error(LOAD, String("Cannot parse modification '") + it->first + "@" + it->second + "'");
        }
      }

      // fixed modifications
      for (const String& it : fixed_modifications_)
      {
        // e.g. Carboxymethyl (C)
        vector<String> mod_split;
        it.split(' ', mod_split);
        if (mod_split.size() == 2)
        {
          if (mod_split[1] == "(C-term)")
          {
            temp_aa_sequence.setCTerminalModification(mod_split[0]);
          }
          else
          {
            if (mod_split[1] == "(N-term)")
            {
              temp_aa_sequence.setNTerminalModification(mod_split[0]);
            }
            else
            {
              String origin = mod_split[1];
              origin.remove(')');
              origin.remove('(');
              for (Size i = 0; i != temp_aa_sequence.size(); ++i)
              {