Method generateTrieDB

src/openms/source/FORMAT/InspectOutfile.cpp:730–972

  }

  void InspectOutfile::generateTrieDB(
    const String& source_database_filename,
    const String& database_filename,
    const String& index_filename,
    bool append,
    const String& species)
  {
    ifstream source_database(source_database_filename.c_str());
    if (!source_database)
    {
      throw Exception::FileNotFound(__FILE__, __LINE__, OPENMS_PRETTY_FUNCTION, source_database_filename);
    }

    // get the labels
    String ac_label, sequence_start_label, sequence_end_label, comment_label, species_label;
    getLabels(source_database_filename, ac_label, sequence_start_label, sequence_end_label, comment_label, species_label);

    ofstream database;
    if (append)
    {
      database.open(database_filename.c_str(), ios::app | ios::out);
    }
    else
    {
      database.open(database_filename.c_str());
    }
    if (!database)
    {
      source_database.close();
      source_database.clear();
      throw Exception::UnableToCreateFile(__FILE__, __LINE__, OPENMS_PRETTY_FUNCTION, database_filename);
    }
    ofstream index;
    if (append)
    {
      index.open(index_filename.c_str(), ios::app | ios::out | ios::binary);
    }
    else
    {
      index.open(index_filename.c_str(), ios::out | ios::binary);
    }
    if (!index)
    {
      source_database.close();
      source_database.clear();
      database.close();
      database.clear();
      throw Exception::UnableToCreateFile(__FILE__, __LINE__, OPENMS_PRETTY_FUNCTION, index_filename);
    }

    // using flags to mark what has already been read
    // the flags
    unsigned char ac_flag = 1;
    unsigned char species_flag = !species.empty() * 2; // if no species is given, take all proteins
    unsigned char sequence_flag = 4;
    // the value
    unsigned char record_flags = 0;