.. _program_listing_file_src_cpp_fasta_processor.hpp:

Program Listing for File fasta_processor.hpp
============================================

|exhale_lsh| :ref:`Return to documentation for file <file_src_cpp_fasta_processor.hpp>` (``src/cpp/fasta_processor.hpp``)

.. |exhale_lsh| unicode:: U+021B0 .. UPWARDS ARROW WITH TIP LEFTWARDS

.. code-block:: cpp

   #pragma once
   #include <string>
   #include <vector>
   #include <fstream>
   #include <cctype>
   #include "factorizer.hpp"
   
   namespace noLZSS {
   
   struct FastaProcessResult {
       std::string sequence;      
       size_t num_sequences;      
       std::vector<std::string> sequence_ids;  
       std::vector<size_t> sequence_lengths;   
       std::vector<size_t> sequence_positions; 
   };
   
   struct FastaParseResult {
       std::vector<std::string> sequences;    
       std::vector<std::string> sequence_ids; 
   };
   
   struct FastaFactorizationResult {
       std::vector<Factor> factors;                    
       std::vector<uint64_t> sentinel_factor_indices; 
   };
   
   FastaProcessResult process_nucleotide_fasta(const std::string& fasta_path);
   
   FastaProcessResult process_amino_acid_fasta(const std::string& fasta_path);
   
   FastaFactorizationResult factorize_fasta_multiple_dna_w_rc(const std::string& fasta_path);
   
   FastaFactorizationResult factorize_fasta_multiple_dna_no_rc(const std::string& fasta_path);
   
   size_t write_factors_binary_file_fasta_multiple_dna_w_rc(const std::string& fasta_path, const std::string& out_path);
   
   size_t write_factors_binary_file_fasta_multiple_dna_no_rc(const std::string& fasta_path, const std::string& out_path);
   
   } // namespace noLZSS