cuDDL/fastx_8hpp_source.html

#pragma once


#include <cuda/std/cstdint>


#include <optional>

#include <string>

#include <utility>

#include <vector>


#include <cuddl/detail/fasta_parser.hpp>

#include <cuddl/error.hpp>


namespace cuddl {


using fasta_parse_result = detail::fasta_parse_result;


inline Result<fasta_parse_result> parse_fasta_file(

    std::string const& path,

    uint32_t k,

    unsigned threads = std::thread::hardware_concurrency()

) {

    return detail::parse_fasta(path, k, threads);

}


}  // namespace cuddl

error.hpp

fasta_parser.hpp

cuddl::detail::parse_fasta
Result< fasta_parse_result > parse_fasta(std::string const &path, uint32_t k, unsigned threads=std::thread::hardware_concurrency())
Parses a FASTA/FASTQ file's sequence bases into packed canonical k-mers of length k.
Definition fasta_parser.hpp:288

cuddl
Batch operations over contiguous device rows.
Definition a48.hpp:14

cuddl::parse_fasta_file
Result< fasta_parse_result > parse_fasta_file(std::string const &path, uint32_t k, unsigned threads=std::thread::hardware_concurrency())
Parses a FASTA/FASTQ file's sequence bases into packed canonical k-mers of length k.
Definition fastx.hpp:34

cuddl::Result
Fallible API result: cuda::std::expected<T, Error> with cuDDL factories.
Definition error.hpp:118

cuddl::detail::fasta_parse_result
Result of parsing one FASTA/FASTQ file into packed canonical k-mers.
Definition fasta_parser.hpp:21