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// SPDX-FileCopyrightText: 2006-2025 Knut Reinert & Freie Universität Berlin
// SPDX-FileCopyrightText: 2016-2025 Knut Reinert & MPI für molekulare Genetik
// SPDX-License-Identifier: BSD-3-Clause
#include <benchmark/benchmark.h>
#include <iostream>
#include <memory>
#include <sstream>
#if SEQAN3_HAS_ZLIB
# include <seqan3/contrib/stream/bgzf_ostream.hpp>
# include <seqan3/contrib/stream/gz_ostream.hpp>
#endif // SEQAN3_HAS_ZLIB
#if SEQAN3_HAS_BZIP2
# include <seqan3/contrib/stream/bz2_ostream.hpp>
#endif // SEQAN3_HAS_BZIP2
// SEQAN2
#if __has_include(<seqan/stream.h>)
# define SEQAN3_HAS_SEQAN2 1
# if SEQAN3_HAS_ZLIB
# define SEQAN_HAS_ZLIB 1
# endif // SEQAN3_HAS_ZLIB
# if SEQAN3_HAS_BZIP2
# define SEQAN_HAS_BZIP2 1
# endif // SEQAN3_HAS_BZIP2
# include <seqan/stream.h>
#endif
// ============================================================================
// plain benchmark of ostringstream
// ============================================================================
void uncompressed(benchmark::State & state)
{
std::ostringstream os;
std::ostreambuf_iterator<char> oit{os};
size_t i = 0;
for (auto _ : state)
oit = static_cast<char>(i++ % 128);
}
BENCHMARK(uncompressed);
// ============================================================================
// compression applied
// ============================================================================
template <typename compressed_ostream_t>
void compressed(benchmark::State & state)
{
std::ostringstream os;
compressed_ostream_t ogzf{os};
std::ostreambuf_iterator<char> oit{ogzf};
size_t i = 0;
for (auto _ : state)
oit = static_cast<char>(i++ % 128);
}
#if SEQAN3_HAS_ZLIB
BENCHMARK_TEMPLATE(compressed, seqan3::contrib::gz_ostream);
BENCHMARK_TEMPLATE(compressed, seqan3::contrib::bgzf_ostream);
#endif // SEQAN3_HAS_ZLIB
#if SEQAN3_HAS_BZIP2
BENCHMARK_TEMPLATE(compressed, seqan3::contrib::bz2_ostream);
#endif // SEQAN3_HAS_BZIP2
// ============================================================================
// compression applied, but stuffed into plain ostream
// ============================================================================
template <typename compressed_ostream_t>
void compressed_type_erased(benchmark::State & state)
{
std::ostringstream os;
std::unique_ptr<std::ostream> ogzf{new compressed_ostream_t{os}};
std::ostreambuf_iterator<char> oit{*ogzf};
size_t i = 0;
for (auto _ : state)
oit = static_cast<char>(i++ % 128);
}
#if SEQAN3_HAS_ZLIB
BENCHMARK_TEMPLATE(compressed_type_erased, seqan3::contrib::gz_ostream);
BENCHMARK_TEMPLATE(compressed_type_erased, seqan3::contrib::bgzf_ostream);
#endif // SEQAN3_HAS_ZLIB
#if SEQAN3_HAS_BZIP2
BENCHMARK_TEMPLATE(compressed_type_erased, seqan3::contrib::bz2_ostream);
#endif // SEQAN3_HAS_BZIP2
// ============================================================================
// compression applied, but stuffed into plain ostream, also stringstream erased
// ============================================================================
template <typename compressed_ostream_t>
void compressed_type_erased2(benchmark::State & state)
{
std::unique_ptr<std::ostream> os{new std::ostringstream{}};
std::unique_ptr<std::ostream> ogzf{new compressed_ostream_t{*os}};
std::ostreambuf_iterator<char> oit{*ogzf};
size_t i = 0;
for (auto _ : state)
oit = static_cast<char>(i++ % 128);
}
#if SEQAN3_HAS_ZLIB
BENCHMARK_TEMPLATE(compressed_type_erased2, seqan3::contrib::gz_ostream);
BENCHMARK_TEMPLATE(compressed_type_erased2, seqan3::contrib::bgzf_ostream);
#endif // SEQAN3_HAS_ZLIB
#if SEQAN3_HAS_BZIP2
BENCHMARK_TEMPLATE(compressed_type_erased2, seqan3::contrib::bz2_ostream);
#endif // SEQAN3_HAS_BZIP2
// ============================================================================
// seqan2 virtual stream
// ============================================================================
#ifdef SEQAN3_HAS_SEQAN2
template <typename compression_type>
void seqan2_compressed(benchmark::State & state)
{
std::ostringstream os;
seqan2::VirtualStream<char, seqan2::Output> ogzf;
compression_type tag;
open(ogzf, os, tag);
size_t i = 0;
for (auto _ : state)
write(ogzf, static_cast<char>(i++ % 128));
}
BENCHMARK_TEMPLATE(seqan2_compressed, seqan2::Nothing);
# ifdef SEQAN_HAS_ZLIB
BENCHMARK_TEMPLATE(seqan2_compressed, seqan2::GZFile);
BENCHMARK_TEMPLATE(seqan2_compressed, seqan2::BgzfFile);
# endif
# ifdef SEQAN_HAS_BZIP2
BENCHMARK_TEMPLATE(seqan2_compressed, seqan2::BZ2File);
# endif
#endif // SEQAN3_HAS_SEQAN2
// ============================================================================
// instantiate tests
// ============================================================================
BENCHMARK_MAIN();
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