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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: CC0-1.0
#include <utility>
#include <seqan3/alignment/pairwise/align_pairwise.hpp>
#include <seqan3/alignment/scoring/hamming_scoring_scheme.hpp>
#include <seqan3/alphabet/nucleotide/dna4.hpp>
#include <seqan3/core/debug_stream.hpp>
int main()
{
using namespace seqan3::literals;
seqan3::dna4_vector s1 = "ACGTGAACTGACT"_dna4;
seqan3::dna4_vector s2 = "ACGAAGACCGAT"_dna4;
// Configure the alignment kernel.
auto config =
seqan3::align_cfg::method_global{} | seqan3::align_cfg::scoring_scheme{seqan3::hamming_scoring_scheme{}};
// Invoke the pairwise alignment which returns a lazy range over alignment results.
auto results = seqan3::align_pairwise(std::tie(s1, s2), config);
auto & res = *results.begin();
seqan3::debug_stream << "Score: " << res.score() << '\n';
}
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