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[fix] workaround bug in cereal #197

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Merged
h-2 merged 1 commit into from
Nov 10, 2022
Merged

[fix] workaround bug in cereal #197

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30 changes: 29 additions & 1 deletion src/shared_definitions.hpp
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Original file line number Diff line number Diff line change
Expand Up @@ -237,7 +237,7 @@ using IndexSpec = fmindex_collection::occtable::interleavedEPR32V2::OccTable<Alp
// ==========================================================================

template <typename TString>
using TCDStringSet = seqan3::concatenated_sequences<TString>; //TODO seqan3::concatenated_sequences
using TCDStringSet = seqan3::concatenated_sequences<TString>;

template <AlphabetEnum c_origSbjAlph, AlphabetEnum c_transAlph, AlphabetEnum c_redAlph>
inline constexpr auto sbjTransView = []()
Expand Down Expand Up @@ -276,6 +276,34 @@ constexpr auto redView = []()
return views::dna_n_to_random;
}();

// ==========================================================================
// overload serialisation
// ==========================================================================

namespace cereal
{

template <seqan3::alphabet alph_t>
requires std::is_trivially_copyable_v<alph_t>
void save(cereal::BinaryOutputArchive & archive, std::vector<alph_t> const & vec)
{
archive(static_cast<uint64_t>(vec.size()));
archive(cereal::binary_data(vec.data(), vec.size() * sizeof(alph_t)));
}

template <seqan3::alphabet alph_t>
requires std::is_trivially_copyable_v<alph_t>
void load(cereal::BinaryInputArchive & archive, std::vector<alph_t> & vec)
{
uint64_t s = 0;
archive(s);

vec.resize(s);
archive(cereal::binary_data(vec.data(), s * sizeof(alph_t)));
}

} // namespace cereal

// ==========================================================================
// The index
// ==========================================================================
Expand Down