0.7.0

Summary: we now support LLVM/clang as a compiler; CIGARs have been much improved and there is a new container.

Added

• 🐉 Full support for Clang-16 as a compiler. This is a big milestone for 1.0.0!
• A new associative container: bio::ranges::dictionary. It has features of std::vector and std::unordered_map at the cost of extra size.
• New implementation for bio::alphabet::cigar. This is now 32bits in size (instead of 64bit) and ABI-compatible to BAM/htslib.
• bio::views::to_char, bio::views::char_to<> and bio::views::char_strictly_to<> now work for bio::alphabet::cigar (even though CIGARs are not full alphabets).

Fixed

• bio::views::to_char, bio::views::char_to<> and bio::views::char_strictly_to<> are now "no-op" views if no transformation needs to happen (e.g. when input and output alphabet would be char).
• When using find_package(biocpp COMPONENTS core io), the version strings were not set correctly.

Maintained

• bio::ranges::small_string now satisfies the std::ranges::view-concept for capacities <= 30.
• bio::views::interleave has been redefined in terms of bio::views::transform_by_pos (much less code); should also be a bit faster now.
• Clang-tidy is automatically run as part of the CI.
• Concepts are now properly supported and integrated into the documentation; doxygen-1.9.6 is recommended.

Renamed

• bio::alphabet::nucleotide_alphabet → bio::alphabet::nucleotide (same for aminoacid_alphabet, quality_alphabet and writable_quality_alphabet).

Removed

• bio::views::as_const has been removed, use C++23's std::views::as_const instead.
• bio::views::move has been removed, use C++23's std::views::as_rvalue instead.

API

• This release is not yet API-stable.
• This release is mostly backwards compatible with 0.6.0 (see changes above).