1 files changed, 40 insertions, 20 deletions
diff --git a/biology/seqan3/pkg-plist b/biology/seqan3/pkg-plist
index dc4dab769c9a..19d86e63d82e 100644
--- a/biology/seqan3/pkg-plist
+++ b/biology/seqan3/pkg-plist
@@ -2,6 +2,9 @@ include/seqan3/alignment/aligned_sequence/aligned_sequence_concept.hpp
 include/seqan3/alignment/aligned_sequence/all.hpp
 include/seqan3/alignment/aligned_sequence/debug_stream_alignment.hpp
 include/seqan3/alignment/all.hpp
+include/seqan3/alignment/cigar_conversion/alignment_from_cigar.hpp
+include/seqan3/alignment/cigar_conversion/all.hpp
+include/seqan3/alignment/cigar_conversion/cigar_from_alignment.hpp
 include/seqan3/alignment/configuration/align_config_band.hpp
 include/seqan3/alignment/configuration/align_config_debug.hpp
 include/seqan3/alignment/configuration/align_config_edit.hpp
@@ -119,6 +122,7 @@ include/seqan3/alphabet/container/all.hpp
 include/seqan3/alphabet/container/bitpacked_sequence.hpp
 include/seqan3/alphabet/container/concatenated_sequences.hpp
 include/seqan3/alphabet/detail/alphabet_proxy.hpp
+include/seqan3/alphabet/detail/concept.hpp
 include/seqan3/alphabet/detail/convert.hpp
 include/seqan3/alphabet/detail/debug_stream_alphabet.hpp
 include/seqan3/alphabet/exception.hpp
@@ -160,6 +164,7 @@ include/seqan3/alphabet/structure/structured_aa.hpp
 include/seqan3/alphabet/structure/structured_rna.hpp
 include/seqan3/alphabet/structure/wuss.hpp
 include/seqan3/alphabet/views/all.hpp
+include/seqan3/alphabet/views/char_strictly_to.hpp
 include/seqan3/alphabet/views/char_to.hpp
 include/seqan3/alphabet/views/complement.hpp
 include/seqan3/alphabet/views/rank_to.hpp
@@ -168,9 +173,11 @@ include/seqan3/alphabet/views/to_rank.hpp
 include/seqan3/alphabet/views/translate.hpp
 include/seqan3/alphabet/views/translate_join.hpp
 include/seqan3/alphabet/views/trim_quality.hpp
+include/seqan3/alphabet/views/validate_char_for.hpp
 include/seqan3/argument_parser/all.hpp
 include/seqan3/argument_parser/argument_parser.hpp
 include/seqan3/argument_parser/auxiliary.hpp
+include/seqan3/argument_parser/detail/concept.hpp
 include/seqan3/argument_parser/detail/format_base.hpp
 include/seqan3/argument_parser/detail/format_help.hpp
 include/seqan3/argument_parser/detail/format_html.hpp
@@ -180,14 +187,29 @@ include/seqan3/argument_parser/detail/terminal.hpp
 include/seqan3/argument_parser/detail/version_check.hpp
 include/seqan3/argument_parser/exceptions.hpp
 include/seqan3/argument_parser/validators.hpp
-include/seqan3/contrib/charconv/LICENSE.TXT
-include/seqan3/contrib/charconv/charconv
-include/seqan3/contrib/charconv/charconv.cpp
-include/seqan3/contrib/charconv/charconv_pre.hpp
+include/seqan3/contrib/README.md
 include/seqan3/contrib/parallel/buffer_queue.hpp
 include/seqan3/contrib/parallel/serialised_resource_pool.hpp
 include/seqan3/contrib/parallel/suspendable_queue.hpp
-include/seqan3/contrib/span/span
+include/seqan3/contrib/std/.clang-format
+include/seqan3/contrib/std/.gitignore
+include/seqan3/contrib/std/LICENSE
+include/seqan3/contrib/std/README.md
+include/seqan3/contrib/std/all_view.hpp
+include/seqan3/contrib/std/chunk_view.hpp
+include/seqan3/contrib/std/concepts.hpp
+include/seqan3/contrib/std/detail/adaptor_base.hpp
+include/seqan3/contrib/std/detail/adaptor_for_view_without_args.hpp
+include/seqan3/contrib/std/detail/adaptor_from_functor.hpp
+include/seqan3/contrib/std/detail/compiler_definitions.hpp
+include/seqan3/contrib/std/detail/exposition_only.hpp
+include/seqan3/contrib/std/detail/non_propagating_cache.hpp
+include/seqan3/contrib/std/join_with_view.hpp
+include/seqan3/contrib/std/pair.hpp
+include/seqan3/contrib/std/to.hpp
+include/seqan3/contrib/std/tuple.hpp
+include/seqan3/contrib/std/zip_view.hpp
+include/seqan3/contrib/stream/bgzf.hpp
 include/seqan3/contrib/stream/bgzf_istream.hpp
 include/seqan3/contrib/stream/bgzf_ostream.hpp
 include/seqan3/contrib/stream/bgzf_stream_util.hpp
@@ -223,12 +245,13 @@ include/seqan3/core/debug_stream/range.hpp
 include/seqan3/core/debug_stream/tuple.hpp
 include/seqan3/core/debug_stream/variant.hpp
 include/seqan3/core/detail/all.hpp
+include/seqan3/core/detail/all_view.hpp
+include/seqan3/core/detail/copyable_wrapper.hpp
 include/seqan3/core/detail/customisation_point.hpp
 include/seqan3/core/detail/deferred_crtp_base.hpp
 include/seqan3/core/detail/empty_type.hpp
 include/seqan3/core/detail/is_class_template_declarable.hpp
 include/seqan3/core/detail/iterator_traits.hpp
-include/seqan3/core/detail/persist_view.hpp
 include/seqan3/core/detail/strong_type.hpp
 include/seqan3/core/detail/template_inspection.hpp
 include/seqan3/core/detail/test_accessor.hpp
@@ -242,7 +265,6 @@ include/seqan3/core/range/detail/inherited_iterator_base.hpp
 include/seqan3/core/range/detail/misc.hpp
 include/seqan3/core/range/detail/random_access_iterator.hpp
 include/seqan3/core/range/type_traits.hpp
-include/seqan3/core/semiregular_box.hpp
 include/seqan3/io/all.hpp
 include/seqan3/io/detail/ignore_output_iterator.hpp
 include/seqan3/io/detail/in_file_iterator.hpp
@@ -340,17 +362,8 @@ include/seqan3/search/views/all.hpp
 include/seqan3/search/views/kmer_hash.hpp
 include/seqan3/search/views/minimiser.hpp
 include/seqan3/search/views/minimiser_hash.hpp
-include/seqan3/std/algorithm
-include/seqan3/std/bit
 include/seqan3/std/charconv
-include/seqan3/std/concepts
-include/seqan3/std/filesystem
-include/seqan3/std/iterator
-include/seqan3/std/memory
 include/seqan3/std/new
-include/seqan3/std/ranges
-include/seqan3/std/span
-include/seqan3/std/type_traits
 include/seqan3/submodules/sdsl-lite/include/sdsl/.gitignore
 include/seqan3/submodules/sdsl-lite/include/sdsl/bit_vector_il.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/bit_vectors.hpp
@@ -420,6 +433,9 @@ include/seqan3/submodules/sdsl-lite/include/sdsl/qsufsort.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/ram_filebuf.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/ram_fs.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/rank_support.hpp
+include/seqan3/submodules/sdsl-lite/include/sdsl/rank_support_int.hpp
+include/seqan3/submodules/sdsl-lite/include/sdsl/rank_support_int_scan.hpp
+include/seqan3/submodules/sdsl-lite/include/sdsl/rank_support_int_v.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/rank_support_scan.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/rank_support_v.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/rank_support_v5.hpp
@@ -440,7 +456,6 @@ include/seqan3/submodules/sdsl-lite/include/sdsl/sorted_int_stack.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/sorted_multi_stack_support.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/sorted_stack_support.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/structure_tree.hpp
-include/seqan3/submodules/sdsl-lite/include/sdsl/structure_tree.hpp.cmake
 include/seqan3/submodules/sdsl-lite/include/sdsl/suffix_array_algorithm.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/suffix_array_helper.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/suffix_arrays.hpp
@@ -459,6 +474,7 @@ include/seqan3/submodules/sdsl-lite/include/sdsl/wm_int.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/wt_algorithm.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/wt_ap.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/wt_blcd.hpp
+include/seqan3/submodules/sdsl-lite/include/sdsl/wt_epr.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/wt_gmr.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/wt_helper.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/wt_huff.hpp
@@ -467,13 +483,14 @@ include/seqan3/submodules/sdsl-lite/include/sdsl/wt_int.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/wt_pc.hpp
 include/seqan3/submodules/sdsl-lite/include/sdsl/wt_rlmn.hpp
 include/seqan3/utility/all.hpp
+include/seqan3/utility/bloom_filter/all.hpp
+include/seqan3/utility/bloom_filter/bloom_filter.hpp
 include/seqan3/utility/char_operations/all.hpp
 include/seqan3/utility/char_operations/predicate.hpp
 include/seqan3/utility/char_operations/predicate_detail.hpp
 include/seqan3/utility/char_operations/pretty_print.hpp
 include/seqan3/utility/char_operations/transform.hpp
-include/seqan3/utility/concept/all.hpp
-include/seqan3/utility/concept/exposition_only/core_language.hpp
+include/seqan3/utility/concept.hpp
 include/seqan3/utility/container/aligned_allocator.hpp
 include/seqan3/utility/container/all.hpp
 include/seqan3/utility/container/concept.hpp
@@ -493,6 +510,7 @@ include/seqan3/utility/parallel/detail/reader_writer_manager.hpp
 include/seqan3/utility/parallel/detail/spin_delay.hpp
 include/seqan3/utility/range/all.hpp
 include/seqan3/utility/range/concept.hpp
+include/seqan3/utility/range/to.hpp
 include/seqan3/utility/simd/algorithm.hpp
 include/seqan3/utility/simd/all.hpp
 include/seqan3/utility/simd/concept.hpp
@@ -510,6 +528,7 @@ include/seqan3/utility/simd/views/all.hpp
 include/seqan3/utility/simd/views/iota_simd.hpp
 include/seqan3/utility/simd/views/to_simd.hpp
 include/seqan3/utility/tuple/all.hpp
+include/seqan3/utility/tuple/common_pair.hpp
 include/seqan3/utility/tuple/common_tuple.hpp
 include/seqan3/utility/tuple/concept.hpp
 include/seqan3/utility/tuple/pod_tuple.hpp
@@ -532,6 +551,8 @@ include/seqan3/utility/views/all.hpp
 include/seqan3/utility/views/chunk.hpp
 include/seqan3/utility/views/convert.hpp
 include/seqan3/utility/views/deep.hpp
+include/seqan3/utility/views/detail/helper.hpp
+include/seqan3/utility/views/detail/non_propagating_cache.hpp
 include/seqan3/utility/views/elements.hpp
 include/seqan3/utility/views/enforce_random_access.hpp
 include/seqan3/utility/views/interleave.hpp
@@ -541,7 +562,6 @@ include/seqan3/utility/views/repeat.hpp
 include/seqan3/utility/views/repeat_n.hpp
 include/seqan3/utility/views/single_pass_input.hpp
 include/seqan3/utility/views/slice.hpp
-include/seqan3/utility/views/to.hpp
 include/seqan3/utility/views/type_reduce.hpp
 include/seqan3/utility/views/zip.hpp
 include/seqan3/version.hpp