diff options
Diffstat (limited to 'biology/seqan3/pkg-plist')
| -rw-r--r-- | biology/seqan3/pkg-plist | 132 |
1 files changed, 11 insertions, 121 deletions
diff --git a/biology/seqan3/pkg-plist b/biology/seqan3/pkg-plist index 19d86e63d82e..e727ba232e45 100644 --- a/biology/seqan3/pkg-plist +++ b/biology/seqan3/pkg-plist @@ -91,6 +91,7 @@ include/seqan3/alignment/scoring/all.hpp include/seqan3/alignment/scoring/aminoacid_scoring_scheme.hpp include/seqan3/alignment/scoring/detail/simd_match_mismatch_scoring_scheme.hpp include/seqan3/alignment/scoring/detail/simd_matrix_scoring_scheme.hpp +include/seqan3/alignment/scoring/hamming_scoring_scheme.hpp include/seqan3/alignment/scoring/nucleotide_scoring_scheme.hpp include/seqan3/alignment/scoring/scoring_scheme_base.hpp include/seqan3/alignment/scoring/scoring_scheme_concept.hpp @@ -191,11 +192,16 @@ 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/sdsl-lite.hpp include/seqan3/contrib/std/.clang-format include/seqan3/contrib/std/.gitignore -include/seqan3/contrib/std/LICENSE +include/seqan3/contrib/std/LICENSE.md +include/seqan3/contrib/std/LICENSES/BSD-3-Clause.txt +include/seqan3/contrib/std/LICENSES/CC-BY-4.0.txt +include/seqan3/contrib/std/LICENSES/CC0-1.0.txt include/seqan3/contrib/std/README.md include/seqan3/contrib/std/all_view.hpp +include/seqan3/contrib/std/chunk_by_view.hpp include/seqan3/contrib/std/chunk_view.hpp include/seqan3/contrib/std/concepts.hpp include/seqan3/contrib/std/detail/adaptor_base.hpp @@ -203,7 +209,9 @@ 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/movable_box.hpp include/seqan3/contrib/std/detail/non_propagating_cache.hpp +include/seqan3/contrib/std/enumerate_view.hpp include/seqan3/contrib/std/join_with_view.hpp include/seqan3/contrib/std/pair.hpp include/seqan3/contrib/std/to.hpp @@ -239,14 +247,13 @@ include/seqan3/core/debug_stream.hpp include/seqan3/core/debug_stream/all.hpp include/seqan3/core/debug_stream/byte.hpp include/seqan3/core/debug_stream/debug_stream_type.hpp +include/seqan3/core/debug_stream/default_printer.hpp include/seqan3/core/debug_stream/detail/to_string.hpp include/seqan3/core/debug_stream/optional.hpp 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 @@ -364,127 +371,10 @@ include/seqan3/search/views/minimiser.hpp include/seqan3/search/views/minimiser_hash.hpp include/seqan3/std/charconv include/seqan3/std/new -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 -include/seqan3/submodules/sdsl-lite/include/sdsl/bits.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/bp_support.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/bp_support_algorithm.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/bp_support_g.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/bp_support_gg.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/bp_support_sada.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/cereal.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/coder.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/coder_comma.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/coder_elias_delta.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/coder_elias_gamma.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/coder_fibonacci.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/config.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/construct.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/construct_bwt.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/construct_config.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/construct_isa.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/construct_lcp.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/construct_lcp_helper.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/construct_sa.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/construct_sa_se.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/csa_alphabet_strategy.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/csa_bitcompressed.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/csa_sada.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/csa_sampling_strategy.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/csa_wt.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/cst_fully.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/cst_iterators.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/cst_sada.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/cst_sct3.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/dac_vector.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/divsufsort.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/enc_vector.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/fast_cache.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/hyb_vector.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/int_vector.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/int_vector_buffer.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/int_vector_io_wrappers.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/int_vector_mapper.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/inv_perm_support.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/io.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/iterators.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/k2_treap.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/k2_treap_algorithm.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/k2_treap_helper.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/k2_tree.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/k2_tree_helper.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/lcp.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/lcp_bitcompressed.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/lcp_byte.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/lcp_dac.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/lcp_support_sada.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/lcp_support_tree.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/lcp_support_tree2.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/lcp_vlc.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/lcp_wt.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/louds_tree.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/memory_management.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/memory_tracking.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/nearest_neighbour_dictionary.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/nn_dict_dynamic.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/platform.hpp -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 -include/seqan3/submodules/sdsl-lite/include/sdsl/rmq_succinct_sada.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/rmq_succinct_sct.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/rmq_support.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/rmq_support_sparse_table.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/rrr_helper.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/rrr_vector.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/rrr_vector_15.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/sd_vector.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/sdsl_concepts.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/select_support.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/select_support_mcl.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/select_support_scan.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/sfstream.hpp -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/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 -include/seqan3/submodules/sdsl-lite/include/sdsl/suffix_tree_algorithm.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/suffix_tree_helper.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/suffix_trees.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/uint128_t.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/uint256_t.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/uintx_t.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/util.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/vectors.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/version.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/vlc_vector.hpp -include/seqan3/submodules/sdsl-lite/include/sdsl/wavelet_trees.hpp -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 -include/seqan3/submodules/sdsl-lite/include/sdsl/wt_hutu.hpp -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/bloom_filter/bloom_filter_strong_types.hpp include/seqan3/utility/char_operations/all.hpp include/seqan3/utility/char_operations/predicate.hpp include/seqan3/utility/char_operations/predicate_detail.hpp |