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Code Issues Releases Activity

biology/seqan3: update 3.2.0 → 3.3.0

Browse Source 
PR:		273670
Reported by:	 Lorenzo Salvadore <salvadore@freebsd.org>
This commit is contained in:
Yuri Victorovich 2023-09-10 11:07:23 -07:00
parent ef2fc74224
commit aa82e618e4
3 changed files with 35 additions and 23 deletions
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6
biology/seqan3/Makefile
View File

@ -1,6 +1,5 @@
PORTNAME= seqan3
DISTVERSION= 3.2.0
PORTREVISION= 2
DISTVERSION= 3.3.0
CATEGORIES= biology devel math
MAINTAINER= yuri@FreeBSD.org
@ -20,9 +19,10 @@ USES= cmake localbase
USE_GITHUB= yes
GH_ACCOUNT= seqan
GH_TUPLE= xxsds:sdsl-lite:cf9ff4a:sdsl_lite/submodules/sdsl-lite
GH_TUPLE= xxsds:sdsl-lite:d54d389:sdsl_lite/submodules/sdsl-lite
USE_GCC= yes # tests only pass with gcc, see https://github.com/seqan/seqan3/issues/2643, otherwise gcc isn't needed because this is a header-only library
# tests fail to compile, see https://github.com/seqan/seqan3/issues/3191
TEST_WRKSRC= ${WRKSRC}/.test

10
biology/seqan3/distinfo
View File

@ -1,5 +1,5 @@
TIMESTAMP = 1656041922
SHA256 (seqan-seqan3-3.2.0_GH0.tar.gz) = 80d41dd035407cfec83eb3a4466d0421adc27129af684290c0c4da31421e7276
SIZE (seqan-seqan3-3.2.0_GH0.tar.gz) = 1522246
SHA256 (xxsds-sdsl-lite-cf9ff4a_GH0.tar.gz) = 9e328d00c3bdead09cfa35e75e20ace0e668d6dac0436ce9256f2156088f22e8
SIZE (xxsds-sdsl-lite-cf9ff4a_GH0.tar.gz) = 1166065
TIMESTAMP = 1694368553
SHA256 (seqan-seqan3-3.3.0_GH0.tar.gz) = 96975406445c8a5974803eefa146ee2f85206f6d2c2bccf45171ee0b1a653fb8
SIZE (seqan-seqan3-3.3.0_GH0.tar.gz) = 1564852
SHA256 (xxsds-sdsl-lite-d54d389_GH0.tar.gz) = eaac28144b34a833afb8c03139abbe427d4b95a827bf5b9b6532353f9cff9ec1
SIZE (xxsds-sdsl-lite-d54d389_GH0.tar.gz) = 1183835

42
biology/seqan3/pkg-plist
View File

@ -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
@ -184,9 +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/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/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
@ -229,7 +252,6 @@ 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
@ -243,7 +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
@ -341,17 +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
@ -421,6 +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
@ -441,7 +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
@ -460,6 +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
@ -476,8 +491,6 @@ 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.hpp
include/seqan3/utility/concept/all.hpp
include/seqan3/utility/concept/exposition_only/core_language.hpp
include/seqan3/utility/container/aligned_allocator.hpp
include/seqan3/utility/container/all.hpp
include/seqan3/utility/container/concept.hpp
@ -549,7 +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