seqan · eseiler · Jun 8, 2022 · May 31, 2022 · May 31, 2022 · May 31, 2022
diff --git a/.gitmodules b/.gitmodules
@@ -1,9 +1,6 @@
 [submodule "sdsl-lite"]
 	path = submodules/sdsl-lite
 	url = https://github.com/xxsds/sdsl-lite
-[submodule "range-v3"]
-	path = submodules/range-v3
-	url = https://github.com/seqan/range-v3
 [submodule "cereal"]
 	path = submodules/cereal
 	url = https://github.com/USCiLab/cereal
diff --git a/README.md b/README.md
@@ -69,7 +69,6 @@ Please see the [online documentation](https://docs.seqan.de/seqan/3-master-user/
 |**compiler**       | [GCC](https://gcc.gnu.org)                           | ≥ 10     | no other compiler is currently supported!   |
 |**build system**   | [CMake](https://cmake.org)                           | ≥ 3.4    | optional, but recommended                   |
 |**required libs**  | [SDSL](https://github.com/xxsds/sdsl-lite)           | ≥ 3      |                                             |
-|                   | [Range-V3](https://github.com/ericniebler/range-v3)  | ≥ 0.11.0 |                                             |
 |**optional libs**  | [cereal](https://github.com/USCiLab/cereal)          | ≥ 1.2.3  | required for serialisation and CTD support  |
 |                   | [zlib](https://github.com/madler/zlib)               | ≥ 1.2    | required for `*.gz` and `.bam` file support |
 |                   | [bzip2](https://www.sourceware.org/bzip2)            | ≥ 1.0    | required for `*.bz2` file support           |
@@ -93,7 +92,6 @@ Quick-Setup without CMake:
 g++-11 -O3 -DNDEBUG -Wall -Wextra                               \
     -std=c++20                                                  \
     -I       /path/to/seqan3/include                            \
-    -isystem /path/to/seqan3/submodules/range-v3/include        \
     -isystem /path/to/seqan3/submodules/sdsl-lite/include       \
     -isystem /path/to/seqan3/submodules/cereal/include          \
     -DSEQAN3_HAS_ZLIB=1 -DSEQAN3_HAS_BZIP2=1                    \

diff --git a/build_system/seqan3-config.cmake b/build_system/seqan3-config.cmake
@@ -23,7 +23,6 @@
 # SeqAn requires the following libraries:
 #
 #   SDSL      -- the succinct data structure library
-#   Range-V3  -- Ranges Library by Eric Niebler
 #
 # SeqAn has the following optional dependencies:
 #
@@ -309,18 +308,9 @@ else ()
 endif ()
 
 # ----------------------------------------------------------------------------
-# Require Ranges and SDSL
+# Require SDSL
 # ----------------------------------------------------------------------------
 
-check_include_file_cxx (range/v3/version.hpp _SEQAN3_HAVE_RANGEV3)
-
-if (_SEQAN3_HAVE_RANGEV3)
-    seqan3_config_print ("Required dependency:        Range-V3 found.")
-else ()
-    seqan3_config_error (
-        "The range-v3 library is required, but wasn't found. Get it from https://github.com/ericniebler/range-v3/")
-endif ()
-
 check_include_file_cxx (sdsl/version.hpp _SEQAN3_HAVE_SDSL)
 
 if (_SEQAN3_HAVE_SDSL)

diff --git a/doc/howto/write_a_view/solution_iterator.cpp b/doc/howto/write_a_view/solution_iterator.cpp
@@ -1,6 +1,6 @@
 //![start]
 #include <iostream>
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <vector>
 
 #include <seqan3/alphabet/nucleotide/all.hpp>

diff --git a/doc/howto/write_a_view/solution_view.cpp b/doc/howto/write_a_view/solution_view.cpp
@@ -1,6 +1,6 @@
 //![iterator]
 #include <iostream>
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <vector>
 
 #include <seqan3/alphabet/nucleotide/all.hpp>

diff --git a/doc/howto/write_a_view/view_exercise1.cpp b/doc/howto/write_a_view/view_exercise1.cpp
@@ -1,6 +1,6 @@
 //![start]
 #include <iostream>
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/alphabet/nucleotide/all.hpp>
 

diff --git a/doc/howto/write_a_view/view_exercise2.cpp b/doc/howto/write_a_view/view_exercise2.cpp
@@ -1,5 +1,5 @@
 //![start]
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/alphabet/nucleotide/all.hpp>
 #include <seqan3/core/debug_stream.hpp>

diff --git a/doc/tutorial/05_ranges/range_snippets.cpp b/doc/tutorial/05_ranges/range_snippets.cpp
@@ -1,5 +1,5 @@
 #include <iostream>
-#include <seqan3/std/ranges> // include all of the standard library's views
+#include <ranges> // include all of the standard library's views
 #include <vector>
 
 int main()

diff --git a/doc/tutorial/05_ranges/range_solution1.cpp b/doc/tutorial/05_ranges/range_solution1.cpp
@@ -1,5 +1,5 @@
 #include <iostream>
-#include <seqan3/std/ranges> // include all of the standard library's views
+#include <ranges> // include all of the standard library's views
 #include <vector>
 
 int main()

diff --git a/doc/tutorial/05_ranges/range_solution3.cpp b/doc/tutorial/05_ranges/range_solution3.cpp
@@ -1,4 +1,4 @@
-#include <seqan3/std/ranges> // include all of the standard library's views
+#include <ranges> // include all of the standard library's views
 
 #include <seqan3/alphabet/views/all.hpp>  // include all of SeqAn's views
 #include <seqan3/argument_parser/all.hpp> // optional: include the argument_parser

diff --git a/doc/tutorial/06_minimisers/minimisers_snippets.cpp b/doc/tutorial/06_minimisers/minimisers_snippets.cpp
@@ -1,5 +1,5 @@
 #include <iostream>
-#include <seqan3/std/ranges> // include all of the standard library's views
+#include <ranges> // include all of the standard library's views
 #include <vector>
 
 #include <seqan3/alphabet/nucleotide/dna4.hpp>

diff --git a/doc/tutorial/07_sequence_file/sequence_file_piping_in_out.cpp b/doc/tutorial/07_sequence_file/sequence_file_piping_in_out.cpp
@@ -20,7 +20,7 @@ seqan3::test::create_temporary_snippet_file output_fastq{"output.fastq", ""};
 
 //![main]
 #include <algorithm>
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/io/sequence_file/all.hpp>
 

diff --git a/doc/tutorial/07_sequence_file/sequence_file_quality_filter.cpp b/doc/tutorial/07_sequence_file/sequence_file_quality_filter.cpp
@@ -17,7 +17,7 @@ IIIIHHGIIIIHHGIIIH
 
 //![main]
 #include <numeric> // std::accumulate
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/core/debug_stream.hpp>
 #include <seqan3/io/sequence_file/all.hpp>

diff --git a/doc/tutorial/07_sequence_file/sequence_file_solution2.cpp b/doc/tutorial/07_sequence_file/sequence_file_solution2.cpp
@@ -9,7 +9,7 @@ CGATCGA
 
 //![solution]
 #include <filesystem>
-#include <seqan3/std/ranges> // std::ranges::copy
+#include <ranges> // std::ranges::copy
 
 #include <seqan3/core/debug_stream.hpp>
 #include <seqan3/io/sequence_file/all.hpp>

diff --git a/doc/tutorial/07_sequence_file/sequence_file_solution3.cpp b/doc/tutorial/07_sequence_file/sequence_file_solution3.cpp
@@ -26,7 +26,7 @@ IIIIIHIIJJIIIII
 //![solution]
 #include <filesystem>
 //![include_ranges]
-#include <seqan3/std/ranges>
+#include <ranges>
 //![include_ranges]
 
 #include <seqan3/core/debug_stream.hpp>

diff --git a/doc/tutorial/07_sequence_file/sequence_file_solution4.cpp b/doc/tutorial/07_sequence_file/sequence_file_solution4.cpp
@@ -28,7 +28,7 @@ seqan3::test::create_temporary_snippet_file output{"output.fastq", ""};
 
 //![solution]
 #include <filesystem>
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/io/sequence_file/all.hpp>
 

diff --git a/doc/tutorial/07_sequence_file/sequence_file_solution5.cpp b/doc/tutorial/07_sequence_file/sequence_file_solution5.cpp
@@ -29,7 +29,7 @@ seqan3::test::create_temporary_snippet_file output{"output.fastq", ""};
 //![solution]
 #include <algorithm>
 #include <filesystem>
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/io/sequence_file/all.hpp>
 

diff --git a/doc/tutorial/08_pairwise_alignment/pairwise_alignment_solution_6.cpp b/doc/tutorial/08_pairwise_alignment/pairwise_alignment_solution_6.cpp
@@ -1,4 +1,4 @@
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <utility>
 #include <vector>
 

diff --git a/doc/tutorial/10_sam_file/sam_file_solution1.cpp b/doc/tutorial/10_sam_file/sam_file_solution1.cpp
@@ -12,7 +12,7 @@ r001	147	ref	37	30	9M	=	7	-39	CAGCGGCAT	*	NM:i:1
 
 //![solution]
 #include <filesystem>
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/core/debug_stream.hpp>
 #include <seqan3/io/sam_file/all.hpp>

diff --git a/doc/tutorial/10_sam_file/sam_file_solution2.cpp b/doc/tutorial/10_sam_file/sam_file_solution2.cpp
@@ -21,7 +21,7 @@ r003	2064	chr2	18	10	5M	*	0	0	TAGGC	*
 //![solution]
 #include <algorithm> // std::ranges::count
 #include <filesystem>
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <string>
 #include <vector>
 

diff --git a/include/seqan3/alignment/aligned_sequence/aligned_sequence_concept.hpp b/include/seqan3/alignment/aligned_sequence/aligned_sequence_concept.hpp
@@ -14,7 +14,7 @@
 #pragma once
 
 #include <algorithm>
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/alignment/exception.hpp>
 #include <seqan3/alphabet/gap/gapped.hpp>

diff --git a/include/seqan3/alignment/decorator/gap_decorator.hpp b/include/seqan3/alignment/decorator/gap_decorator.hpp
@@ -15,7 +15,7 @@
 
 #include <algorithm>
 #include <limits>
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <set>
 #include <tuple>
 #include <type_traits>

diff --git a/include/seqan3/alignment/matrix/detail/aligned_sequence_builder.hpp b/include/seqan3/alignment/matrix/detail/aligned_sequence_builder.hpp
@@ -13,7 +13,7 @@
 #pragma once
 
 #include <concepts>
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <type_traits>
 #include <vector>
 

diff --git a/include/seqan3/alignment/matrix/detail/alignment_matrix_column_major_range_base.hpp b/include/seqan3/alignment/matrix/detail/alignment_matrix_column_major_range_base.hpp
@@ -14,7 +14,7 @@
 
 #include <cassert>
 #include <iterator>
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <span>
 
 #include <seqan3/core/range/type_traits.hpp>

diff --git a/include/seqan3/alignment/matrix/detail/alignment_score_matrix_one_column.hpp b/include/seqan3/alignment/matrix/detail/alignment_score_matrix_one_column.hpp
@@ -13,7 +13,7 @@
 #pragma once
 
 #include <iterator>
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <span>
 
 #include <seqan3/alignment/matrix/detail/alignment_matrix_column_major_range_base.hpp>

diff --git a/include/seqan3/alignment/matrix/detail/alignment_score_matrix_one_column_banded.hpp b/include/seqan3/alignment/matrix/detail/alignment_score_matrix_one_column_banded.hpp
@@ -14,7 +14,7 @@
 
 #include <cassert>
 #include <iterator>
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <span>
 
 #include <seqan3/alignment/configuration/align_config_band.hpp>

diff --git a/include/seqan3/alignment/matrix/detail/alignment_trace_matrix_full.hpp b/include/seqan3/alignment/matrix/detail/alignment_trace_matrix_full.hpp
@@ -13,7 +13,7 @@
 #pragma once
 
 #include <iterator>
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/alignment/matrix/detail/alignment_matrix_column_major_range_base.hpp>
 #include <seqan3/alignment/matrix/detail/alignment_trace_matrix_base.hpp>

diff --git a/include/seqan3/alignment/matrix/detail/alignment_trace_matrix_full_banded.hpp b/include/seqan3/alignment/matrix/detail/alignment_trace_matrix_full_banded.hpp
@@ -13,7 +13,7 @@
 #pragma once
 
 #include <iterator>
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/alignment/configuration/align_config_band.hpp>
 #include <seqan3/alignment/matrix/detail/alignment_matrix_column_major_range_base.hpp>

diff --git a/include/seqan3/alignment/matrix/detail/combined_score_and_trace_matrix.hpp b/include/seqan3/alignment/matrix/detail/combined_score_and_trace_matrix.hpp
@@ -12,7 +12,7 @@
 
 #pragma once
 
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/alignment/matrix/detail/affine_cell_proxy.hpp>
 #include <seqan3/alignment/matrix/detail/matrix_coordinate.hpp>

diff --git a/include/seqan3/alignment/matrix/detail/coordinate_matrix.hpp b/include/seqan3/alignment/matrix/detail/coordinate_matrix.hpp
@@ -13,7 +13,7 @@
 #pragma once
 
 #include <concepts>
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/alignment/matrix/detail/matrix_coordinate.hpp>
 #include <seqan3/core/detail/template_inspection.hpp>

diff --git a/include/seqan3/alignment/matrix/detail/score_matrix_single_column.hpp b/include/seqan3/alignment/matrix/detail/score_matrix_single_column.hpp
@@ -12,7 +12,7 @@
 
 #pragma once
 
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <vector>
 
 #include <seqan3/alignment/matrix/detail/affine_cell_proxy.hpp>

diff --git a/include/seqan3/alignment/matrix/detail/trace_iterator_base.hpp b/include/seqan3/alignment/matrix/detail/trace_iterator_base.hpp
@@ -13,7 +13,7 @@
 #pragma once
 
 #include <concepts>
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/alignment/matrix/detail/trace_directions.hpp>
 #include <seqan3/alignment/matrix/detail/two_dimensional_matrix_iterator_base.hpp>

diff --git a/include/seqan3/alignment/matrix/detail/trace_matrix_full.hpp b/include/seqan3/alignment/matrix/detail/trace_matrix_full.hpp
@@ -12,7 +12,7 @@
 
 #pragma once
 
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <span>
 #include <vector>
 

diff --git a/include/seqan3/alignment/matrix/detail/two_dimensional_matrix.hpp b/include/seqan3/alignment/matrix/detail/two_dimensional_matrix.hpp
@@ -14,7 +14,7 @@
 
 #include <algorithm>
 #include <memory>
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <vector>
 
 #include <seqan3/alignment/matrix/detail/matrix_coordinate.hpp>

diff --git a/include/seqan3/alignment/matrix/detail/two_dimensional_matrix_iterator_base.hpp b/include/seqan3/alignment/matrix/detail/two_dimensional_matrix_iterator_base.hpp
@@ -13,7 +13,7 @@
 #pragma once
 
 #include <concepts>
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <type_traits>
 
 #include <seqan3/alignment/matrix/detail/matrix_coordinate.hpp>

diff --git a/include/seqan3/alignment/pairwise/align_pairwise.hpp b/include/seqan3/alignment/pairwise/align_pairwise.hpp
@@ -15,7 +15,7 @@
 #include <concepts>
 #include <functional>
 #include <iostream>
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <tuple>
 #include <type_traits>
 

diff --git a/include/seqan3/alignment/pairwise/align_result_selector.hpp b/include/seqan3/alignment/pairwise/align_result_selector.hpp
@@ -13,7 +13,7 @@
 #pragma once
 
 #include <optional>
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <type_traits>
 
 #include <seqan3/alignment/configuration/align_config_debug.hpp>

diff --git a/include/seqan3/alignment/pairwise/alignment_algorithm.hpp b/include/seqan3/alignment/pairwise/alignment_algorithm.hpp
@@ -15,7 +15,7 @@
 #include <iterator>
 #include <memory>
 #include <optional>
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <type_traits>
 
 #include <seqan3/alignment/configuration/align_config_band.hpp>

diff --git a/include/seqan3/alignment/pairwise/detail/concept.hpp b/include/seqan3/alignment/pairwise/detail/concept.hpp
@@ -12,7 +12,7 @@
 
 #pragma once
 
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <tuple>
 
 #include <seqan3/alphabet/concept.hpp>

diff --git a/include/seqan3/alignment/pairwise/detail/pairwise_alignment_algorithm.hpp b/include/seqan3/alignment/pairwise/detail/pairwise_alignment_algorithm.hpp
@@ -13,7 +13,7 @@
 #pragma once
 
 #include <concepts>
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/alignment/pairwise/detail/type_traits.hpp>
 #include <seqan3/core/detail/empty_type.hpp>

diff --git a/include/seqan3/alignment/pairwise/detail/pairwise_alignment_algorithm_banded.hpp b/include/seqan3/alignment/pairwise/detail/pairwise_alignment_algorithm_banded.hpp
@@ -13,7 +13,7 @@
 #pragma once
 
 #include <concepts>
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/alignment/pairwise/detail/pairwise_alignment_algorithm.hpp>
 #include <seqan3/utility/views/slice.hpp>

diff --git a/include/seqan3/alignment/pairwise/detail/policy_optimum_tracker_simd.hpp b/include/seqan3/alignment/pairwise/detail/policy_optimum_tracker_simd.hpp
@@ -13,7 +13,7 @@
 #pragma once
 
 #include <limits>
-#include <seqan3/std/ranges>
+#include <ranges>
 
 #include <seqan3/alignment/pairwise/detail/policy_optimum_tracker.hpp>
 #include <seqan3/utility/simd/algorithm.hpp>

diff --git a/include/seqan3/alignment/pairwise/detail/type_traits.hpp b/include/seqan3/alignment/pairwise/detail/type_traits.hpp
@@ -12,7 +12,7 @@
 
 #pragma once
 
-#include <seqan3/std/ranges>
+#include <ranges>
 #include <type_traits>
 
 #include <seqan3/alignment/configuration/align_config_band.hpp>