[INFRA] Drop gcc9 #2952

eseiler · 2022-03-25T14:12:54Z

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vercel · 2022-03-25T14:12:58Z

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codecov · 2022-03-25T14:40:22Z

Codecov Report

Merging #2952 (3049495) into master (576322c) will not change coverage.
The diff coverage is 100.00%.

❗ Current head 3049495 differs from pull request most recent head d081e66. Consider uploading reports for the commit d081e66 to get more accurate results

@@           Coverage Diff           @@
##           master    #2952   +/-   ##
=======================================
  Coverage   98.22%   98.22%           
=======================================
  Files         267      267           
  Lines       11494    11494           
=======================================
  Hits        11290    11290           
  Misses        204      204

Impacted Files	Coverage Δ
...ment/aligned_sequence/aligned_sequence_concept.hpp	`100.00% <ø> (ø)`
...ment/configuration/align_config_scoring_scheme.hpp	`100.00% <ø> (ø)`
...clude/seqan3/alignment/decorator/gap_decorator.hpp	`100.00% <ø> (ø)`
...matrix/detail/advanceable_alignment_coordinate.hpp	`100.00% <ø> (ø)`
...qan3/alignment/matrix/detail/affine_cell_proxy.hpp	`100.00% <ø> (ø)`
...ignment/matrix/detail/aligned_sequence_builder.hpp	`100.00% <ø> (ø)`
...etail/alignment_matrix_column_major_range_base.hpp	`100.00% <ø> (ø)`
...qan3/alignment/matrix/detail/alignment_optimum.hpp	`100.00% <ø> (ø)`
...atrix/detail/alignment_score_matrix_one_column.hpp	`100.00% <ø> (ø)`
...etail/alignment_score_matrix_one_column_banded.hpp	`97.43% <ø> (ø)`
... and 101 more

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SGSSGene

A lot of changes. My only real remark is my last annotation. Something about a shim-implementation for floating types. I didn't get that part :/

The rest looks good.

I also added a few remarks here and there, that arn't really part of the PR, but I would also never look at it again and wasn't sure if it is correct.

SGSSGene · 2022-03-30T13:53:00Z

include/seqan3/io/sequence_file/output.hpp

        f = range;
-    #endif
        return std::move(f);


Why is return f not enough?

🤷
It is definitely needed, because I tried to remove it :D
Copy elision doesn't take effect here.
I think this is some code where we have overloads for each const & && combo?

SGSSGene · 2022-03-30T13:55:12Z

include/seqan3/alignment/aligned_sequence/aligned_sequence_concept.hpp

+        {insert_gap(v, std::ranges::begin(v), 2)} -> std::same_as<std::ranges::iterator_t<t>>;
+        {erase_gap(v, std::ranges::begin(v))} -> std::same_as<std::ranges::iterator_t<t>>;
+        {erase_gap(v, std::ranges::begin(v), std::ranges::end(v))} -> std::same_as<std::ranges::iterator_t<t>>;
+        {assign_unaligned(v, unaligned)} -> std::same_as<void>;


This looks so much nicer now!

SGSSGene · 2022-03-30T13:57:28Z

include/seqan3/core/range/detail/inherited_iterator_base.hpp

@@ -230,7 +230,7 @@ class inherited_iterator_base : public std::conditional_t<std::is_pointer_v<base
    constexpr derived_t operator++(int) noexcept(noexcept(std::declval<base_t &>()++) &&
                                                 noexcept(derived_t(std::declval<base_t &>())))
    //!\cond
-        requires requires (base_t_ i) { i++; SEQAN3_RETURN_TYPE_CONSTRAINT(i++, std::same_as, base_t_); } &&
+        requires requires (base_t_ i) { i++; {i++} -> std::same_as<base_t_>; } &&


can't we leave the first i++ away?
requires requires (base_t_ i) { {i++} -> std::same_as<base_t_>; } &&

Maybe, but I wouldn't change the concept in this PR.
Theoretically, it first checks whether i++ is valid, and then whether it returns the correct type. The first i++ is probably not needed.

SGSSGene · 2022-03-30T14:03:43Z

include/seqan3/utility/container/concept.hpp

-    SEQAN3_RETURN_TYPE_CONSTRAINT(std::swap(val, val2), std::same_as, void);
+    {val.swap(val2)} -> std::same_as<void>;
+    {swap(val, val2)} -> std::same_as<void>;
+    {std::swap(val, val2)} -> std::same_as<void>;


I can't find where it says that std::swap has to be possible by the standard.

It's not really an STL concept anyway.
https://en.cppreference.com/w/cpp/algorithm/swap#Specializations

I hope these concepts are in detail? They are not really usable as one usually only needs a container to be e.g. "push-backable" but not everything else. I think this was already decided but never done

SGSSGene · 2022-03-30T14:06:44Z

README.md

@@ -66,7 +66,7 @@ Please see the [online documentation](https://docs.seqan.de/seqan/3-master-user/

 |                   | requirement                                          | version  | comment                                     |
 |-------------------|------------------------------------------------------|----------|---------------------------------------------|
-|**compiler**       | [GCC](https://gcc.gnu.org)                           | ≥ 7      | no other compiler is currently supported!   |
+|**compiler**       | [GCC](https://gcc.gnu.org)                           | ≥ 10     | no other compiler is currently supported!   |


SGSSGene · 2022-03-30T14:16:52Z

include/seqan3/std/charconv

-#include <utility> // __cpp_lib_to_chars may be defined here as currently documented
+#include <charconv>
+#include <utility> // __cpp_lib_to_chars may be defined here as currently documented.
+#include <version> // From C++20 onwards, all feature macros should be defined here.


I think the comment after the include is not required anymore.

SGSSGene · 2022-03-30T14:18:20Z

include/seqan3/std/charconv


 // =========================================================================
-// If any std implementation is present use that as basis (>= gcc8)
+// If float implementation is missing, add our own shim-implementation


I think this should still be any std?

int is provided for gcc >= 10, float for >= 11, I think.
I removed the int shim, so we only ever add float

SGSSGene

Lets go and drop gcc9!!!!

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smehringer mentioned this pull request Mar 28, 2022

[FEATURE] Add sharg-parser submodule and replace the seqan3::argument_parser. #2954

Closed

10 tasks

eseiler force-pushed the infra/drop_gcc9 branch from ea6c513 to 32a56b7 Compare March 28, 2022 15:45

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eseiler force-pushed the infra/drop_gcc9 branch from 32a56b7 to 6085d78 Compare March 28, 2022 15:48

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eseiler force-pushed the infra/drop_gcc9 branch from 6085d78 to ef82f7b Compare March 28, 2022 18:30

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eseiler added 6 commits March 29, 2022 11:53

[INFRA] Drop gcc9 from CI

9076e34

[MISC] Drop gcc9 workaround in sequence_file_output

9e6a48b

[MISC] Remove SEQAN3_WORKAROUND_ISSUE_286

6b1042c

[MISC] Remove SEQAN3_WORKAROUND_GCC_89953

030a1f2

[MISC] Drop gcc9 workaround in std/memory

7e63848

[MISC] Remove SEQAN3_RETURN_TYPE_CONSTRAINT

c57dba8

eseiler added 15 commits March 29, 2022 11:53

[DOC] Adapt documentation

64b90c9

[MISC] deprecate std/algorithm

bd80301

[MISC] deprecate std/concepts

ef20871

[MISC] deprecate std/iterator

7cb9e0a

[MISC] deprecate std/memory

f2734fa

[MISC] update std/ranges

322fb93

[MISC] deprecate std/type_traits

56405b1

[MISC] deprecate std/algorithm

17b6475

[MISC] deprecate std/concepts

c5ccb4b

[MISC] deprecate std/iterator

83db3ec

[MISC] deprecate std/memory

2bbdd92

[MISC] deprecate std/type_traits

cf0ddb8

[MISC] deprecate std/span

93a478f

[MISC] update std/charconv

eb9290b

[MISC] deprecate std/bit

f7f55cf

eseiler force-pushed the infra/drop_gcc9 branch from ef82f7b to 3049495 Compare March 29, 2022 09:53

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[MISC] update core_language

d081e66

eseiler force-pushed the infra/drop_gcc9 branch from 3049495 to d081e66 Compare March 30, 2022 10:40

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eseiler marked this pull request as ready for review March 30, 2022 10:41

SGSSGene requested changes Mar 30, 2022

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eseiler requested a review from SGSSGene March 30, 2022 14:50

SGSSGene approved these changes Mar 30, 2022

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eseiler requested a review from smehringer March 31, 2022 07:56

smehringer approved these changes Mar 31, 2022

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smehringer merged commit dc1ef8c into seqan:master Mar 31, 2022

eseiler deleted the infra/drop_gcc9 branch March 31, 2022 14:28

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[INFRA] Drop gcc9 #2952

[INFRA] Drop gcc9 #2952

eseiler commented Mar 25, 2022

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[INFRA] Drop gcc9 #2952

[INFRA] Drop gcc9 #2952

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eseiler commented Mar 25, 2022

vercel bot commented Mar 25, 2022 • edited

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vercel bot commented Mar 25, 2022 •

edited

codecov bot commented Mar 25, 2022 •

edited