[INFRA] Replace SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY

.clang-format

@@ -272,4 +272,6 @@ WhitespaceSensitiveMacros:
   - NS_SWIFT_NAME
   - PP_STRINGIZE
   - STRINGIZE
+  - SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_START
+  - SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP
 ...

include/seqan3/alignment/aligned_sequence/aligned_sequence_concept.hpp

@@ -374,14 +374,9 @@ inline void assign_unaligned(aligned_seq_t & aligned_seq, unaligned_sequence_typ
     using std::swap;
     aligned_seq_t tmp;
     tmp.resize(std::ranges::distance(unaligned_seq));
-#if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#    pragma GCC diagnostic push
-#    pragma GCC diagnostic ignored "-Wstringop-overflow"
-#endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+    SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_START(-Wstringop-overflow)
     std::ranges::copy(unaligned_seq, std::ranges::begin(tmp));
-#if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#    pragma GCC diagnostic pop
-#endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+    SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP
     swap(aligned_seq, tmp);
 }
 //!\}

include/seqan3/alignment/matrix/detail/score_matrix_single_column.hpp

@@ -113,14 +113,9 @@ class score_matrix_single_column
         this->number_of_columns = number_of_columns.get();
         optimal_column.clear();
         horizontal_column.clear();
-#if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#    pragma GCC diagnostic push
-#    pragma GCC diagnostic ignored "-Wstringop-overflow"
-#endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+        SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_START(-Wstringop-overflow)
         optimal_column.resize(number_of_rows.get(), initial_value);
-#if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#    pragma GCC diagnostic pop
-#endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+        SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP
         horizontal_column.resize(number_of_rows.get(), initial_value);
         vertical_column = views::repeat_n(initial_value, number_of_rows.get());
     }

include/seqan3/alphabet/container/concatenated_sequences.hpp

@@ -556,7 +556,9 @@ class concatenated_sequences
     reference operator[](size_type const i)
     {
         assert(i < size());
+        SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_START(-Warray-bounds, -Wstringop-overflow)
         return data_values | views::slice(data_delimiters[i], data_delimiters[i + 1]);
+        SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP
     }
 
     //!\copydoc operator[]()
@@ -977,17 +979,11 @@ class concatenated_sequences
         auto placeholder =
             views::repeat_n(std::ranges::range_value_t<rng_type>{}, count * value_len) | std::views::common;
         // insert placeholder so the tail is moved once:
-#if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#    pragma GCC diagnostic push
-#    pragma GCC diagnostic ignored "-Wstringop-overread"
-#    pragma GCC diagnostic ignored "-Wstringop-overflow"
-#endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+        SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_START(-Wstringop-overread, -Wstringop-overflow)
         data_values.insert(data_values.begin() + data_delimiters[pos_as_num],
                            std::ranges::begin(placeholder),
                            std::ranges::end(placeholder));
-#if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#    pragma GCC diagnostic pop
-#endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+        SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP
 
         // assign the actual values to the placeholder:
         size_t i = data_delimiters[pos_as_num];

include/seqan3/core/platform.hpp

@@ -227,14 +227,25 @@ static_assert(sdsl::sdsl_version_major == 3, "Only version 3 of the SDSL is supp
 #    endif
 #endif
 
-/*!\brief Workaround bogus memcpy errors in GCC > 12. (Wrestrict and Wstringop-overflow)
+/*!\brief Workaround bogus memcpy errors in GCC > 12.
  * \see https://gcc.gnu.org/bugzilla/show_bug.cgi?id=105545
  */
-#ifndef SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+#ifndef SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP
 #    if SEQAN3_COMPILER_IS_GCC && (__GNUC__ >= 12)
-#        define SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY 1
+#        define SEQAN3_PRAGMA_HELPER(x, y) SEQAN3_PRAGMA(x #y)
+#        define SEQAN3_GCC_DIAGNOSTIC_IGNORE1(x, ...)                                                                  \
+            SEQAN3_PRAGMA(GCC diagnostic push)                                                                         \
+            SEQAN3_PRAGMA_HELPER(GCC diagnostic ignored, x)
+#        define SEQAN3_GCC_DIAGNOSTIC_IGNORE2(x, y)                                                                    \
+            SEQAN3_PRAGMA(GCC diagnostic push)                                                                         \
+            SEQAN3_PRAGMA_HELPER(GCC diagnostic ignored, x)                                                            \
+            SEQAN3_PRAGMA_HELPER(GCC diagnostic ignored, y)
+#        define SEQAN3_GCC_DIAGNOSTIC_IGNORE(x, y, n, ...) SEQAN3_GCC_DIAGNOSTIC_IGNORE##n(x, y)
+#        define SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_START(x, ...) SEQAN3_GCC_DIAGNOSTIC_IGNORE(x, ##__VA_ARGS__, 2, 1)
+#        define SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP SEQAN3_PRAGMA(GCC diagnostic pop)
 #    else
-#        define SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY 0
+#        define SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_START(...)
+#        define SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP
 #    endif
 #endif
 

include/seqan3/utility/container/small_vector.hpp

@@ -735,14 +735,9 @@ class small_vector
         for (size_type i = sz + length - 1; i > pos_as_num + length - 1; --i)
             data_[i] = data_[i - length];
 
-#if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#    pragma GCC diagnostic push
-#    pragma GCC diagnostic ignored "-Wstringop-overflow"
-#endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+        SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_START(-Wstringop-overflow)
         std::ranges::copy(begin_it, end_it, &data_[pos_as_num]);
-#if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#    pragma GCC diagnostic pop
-#endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+        SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP
         sz += length;
         return begin() + pos_as_num;
     }

test/unit/alphabet/container/container_concept_test.cpp

@@ -64,20 +64,15 @@ TEST(container, sequence_container_former_travis_bug)
     s.insert(0, 1, 'E');
     EXPECT_EQ("Exmplr", s);
 
-#if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#    pragma GCC diagnostic push
-#    pragma GCC diagnostic ignored "-Wrestrict"
-#endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+    SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_START(-Wrestrict)
     // insert(size_type index, const char* s)
     s.insert(2, "e");
     EXPECT_EQ("Exemplr", s);
 
     // insert(size_type index, string const& str)
     s.insert(6, "a"s);
     EXPECT_EQ("Exemplar", s);
-#if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#    pragma GCC diagnostic pop
-#endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+    SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP
 
     // insert(size_type index, string const& str, size_type index_str, size_type count)
     s.insert(8, " is an example string."s, 0, 14);
@@ -99,17 +94,12 @@ TEST(container, sequence_container_former_travis_bug)
         EXPECT_EQ("Exemplar is an:== example string", s);
     }
 
-#    if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#        pragma GCC diagnostic push
-#        pragma GCC diagnostic ignored "-Wrestrict"
-#    endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+    SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_START(-Wrestrict)
     // insert(const_iterator pos, std::initializer_list<char>)
     s.insert(s.begin() + s.find_first_of('g') + 1, {'.'});
     EXPECT_EQ("Exemplar is an:== example string.", s);
-#    if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#        pragma GCC diagnostic pop
-#    endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#else      // ^^^ workaround / no workaround vvv
+    SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP
+#else  // ^^^ workaround / no workaround vvv
     // insert(const_iterator pos, char ch)
     s.insert(s.cbegin() + s.find_first_of('n') + 1, ':');
     EXPECT_EQ("Exemplar is an: example", s);
@@ -126,16 +116,11 @@ TEST(container, sequence_container_former_travis_bug)
     }
 
     // insert(const_iterator pos, std::initializer_list<char>)
-#    if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#        pragma GCC diagnostic push
-#        pragma GCC diagnostic ignored "-Wrestrict"
-#    endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+    SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_START(-Wrestrict)
     s.insert(s.cbegin() + s.find_first_of('g') + 1, {'.'});
     EXPECT_EQ("Exemplar is an:== example string.", s);
-#    if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#        pragma GCC diagnostic pop
-#    endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#endif     // SEQAN3_WORKAROUND_GCC_NO_CXX11_ABI
+    SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP
+#endif // SEQAN3_WORKAROUND_GCC_NO_CXX11_ABI
 }
 
 TEST(container, sequence_container)

test/unit/alphabet/container/debug_stream_container_of_container_test.cpp

@@ -25,15 +25,9 @@ TYPED_TEST_SUITE(debug_stream_test, container_of_container_types, );
 
 TYPED_TEST(debug_stream_test, container_of_container)
 {
-#if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#    pragma GCC diagnostic push
-#    pragma GCC diagnostic ignored "-Warray-bounds"
-#    pragma GCC diagnostic ignored "-Wstringop-overflow"
-#endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+    SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_START(-Warray-bounds, -Wstringop-overflow)
     TypeParam t1{"ACGT"_dna4, "ACGT"_dna4, "GAGGA"_dna4};
-#if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
-#    pragma GCC diagnostic pop
-#endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+    SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP
 
     std::ostringstream o;
     seqan3::debug_stream_type my_stream{o};

test/unit/search/search_scheme_test.cpp

@@ -11,11 +11,11 @@
 
 #include "helper_search_scheme.hpp"
 
-#if SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+#ifdef SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP
 using integral_t = uint16_t;
 #else
 using integral_t = uint8_t;
-#endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY
+#endif // SEQAN3_WORKAROUND_GCC_BOGUS_MEMCPY_STOP
 
 template <uint8_t min_error, uint8_t max_error, bool precomputed_scheme>
 void error_distributions(auto & expected, auto & actual)