From b76629ff604f6fd17304abb9c93c654103ce4333 Mon Sep 17 00:00:00 2001
From: "seqan-actions[bot]" <seqan-actions@users.noreply.github.com>
Date: Mon, 24 Jul 2023 06:11:45 +0200
Subject: [PATCH] [MISC] IWYU

---
 include/hibf/detail/layout/layout.hpp         |  9 +++----
 include/hibf/detail/sketch/toolbox.hpp        |  2 --
 src/detail/sketch/toolbox.cpp                 |  8 ++-----
 .../sketch/estimate_kmer_counts_test.cpp      | 11 ++++++---
 .../hibf/detail/sketch/hyperloglog_test.cpp   | 24 ++++++++++++-------
 test/unit/hibf/detail/sketch/toolbox_test.cpp | 20 ++++++++++++----
 6 files changed, 46 insertions(+), 28 deletions(-)

diff --git a/include/hibf/detail/layout/layout.hpp b/include/hibf/detail/layout/layout.hpp
index 892582e4..d884d237 100644
--- a/include/hibf/detail/layout/layout.hpp
+++ b/include/hibf/detail/layout/layout.hpp
@@ -1,9 +1,10 @@
 #pragma once
 
-#include <concepts> // for derived_from
-#include <cstddef>  // for size_t
-#include <iosfwd>   // for ostream
-#include <vector>   // for vector, operator==
+#include <algorithm> // for copy
+#include <concepts>  // for derived_from
+#include <cstddef>   // for size_t
+#include <iosfwd>    // for ostream
+#include <vector>    // for vector, operator==
 
 #include <hibf/detail/prefixes.hpp> // for header, merged_bin
 #include <hibf/platform.hpp>
diff --git a/include/hibf/detail/sketch/toolbox.hpp b/include/hibf/detail/sketch/toolbox.hpp
index b0b72a09..de0b20ed 100644
--- a/include/hibf/detail/sketch/toolbox.hpp
+++ b/include/hibf/detail/sketch/toolbox.hpp
@@ -3,10 +3,8 @@
 #include <algorithm>  // for max
 #include <cinttypes>  // for uint64_t, int64_t
 #include <cstddef>    // for size_t
-#include <filesystem> // for path
 #include <functional> // for greater
 #include <queue>      // for priority_queue
-#include <string>     // for string
 #include <vector>     // for vector
 
 #include <hibf/contrib/robin_hood.hpp>        // for unordered_flat_map
diff --git a/src/detail/sketch/toolbox.cpp b/src/detail/sketch/toolbox.cpp
index e5e9c118..ad31afe6 100644
--- a/src/detail/sketch/toolbox.cpp
+++ b/src/detail/sketch/toolbox.cpp
@@ -1,18 +1,14 @@
-#include <algorithm>  // for sort
+#include <algorithm>  // for max, fill_n, sort
 #include <cassert>    // for assert
 #include <cinttypes>  // for uint64_t, int64_t
 #include <cmath>      // for floor, sqrt
 #include <cstddef>    // for size_t
-#include <filesystem> // for path, operator/
-#include <fstream>    // for ifstream, ios
 #include <functional> // for greater
 #include <limits>     // for numeric_limits
 #include <omp.h>      // for omp_get_thread_num
 #include <random>     // for uniform_int_distribution, mt19937_64
-#include <stdexcept>  // for runtime_error
-#include <string>     // for basic_string, operator+, string
 #include <utility>    // for swap, move
-#include <vector>     // for vector, allocator
+#include <vector>     // for vector
 
 #include <hibf/contrib/robin_hood.hpp>        // for unordered_flat_map, pair
 #include <hibf/detail/sketch/hyperloglog.hpp> // for hyperloglog
diff --git a/test/unit/hibf/detail/sketch/estimate_kmer_counts_test.cpp b/test/unit/hibf/detail/sketch/estimate_kmer_counts_test.cpp
index b57e9819..da00727d 100644
--- a/test/unit/hibf/detail/sketch/estimate_kmer_counts_test.cpp
+++ b/test/unit/hibf/detail/sketch/estimate_kmer_counts_test.cpp
@@ -1,8 +1,13 @@
-#include <gtest/gtest.h>
+#include <gtest/gtest.h> // for Test, Message, TestPartResult, EXPECT_EQ, TestInfo
 
-#include <vector>
+#include <cinttypes>   // for uint8_t
+#include <cstddef>     // for size_t
+#include <string>      // for basic_string, string
+#include <string_view> // for string_view
+#include <vector>      // for allocator, vector
 
-#include <hibf/detail/sketch/estimate_kmer_counts.hpp>
+#include <hibf/detail/sketch/estimate_kmer_counts.hpp> // for estimate_kmer_counts
+#include <hibf/detail/sketch/hyperloglog.hpp>          // for hyperloglog
 
 TEST(estimate_kmer_counts_test, small_example)
 {
diff --git a/test/unit/hibf/detail/sketch/hyperloglog_test.cpp b/test/unit/hibf/detail/sketch/hyperloglog_test.cpp
index 73b90a43..69d5cb6c 100644
--- a/test/unit/hibf/detail/sketch/hyperloglog_test.cpp
+++ b/test/unit/hibf/detail/sketch/hyperloglog_test.cpp
@@ -1,11 +1,19 @@
-#include <gtest/gtest.h>
-
-#include <fstream>
-#include <ranges>
-#include <unordered_set>
-
-#include <hibf/detail/sketch/hyperloglog.hpp>
-#include <hibf/test/tmp_directory.hpp> // for tmp_directory
+#include <gtest/gtest.h> // for Test, TestInfo, Message, TestPartResult, TEST, EXPECT_EQ, EXPE...
+
+#include <cinttypes>     // for uint8_t
+#include <cstddef>       // for size_t
+#include <filesystem>    // for path
+#include <fstream>       // for ofstream, ifstream, basic_ostream::write, ios
+#include <ranges>        // for iota_view, operator==, _Iota, iota
+#include <stdexcept>     // for runtime_error, invalid_argument
+#include <string>        // for allocator, basic_string, hash, string, char_traits, operator==
+#include <string_view>   // for string_view
+#include <unordered_set> // for unordered_set
+#include <vector>        // for vector
+
+#include <hibf/detail/sketch/hyperloglog.hpp> // for hyperloglog
+#include <hibf/test/sandboxed_path.hpp>       // for operator/, sandboxed_path
+#include <hibf/test/tmp_directory.hpp>        // for tmp_directory
 
 TEST(hyperloglog, bit_widths)
 {
diff --git a/test/unit/hibf/detail/sketch/toolbox_test.cpp b/test/unit/hibf/detail/sketch/toolbox_test.cpp
index 3a15d7cd..a5689c29 100644
--- a/test/unit/hibf/detail/sketch/toolbox_test.cpp
+++ b/test/unit/hibf/detail/sketch/toolbox_test.cpp
@@ -1,8 +1,18 @@
-#include <gtest/gtest.h>
-
-#include <hibf/detail/sketch/toolbox.hpp>
-#include <hibf/test/expect_range_eq.hpp> // for EXPECT_RANGE_EQ, expect_range_eq
-#include <hibf/test/tmp_directory.hpp>   // for tmp_directory
+#include <gtest/gtest.h> // for Message, TestPartResult, EXPECT_EQ, TestInfo, TEST_F, Test
+
+#include <cinttypes>   // for uint64_t
+#include <cstddef>     // for size_t
+#include <functional>  // for greater
+#include <limits>      // for numeric_limits
+#include <string>      // for allocator, basic_string, string
+#include <string_view> // for string_view
+#include <tuple>       // for tie, make_tuple
+#include <vector>      // for vector
+
+#include <hibf/contrib/robin_hood.hpp>        // for unordered_flat_map
+#include <hibf/detail/sketch/hyperloglog.hpp> // for hyperloglog
+#include <hibf/detail/sketch/toolbox.hpp>     // for clustering_node, entry, precompute_union_estimates_for, cluste...
+#include <hibf/test/expect_range_eq.hpp>      // for expect_range_eq, EXPECT_RANGE_EQ
 
 // inherits from toolbox to test private members
 struct toolbox_test : public ::testing::Test