SeqAn3 3.1.0
The Modern C++ library for sequence analysis.
execution_handler_parallel.hpp
Go to the documentation of this file.
1// -----------------------------------------------------------------------------------------------------
2// Copyright (c) 2006-2021, Knut Reinert & Freie Universität Berlin
3// Copyright (c) 2016-2021, Knut Reinert & MPI für molekulare Genetik
4// This file may be used, modified and/or redistributed under the terms of the 3-clause BSD-License
5// shipped with this file and also available at: https://github.com/seqan/seqan3/blob/master/LICENSE.md
6// -----------------------------------------------------------------------------------------------------
7
13#pragma once
14
15#include <seqan3/std/concepts>
16#include <functional>
17#include <seqan3/std/ranges>
18#include <thread>
19#include <type_traits>
20#include <vector>
21
25
26namespace seqan3::detail
27{
28
54class execution_handler_parallel
55{
56private:
58 using task_type = std::function<void()>;
59
60public:
73 execution_handler_parallel(size_t const thread_count) : state{std::make_unique<internal_state>()}
74 {
75 auto * q = &(state->queue);
76 for (size_t i = 0; i < thread_count; ++i)
77 {
78 state->thread_pool.emplace_back([q] ()
79 {
80 for (;;)
81 {
82 task_type task;
83 if (q->wait_pop(task) == contrib::queue_op_status::closed)
84 return;
85
86 task();
87 }
88 });
89 }
90 }
91
106 execution_handler_parallel() : execution_handler_parallel{1u}
107 {}
108
109 execution_handler_parallel(execution_handler_parallel const &) = delete;
110 execution_handler_parallel(execution_handler_parallel &&) = default;
111 execution_handler_parallel & operator=(execution_handler_parallel const &) = delete;
112 execution_handler_parallel & operator=(execution_handler_parallel &&) = default;
113 ~execution_handler_parallel() = default;
114
116
135 template <std::copy_constructible algorithm_t,
136 typename algorithm_input_t,
137 std::copy_constructible callback_t>
139 requires std::invocable<algorithm_t, algorithm_input_t, callback_t> &&
140 (std::is_lvalue_reference_v<algorithm_input_t> || std::move_constructible<algorithm_input_t>)
142 void execute(algorithm_t && algorithm, algorithm_input_t && input, callback_t && callback)
143 {
144 assert(state != nullptr);
145
146 // Note: Unfortunately, we can't use std::forward_as_tuple here because a std::function object (`task_type`)
147 // cannot be constructed if the tuple element type is a rvalue-reference.
148 // So we capture the input as a `tuple<algorithm_input_t>` which either is a lvalue reference or has no
149 // reference type according to the reference collapsing rules of forwarding references.
150 // Then we forward the input into the tuple which either just stores the reference or the input is moved into
151 // the tuple. When the task is executed by some thread the stored input will either be forwarded as a
152 // lvalue-reference to the algorithm or the input is moved into the algorithm from the tuple. This is valid
153 // since the task is executed only once by the parallel execution handler.
154 // Here is a discussion about the problem on stackoverflow:
155 // https://stackoverflow.com/questions/26831382/capturing-perfectly-forwarded-variable-in-lambda/
156
157 // Asynchronously pushes the algorithm job as a task to the queue.
158 task_type task = [=, input_tpl = std::tuple<algorithm_input_t>{std::forward<algorithm_input_t>(input)}] ()
159 {
160 using forward_input_t = std::tuple_element_t<0, decltype(input_tpl)>;
161 algorithm(std::forward<forward_input_t>(std::get<0>(input_tpl)), std::move(callback));
162 };
163
164 [[maybe_unused]] contrib::queue_op_status status = state->queue.wait_push(std::move(task));
165 assert(status == contrib::queue_op_status::success);
166 }
167
184 template <std::copy_constructible algorithm_t,
185 std::ranges::input_range algorithm_input_range_t,
186 std::copy_constructible callback_t>
188 requires std::invocable<algorithm_t, std::ranges::range_reference_t<algorithm_input_range_t>, callback_t>
190 void bulk_execute(algorithm_t && algorithm, algorithm_input_range_t && input_range, callback_t && callback)
191 {
192 for (auto && input : input_range)
193 execute(algorithm, std::forward<decltype(input)>(input), callback);
194
195 wait();
196 }
197
199 void wait()
200 {
201 assert(state != nullptr);
202
203 state->stop_and_wait();
204 }
205
206private:
215 class internal_state
216 {
217 public:
222 internal_state() = default;
223 internal_state(internal_state const &) = delete;
224 internal_state(internal_state &&) = default;
225 internal_state & operator=(internal_state const &) = delete;
226 internal_state & operator=(internal_state &&) = default;
227
229 ~internal_state()
230 {
231 stop_and_wait();
232 }
234
243 void stop_and_wait()
244 {
245 queue.close();
246
247 for (auto & t : thread_pool)
248 {
249 if (t.joinable())
250 t.join();
251 }
252 }
253
255 std::vector<std::thread> thread_pool{};
257 contrib::fixed_buffer_queue<task_type> queue{10000};
258 };
259
261 std::unique_ptr<internal_state> state{nullptr};
262};
263
264} // namespace seqan3
Provides various type traits on generic types.
Provides seqan3::buffer_queue.
The <concepts> header from C++20's standard library.
T forward(T... args)
T make_unique(T... args)
SeqAn specific customisations in the standard namespace.
The <ranges> header from C++20's standard library.
Provides seqan3::detail::reader_writer_manager.