sequenzo 0.1.17__cp39-cp39-win_amd64.whl → 0.1.19__cp39-cp39-win_amd64.whl

sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/Barrier.h

@@ -1,67 +0,0 @@
-// This file is part of Eigen, a lightweight C++ template library
-// for linear algebra.
-//
-// Copyright (C) 2018 Rasmus Munk Larsen <rmlarsen@google.com>
-//
-// This Source Code Form is subject to the terms of the Mozilla
-// Public License v. 2.0. If a copy of the MPL was not distributed
-// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
-
-// Barrier is an object that allows one or more threads to wait until
-// Notify has been called a specified number of times.
-
-#ifndef EIGEN_CXX11_THREADPOOL_BARRIER_H
-#define EIGEN_CXX11_THREADPOOL_BARRIER_H
-
-namespace Eigen {
-
-class Barrier {
- public:
-  Barrier(unsigned int count) : state_(count << 1), notified_(false) {
-    eigen_plain_assert(((count << 1) >> 1) == count);
-  }
-  ~Barrier() { eigen_plain_assert((state_ >> 1) == 0); }
-
-  void Notify() {
-    unsigned int v = state_.fetch_sub(2, std::memory_order_acq_rel) - 2;
-    if (v != 1) {
-      // Clear the lowest bit (waiter flag) and check that the original state
-      // value was not zero. If it was zero, it means that notify was called
-      // more times than the original count.
-      eigen_plain_assert(((v + 2) & ~1) != 0);
-      return;  // either count has not dropped to 0, or waiter is not waiting
-    }
-    std::unique_lock<std::mutex> l(mu_);
-    eigen_plain_assert(!notified_);
-    notified_ = true;
-    cv_.notify_all();
-  }
-
-  void Wait() {
-    unsigned int v = state_.fetch_or(1, std::memory_order_acq_rel);
-    if ((v >> 1) == 0) return;
-    std::unique_lock<std::mutex> l(mu_);
-    while (!notified_) {
-      cv_.wait(l);
-    }
-  }
-
- private:
-  std::mutex mu_;
-  std::condition_variable cv_;
-  std::atomic<unsigned int> state_;  // low bit is waiter flag
-  bool notified_;
-};
-
-// Notification is an object that allows a user to to wait for another
-// thread to signal a notification that an event has occurred.
-//
-// Multiple threads can wait on the same Notification object,
-// but only one caller must call Notify() on the object.
-struct Notification : Barrier {
-  Notification() : Barrier(1){};
-};
-
-}  // namespace Eigen
-
-#endif  // EIGEN_CXX11_THREADPOOL_BARRIER_H

sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/EventCount.h

@@ -1,249 +0,0 @@
-// This file is part of Eigen, a lightweight C++ template library
-// for linear algebra.
-//
-// Copyright (C) 2016 Dmitry Vyukov <dvyukov@google.com>
-//
-// This Source Code Form is subject to the terms of the Mozilla
-// Public License v. 2.0. If a copy of the MPL was not distributed
-// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
-
-#ifndef EIGEN_CXX11_THREADPOOL_EVENTCOUNT_H_
-#define EIGEN_CXX11_THREADPOOL_EVENTCOUNT_H_
-
-namespace Eigen {
-
-// EventCount allows to wait for arbitrary predicates in non-blocking
-// algorithms. Think of condition variable, but wait predicate does not need to
-// be protected by a mutex. Usage:
-// Waiting thread does:
-//
-//   if (predicate)
-//     return act();
-//   EventCount::Waiter& w = waiters[my_index];
-//   ec.Prewait(&w);
-//   if (predicate) {
-//     ec.CancelWait(&w);
-//     return act();
-//   }
-//   ec.CommitWait(&w);
-//
-// Notifying thread does:
-//
-//   predicate = true;
-//   ec.Notify(true);
-//
-// Notify is cheap if there are no waiting threads. Prewait/CommitWait are not
-// cheap, but they are executed only if the preceding predicate check has
-// failed.
-//
-// Algorithm outline:
-// There are two main variables: predicate (managed by user) and state_.
-// Operation closely resembles Dekker mutual algorithm:
-// https://en.wikipedia.org/wiki/Dekker%27s_algorithm
-// Waiting thread sets state_ then checks predicate, Notifying thread sets
-// predicate then checks state_. Due to seq_cst fences in between these
-// operations it is guaranteed than either waiter will see predicate change
-// and won't block, or notifying thread will see state_ change and will unblock
-// the waiter, or both. But it can't happen that both threads don't see each
-// other changes, which would lead to deadlock.
-class EventCount {
- public:
-  class Waiter;
-
-  EventCount(MaxSizeVector<Waiter>& waiters)
-      : state_(kStackMask), waiters_(waiters) {
-    eigen_plain_assert(waiters.size() < (1 << kWaiterBits) - 1);
-  }
-
-  ~EventCount() {
-    // Ensure there are no waiters.
-    eigen_plain_assert(state_.load() == kStackMask);
-  }
-
-  // Prewait prepares for waiting.
-  // After calling Prewait, the thread must re-check the wait predicate
-  // and then call either CancelWait or CommitWait.
-  void Prewait() {
-    uint64_t state = state_.load(std::memory_order_relaxed);
-    for (;;) {
-      CheckState(state);
-      uint64_t newstate = state + kWaiterInc;
-      CheckState(newstate);
-      if (state_.compare_exchange_weak(state, newstate,
-                                       std::memory_order_seq_cst))
-        return;
-    }
-  }
-
-  // CommitWait commits waiting after Prewait.
-  void CommitWait(Waiter* w) {
-    eigen_plain_assert((w->epoch & ~kEpochMask) == 0);
-    w->state = Waiter::kNotSignaled;
-    const uint64_t me = (w - &waiters_[0]) | w->epoch;
-    uint64_t state = state_.load(std::memory_order_seq_cst);
-    for (;;) {
-      CheckState(state, true);
-      uint64_t newstate;
-      if ((state & kSignalMask) != 0) {
-        // Consume the signal and return immidiately.
-        newstate = state - kWaiterInc - kSignalInc;
-      } else {
-        // Remove this thread from pre-wait counter and add to the waiter stack.
-        newstate = ((state & kWaiterMask) - kWaiterInc) | me;
-        w->next.store(state & (kStackMask | kEpochMask),
-                      std::memory_order_relaxed);
-      }
-      CheckState(newstate);
-      if (state_.compare_exchange_weak(state, newstate,
-                                       std::memory_order_acq_rel)) {
-        if ((state & kSignalMask) == 0) {
-          w->epoch += kEpochInc;
-          Park(w);
-        }
-        return;
-      }
-    }
-  }
-
-  // CancelWait cancels effects of the previous Prewait call.
-  void CancelWait() {
-    uint64_t state = state_.load(std::memory_order_relaxed);
-    for (;;) {
-      CheckState(state, true);
-      uint64_t newstate = state - kWaiterInc;
-      // We don't know if the thread was also notified or not,
-      // so we should not consume a signal unconditionaly.
-      // Only if number of waiters is equal to number of signals,
-      // we know that the thread was notified and we must take away the signal.
-      if (((state & kWaiterMask) >> kWaiterShift) ==
-          ((state & kSignalMask) >> kSignalShift))
-        newstate -= kSignalInc;
-      CheckState(newstate);
-      if (state_.compare_exchange_weak(state, newstate,
-                                       std::memory_order_acq_rel))
-        return;
-    }
-  }
-
-  // Notify wakes one or all waiting threads.
-  // Must be called after changing the associated wait predicate.
-  void Notify(bool notifyAll) {
-    std::atomic_thread_fence(std::memory_order_seq_cst);
-    uint64_t state = state_.load(std::memory_order_acquire);
-    for (;;) {
-      CheckState(state);
-      const uint64_t waiters = (state & kWaiterMask) >> kWaiterShift;
-      const uint64_t signals = (state & kSignalMask) >> kSignalShift;
-      // Easy case: no waiters.
-      if ((state & kStackMask) == kStackMask && waiters == signals) return;
-      uint64_t newstate;
-      if (notifyAll) {
-        // Empty wait stack and set signal to number of pre-wait threads.
-        newstate =
-            (state & kWaiterMask) | (waiters << kSignalShift) | kStackMask;
-      } else if (signals < waiters) {
-        // There is a thread in pre-wait state, unblock it.
-        newstate = state + kSignalInc;
-      } else {
-        // Pop a waiter from list and unpark it.
-        Waiter* w = &waiters_[state & kStackMask];
-        uint64_t next = w->next.load(std::memory_order_relaxed);
-        newstate = (state & (kWaiterMask | kSignalMask)) | next;
-      }
-      CheckState(newstate);
-      if (state_.compare_exchange_weak(state, newstate,
-                                       std::memory_order_acq_rel)) {
-        if (!notifyAll && (signals < waiters))
-          return;  // unblocked pre-wait thread
-        if ((state & kStackMask) == kStackMask) return;
-        Waiter* w = &waiters_[state & kStackMask];
-        if (!notifyAll) w->next.store(kStackMask, std::memory_order_relaxed);
-        Unpark(w);
-        return;
-      }
-    }
-  }
-
-  class Waiter {
-    friend class EventCount;
-    // Align to 128 byte boundary to prevent false sharing with other Waiter
-    // objects in the same vector.
-    EIGEN_ALIGN_TO_BOUNDARY(128) std::atomic<uint64_t> next;
-    std::mutex mu;
-    std::condition_variable cv;
-    uint64_t epoch = 0;
-    unsigned state = kNotSignaled;
-    enum {
-      kNotSignaled,
-      kWaiting,
-      kSignaled,
-    };
-  };
-
- private:
-  // State_ layout:
-  // - low kWaiterBits is a stack of waiters committed wait
-  //   (indexes in waiters_ array are used as stack elements,
-  //   kStackMask means empty stack).
-  // - next kWaiterBits is count of waiters in prewait state.
-  // - next kWaiterBits is count of pending signals.
-  // - remaining bits are ABA counter for the stack.
-  //   (stored in Waiter node and incremented on push).
-  static const uint64_t kWaiterBits = 14;
-  static const uint64_t kStackMask = (1ull << kWaiterBits) - 1;
-  static const uint64_t kWaiterShift = kWaiterBits;
-  static const uint64_t kWaiterMask = ((1ull << kWaiterBits) - 1)
-                                      << kWaiterShift;
-  static const uint64_t kWaiterInc = 1ull << kWaiterShift;
-  static const uint64_t kSignalShift = 2 * kWaiterBits;
-  static const uint64_t kSignalMask = ((1ull << kWaiterBits) - 1)
-                                      << kSignalShift;
-  static const uint64_t kSignalInc = 1ull << kSignalShift;
-  static const uint64_t kEpochShift = 3 * kWaiterBits;
-  static const uint64_t kEpochBits = 64 - kEpochShift;
-  static const uint64_t kEpochMask = ((1ull << kEpochBits) - 1) << kEpochShift;
-  static const uint64_t kEpochInc = 1ull << kEpochShift;
-  std::atomic<uint64_t> state_;
-  MaxSizeVector<Waiter>& waiters_;
-
-  static void CheckState(uint64_t state, bool waiter = false) {
-    static_assert(kEpochBits >= 20, "not enough bits to prevent ABA problem");
-    const uint64_t waiters = (state & kWaiterMask) >> kWaiterShift;
-    const uint64_t signals = (state & kSignalMask) >> kSignalShift;
-    eigen_plain_assert(waiters >= signals);
-    eigen_plain_assert(waiters < (1 << kWaiterBits) - 1);
-    eigen_plain_assert(!waiter || waiters > 0);
-    (void)waiters;
-    (void)signals;
-  }
-
-  void Park(Waiter* w) {
-    std::unique_lock<std::mutex> lock(w->mu);
-    while (w->state != Waiter::kSignaled) {
-      w->state = Waiter::kWaiting;
-      w->cv.wait(lock);
-    }
-  }
-
-  void Unpark(Waiter* w) {
-    for (Waiter* next; w; w = next) {
-      uint64_t wnext = w->next.load(std::memory_order_relaxed) & kStackMask;
-      next = wnext == kStackMask ? nullptr : &waiters_[wnext];
-      unsigned state;
-      {
-        std::unique_lock<std::mutex> lock(w->mu);
-        state = w->state;
-        w->state = Waiter::kSignaled;
-      }
-      // Avoid notifying if it wasn't waiting.
-      if (state == Waiter::kWaiting) w->cv.notify_one();
-    }
-  }
-
-  EventCount(const EventCount&) = delete;
-  void operator=(const EventCount&) = delete;
-};
-
-}  // namespace Eigen
-
-#endif  // EIGEN_CXX11_THREADPOOL_EVENTCOUNT_H_