sequenzo 0.1.18__cp310-cp310-macosx_10_9_universal2.whl → 0.1.20__cp310-cp310-macosx_10_9_universal2.whl

sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDeviceCuda.h

@@ -1,6 +0,0 @@
-
-#if defined(__clang__) || defined(__GNUC__)
-#warning "Deprecated header file, please either include the main Eigen/CXX11/Tensor header or the respective TensorDeviceGpu.h file"
-#endif
-
-#include "TensorDeviceGpu.h"

sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDeviceDefault.h

@@ -1,104 +0,0 @@
-// This file is part of Eigen, a lightweight C++ template library
-// for linear algebra.
-//
-// Copyright (C) 2014 Benoit Steiner <benoit.steiner.goog@gmail.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_TENSOR_TENSOR_DEVICE_DEFAULT_H
-#define EIGEN_CXX11_TENSOR_TENSOR_DEVICE_DEFAULT_H
-
-
-namespace Eigen {
-
-// Default device for the machine (typically a single cpu core)
-struct DefaultDevice {
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void* allocate(size_t num_bytes) const {
-    return internal::aligned_malloc(num_bytes);
-  }
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void deallocate(void* buffer) const {
-    internal::aligned_free(buffer);
-  }
-    EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void* allocate_temp(size_t num_bytes) const {
-    return allocate(num_bytes);
-  }
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void deallocate_temp(void* buffer) const {
-    deallocate(buffer);
-  }
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void memcpy(void* dst, const void* src, size_t n) const {
-    ::memcpy(dst, src, n);
-  }
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void memcpyHostToDevice(void* dst, const void* src, size_t n) const {
-    memcpy(dst, src, n);
-  }
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void memcpyDeviceToHost(void* dst, const void* src, size_t n) const {
-    memcpy(dst, src, n);
-  }
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void memset(void* buffer, int c, size_t n) const {
-    ::memset(buffer, c, n);
-  }
-  template<typename Type>
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Type get(Type data) const { 
-    return data;
-  }
-
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE size_t numThreads() const {
-#if !defined(EIGEN_GPU_COMPILE_PHASE)
-    // Running on the host CPU
-    return 1;
-#elif defined(EIGEN_HIP_DEVICE_COMPILE)
-    // Running on a HIP device
-    return 64;
-#else
-    // Running on a CUDA device
-    return 32;
-#endif
-  }
-
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE size_t firstLevelCacheSize() const {
-#if !defined(EIGEN_GPU_COMPILE_PHASE) && !defined(SYCL_DEVICE_ONLY)
-    // Running on the host CPU
-    return l1CacheSize();
-#elif defined(EIGEN_HIP_DEVICE_COMPILE)
-    // Running on a HIP device
-    return 48*1024; // FIXME : update this number for HIP
-#else
-    // Running on a CUDA device, return the amount of shared memory available.
-    return 48*1024;
-#endif
-  }
-
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE size_t lastLevelCacheSize() const {
-#if !defined(EIGEN_GPU_COMPILE_PHASE) && !defined(SYCL_DEVICE_ONLY)
-    // Running single threaded on the host CPU
-    return l3CacheSize();
-#elif defined(EIGEN_HIP_DEVICE_COMPILE)
-    // Running on a HIP device
-    return firstLevelCacheSize(); // FIXME : update this number for HIP
-#else
-    // Running on a CUDA device
-    return firstLevelCacheSize();
-#endif
-  }
-
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE int majorDeviceVersion() const {
-#if !defined(EIGEN_GPU_COMPILE_PHASE)
-    // Running single threaded on the host CPU
-    // Should return an enum that encodes the ISA supported by the CPU
-    return 1;
-#elif defined(EIGEN_HIP_DEVICE_COMPILE)
-    // Running on a HIP device
-    // return 1 as major for HIP
-    return 1;
-#else
-    // Running on a CUDA device
-    return EIGEN_CUDA_ARCH / 100;
-#endif
-  }
-};
-
-}  // namespace Eigen
-
-#endif // EIGEN_CXX11_TENSOR_TENSOR_DEVICE_DEFAULT_H

sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDeviceGpu.h

@@ -1,389 +0,0 @@
-// This file is part of Eigen, a lightweight C++ template library
-// for linear algebra.
-//
-// Copyright (C) 2014 Benoit Steiner <benoit.steiner.goog@gmail.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/.
-
-#if defined(EIGEN_USE_GPU) && !defined(EIGEN_CXX11_TENSOR_TENSOR_DEVICE_GPU_H)
-#define EIGEN_CXX11_TENSOR_TENSOR_DEVICE_GPU_H
-
-// This header file container defines fo gpu* macros which will resolve to
-// their equivalent hip* or cuda* versions depending on the compiler in use
-// A separate header (included at the end of this file) will undefine all 
-#include "TensorGpuHipCudaDefines.h"
-
-namespace Eigen {
-
-static const int kGpuScratchSize = 1024;
-
-// This defines an interface that GPUDevice can take to use
-// HIP / CUDA streams underneath.
-class StreamInterface {
- public:
-  virtual ~StreamInterface() {}
-
-  virtual const gpuStream_t& stream() const = 0;
-  virtual const gpuDeviceProp_t& deviceProperties() const = 0;
-
-  // Allocate memory on the actual device where the computation will run
-  virtual void* allocate(size_t num_bytes) const = 0;
-  virtual void deallocate(void* buffer) const = 0;
-
-  // Return a scratchpad buffer of size 1k
-  virtual void* scratchpad() const = 0;
-
-  // Return a semaphore. The semaphore is initially initialized to 0, and
-  // each kernel using it is responsible for resetting to 0 upon completion
-  // to maintain the invariant that the semaphore is always equal to 0 upon
-  // each kernel start.
-  virtual unsigned int* semaphore() const = 0;
-};
-
-class GpuDeviceProperties {
- public:
-  GpuDeviceProperties() : 
-      initialized_(false), first_(true), device_properties_(nullptr) {}
- 
-  ~GpuDeviceProperties() {
-    if (device_properties_) {
-      delete[] device_properties_;
-    }
-  }
-  
-  EIGEN_STRONG_INLINE const gpuDeviceProp_t& get(int device) const {
-    return device_properties_[device];
-  }
-
-  EIGEN_STRONG_INLINE bool isInitialized() const {
-    return initialized_;
-  }
-
-  void initialize() {
-    if (!initialized_) {
-      // Attempts to ensure proper behavior in the case of multiple threads
-      // calling this function simultaneously. This would be trivial to
-      // implement if we could use std::mutex, but unfortunately mutex don't
-      // compile with nvcc, so we resort to atomics and thread fences instead.
-      // Note that if the caller uses a compiler that doesn't support c++11 we
-      // can't ensure that the initialization is thread safe.
-      if (first_.exchange(false)) {
-        // We're the first thread to reach this point.
-        int num_devices;
-        gpuError_t status = gpuGetDeviceCount(&num_devices);
-        if (status != gpuSuccess) {
-          std::cerr << "Failed to get the number of GPU devices: "
-                    << gpuGetErrorString(status)
-                    << std::endl;
-          gpu_assert(status == gpuSuccess);
-        }
-        device_properties_ = new gpuDeviceProp_t[num_devices];
-        for (int i = 0; i < num_devices; ++i) {
-          status = gpuGetDeviceProperties(&device_properties_[i], i);
-          if (status != gpuSuccess) {
-            std::cerr << "Failed to initialize GPU device #"
-                      << i
-                      << ": "
-                      << gpuGetErrorString(status)
-                      << std::endl;
-            gpu_assert(status == gpuSuccess);
-          }
-        }
-
-        std::atomic_thread_fence(std::memory_order_release);
-        initialized_ = true;
-      } else {
-        // Wait for the other thread to inititialize the properties.
-        while (!initialized_) {
-          std::atomic_thread_fence(std::memory_order_acquire);
-          std::this_thread::sleep_for(std::chrono::milliseconds(1000));
-        }
-      }
-    }
-  }
-
- private:
-  volatile bool initialized_;
-  std::atomic<bool> first_;
-  gpuDeviceProp_t* device_properties_;
-};
-
-EIGEN_ALWAYS_INLINE const GpuDeviceProperties& GetGpuDeviceProperties() {
-  static GpuDeviceProperties* deviceProperties = new GpuDeviceProperties();
-  if (!deviceProperties->isInitialized()) {
-    deviceProperties->initialize();
-  }
-  return *deviceProperties;
-}
-
-EIGEN_ALWAYS_INLINE const gpuDeviceProp_t& GetGpuDeviceProperties(int device) {
-  return GetGpuDeviceProperties().get(device);
-}
-
-static const gpuStream_t default_stream = gpuStreamDefault;
-
-class GpuStreamDevice : public StreamInterface {
- public:
-  // Use the default stream on the current device
-  GpuStreamDevice() : stream_(&default_stream), scratch_(NULL), semaphore_(NULL) {
-    gpuGetDevice(&device_);
-  }
-  // Use the default stream on the specified device
-  GpuStreamDevice(int device) : stream_(&default_stream), device_(device), scratch_(NULL), semaphore_(NULL) {}
-  // Use the specified stream. Note that it's the
-  // caller responsibility to ensure that the stream can run on
-  // the specified device. If no device is specified the code
-  // assumes that the stream is associated to the current gpu device.
-  GpuStreamDevice(const gpuStream_t* stream, int device = -1)
-      : stream_(stream), device_(device), scratch_(NULL), semaphore_(NULL) {
-    if (device < 0) {
-      gpuGetDevice(&device_);
-    } else {
-      int num_devices;
-      gpuError_t err = gpuGetDeviceCount(&num_devices);
-      EIGEN_UNUSED_VARIABLE(err)
-      gpu_assert(err == gpuSuccess);
-      gpu_assert(device < num_devices);
-      device_ = device;
-    }
-  }
-
-  virtual ~GpuStreamDevice() {
-    if (scratch_) {
-      deallocate(scratch_);
-    }
-  }
-
-  const gpuStream_t& stream() const { return *stream_; }
-  const gpuDeviceProp_t& deviceProperties() const {
-    return GetGpuDeviceProperties(device_);
-  }
-  virtual void* allocate(size_t num_bytes) const {
-    gpuError_t err = gpuSetDevice(device_);
-    EIGEN_UNUSED_VARIABLE(err)
-    gpu_assert(err == gpuSuccess);
-    void* result;
-    err = gpuMalloc(&result, num_bytes);
-    gpu_assert(err == gpuSuccess);
-    gpu_assert(result != NULL);
-    return result;
-  }
-  virtual void deallocate(void* buffer) const {
-    gpuError_t err = gpuSetDevice(device_);
-    EIGEN_UNUSED_VARIABLE(err)
-    gpu_assert(err == gpuSuccess);
-    gpu_assert(buffer != NULL);
-    err = gpuFree(buffer);
-    gpu_assert(err == gpuSuccess);
-  }
-
-  virtual void* scratchpad() const {
-    if (scratch_ == NULL) {
-      scratch_ = allocate(kGpuScratchSize + sizeof(unsigned int));
-    }
-    return scratch_;
-  }
-
-  virtual unsigned int* semaphore() const {
-    if (semaphore_ == NULL) {
-      char* scratch = static_cast<char*>(scratchpad()) + kGpuScratchSize;
-      semaphore_ = reinterpret_cast<unsigned int*>(scratch);
-      gpuError_t err = gpuMemsetAsync(semaphore_, 0, sizeof(unsigned int), *stream_);
-      EIGEN_UNUSED_VARIABLE(err)
-      gpu_assert(err == gpuSuccess);
-    }
-    return semaphore_;
-  }
-
- private:
-  const gpuStream_t* stream_;
-  int device_;
-  mutable void* scratch_;
-  mutable unsigned int* semaphore_;
-};
-
-struct GpuDevice {
-  // The StreamInterface is not owned: the caller is
-  // responsible for its initialization and eventual destruction.
-  explicit GpuDevice(const StreamInterface* stream) : stream_(stream), max_blocks_(INT_MAX) {
-    eigen_assert(stream);
-  }
-  explicit GpuDevice(const StreamInterface* stream, int num_blocks) : stream_(stream), max_blocks_(num_blocks) {
-    eigen_assert(stream);
-  }
-  // TODO(bsteiner): This is an internal API, we should not expose it.
-  EIGEN_STRONG_INLINE const gpuStream_t& stream() const {
-    return stream_->stream();
-  }
-
-  EIGEN_STRONG_INLINE void* allocate(size_t num_bytes) const {
-    return stream_->allocate(num_bytes);
-  }
-
-  EIGEN_STRONG_INLINE void deallocate(void* buffer) const {
-    stream_->deallocate(buffer);
-  }
-
-  EIGEN_STRONG_INLINE void* allocate_temp(size_t num_bytes) const {
-    return stream_->allocate(num_bytes);
-  }
-
-  EIGEN_STRONG_INLINE void deallocate_temp(void* buffer) const {
-    stream_->deallocate(buffer);
-  }
-
-  template<typename Type>
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Type get(Type data) const { 
-    return data;
-  }
-
-  EIGEN_STRONG_INLINE void* scratchpad() const {
-    return stream_->scratchpad();
-  }
-
-  EIGEN_STRONG_INLINE unsigned int* semaphore() const {
-    return stream_->semaphore();
-  }
-
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void memcpy(void* dst, const void* src, size_t n) const {
-#ifndef EIGEN_GPU_COMPILE_PHASE
-    gpuError_t err = gpuMemcpyAsync(dst, src, n, gpuMemcpyDeviceToDevice,
-                                      stream_->stream());
-    EIGEN_UNUSED_VARIABLE(err)
-    gpu_assert(err == gpuSuccess);
-#else
-    EIGEN_UNUSED_VARIABLE(dst);
-    EIGEN_UNUSED_VARIABLE(src);
-    EIGEN_UNUSED_VARIABLE(n);
-    eigen_assert(false && "The default device should be used instead to generate kernel code");
-#endif
-  }
-
-  EIGEN_STRONG_INLINE void memcpyHostToDevice(void* dst, const void* src, size_t n) const {
-    gpuError_t err =
-        gpuMemcpyAsync(dst, src, n, gpuMemcpyHostToDevice, stream_->stream());
-    EIGEN_UNUSED_VARIABLE(err)
-    gpu_assert(err == gpuSuccess);
-  }
-
-  EIGEN_STRONG_INLINE void memcpyDeviceToHost(void* dst, const void* src, size_t n) const {
-    gpuError_t err =
-        gpuMemcpyAsync(dst, src, n, gpuMemcpyDeviceToHost, stream_->stream());
-    EIGEN_UNUSED_VARIABLE(err)
-    gpu_assert(err == gpuSuccess);
-  }
-
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void memset(void* buffer, int c, size_t n) const {
-#ifndef EIGEN_GPU_COMPILE_PHASE
-    gpuError_t err = gpuMemsetAsync(buffer, c, n, stream_->stream());
-    EIGEN_UNUSED_VARIABLE(err)
-    gpu_assert(err == gpuSuccess);
-#else
-  eigen_assert(false && "The default device should be used instead to generate kernel code");
-#endif
-  }
-
-  EIGEN_STRONG_INLINE size_t numThreads() const {
-    // FIXME
-    return 32;
-  }
-
-  EIGEN_STRONG_INLINE size_t firstLevelCacheSize() const {
-    // FIXME
-    return 48*1024;
-  }
-
-  EIGEN_STRONG_INLINE size_t lastLevelCacheSize() const {
-    // We won't try to take advantage of the l2 cache for the time being, and
-    // there is no l3 cache on hip/cuda devices.
-    return firstLevelCacheSize();
-  }
-
-  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void synchronize() const {
-#ifndef EIGEN_GPU_COMPILE_PHASE
-    gpuError_t err = gpuStreamSynchronize(stream_->stream());
-    if (err != gpuSuccess) {
-      std::cerr << "Error detected in GPU stream: "
-                << gpuGetErrorString(err)
-                << std::endl;
-      gpu_assert(err == gpuSuccess);
-    }
-#else
-    gpu_assert(false && "The default device should be used instead to generate kernel code");
-#endif
-  }
-
-  EIGEN_STRONG_INLINE int getNumGpuMultiProcessors() const {
-    return stream_->deviceProperties().multiProcessorCount;
-  }
-  EIGEN_STRONG_INLINE int maxGpuThreadsPerBlock() const {
-    return stream_->deviceProperties().maxThreadsPerBlock;
-  }
-  EIGEN_STRONG_INLINE int maxGpuThreadsPerMultiProcessor() const {
-    return stream_->deviceProperties().maxThreadsPerMultiProcessor;
-  }
-  EIGEN_STRONG_INLINE int sharedMemPerBlock() const {
-    return stream_->deviceProperties().sharedMemPerBlock;
-  }
-  EIGEN_STRONG_INLINE int majorDeviceVersion() const {
-    return stream_->deviceProperties().major;
-  }
-  EIGEN_STRONG_INLINE int minorDeviceVersion() const {
-    return stream_->deviceProperties().minor;
-  }
-
-  EIGEN_STRONG_INLINE int maxBlocks() const {
-    return max_blocks_;
-  }
-
-  // This function checks if the GPU runtime recorded an error for the
-  // underlying stream device.
-  inline bool ok() const {
-#ifdef EIGEN_GPUCC
-    gpuError_t error = gpuStreamQuery(stream_->stream());
-    return (error == gpuSuccess) || (error == gpuErrorNotReady);
-#else
-    return false;
-#endif
-  }
-
- private:
-  const StreamInterface* stream_;
-  int max_blocks_;
-};
-
-#if defined(EIGEN_HIPCC)
-
-#define LAUNCH_GPU_KERNEL(kernel, gridsize, blocksize, sharedmem, device, ...)             \
-  hipLaunchKernelGGL(kernel, dim3(gridsize), dim3(blocksize), (sharedmem), (device).stream(), __VA_ARGS__); \
-  gpu_assert(hipGetLastError() == hipSuccess);
-
-#else
- 
-#define LAUNCH_GPU_KERNEL(kernel, gridsize, blocksize, sharedmem, device, ...)             \
-  (kernel) <<< (gridsize), (blocksize), (sharedmem), (device).stream() >>> (__VA_ARGS__);   \
-  gpu_assert(cudaGetLastError() == cudaSuccess);
-
-#endif
- 
-// FIXME: Should be device and kernel specific.
-#ifdef EIGEN_GPUCC
-static EIGEN_DEVICE_FUNC inline void setGpuSharedMemConfig(gpuSharedMemConfig config) {
-#ifndef EIGEN_GPU_COMPILE_PHASE
-  gpuError_t status = gpuDeviceSetSharedMemConfig(config);
-  EIGEN_UNUSED_VARIABLE(status)
-  gpu_assert(status == gpuSuccess);
-#else
-  EIGEN_UNUSED_VARIABLE(config)
-#endif
-}
-#endif
-
-}  // end namespace Eigen
-
-// undefine all the gpu* macros we defined at the beginning of the file
-#include "TensorGpuHipCudaUndefines.h"
-
-#endif  // EIGEN_CXX11_TENSOR_TENSOR_DEVICE_GPU_H