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Merge pull request #320 from tsadakane/enh_cuda_CTnoise
CUDA implementation of CTnoise
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| Original file line number | Diff line number | Diff line change |
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| /*------------------------------------------------------------------------- | ||
| * | ||
| * CUDA functions for random number generator | ||
| * | ||
| * Adds noise of Poisson and normal distribution to the input. | ||
| * | ||
| * CODE by Tomoyuki SADAKANE | ||
| * --------------------------------------------------------------------------- | ||
| * --------------------------------------------------------------------------- | ||
| * Copyright (c) 2015, University of Bath and CERN- European Organization for | ||
| * Nuclear Research | ||
| * All rights reserved. | ||
| * | ||
| * Redistribution and use in source and binary forms, with or without | ||
| * modification, are permitted provided that the following conditions are met: | ||
| * | ||
| * 1. Redistributions of source code must retain the above copyright notice, | ||
| * this list of conditions and the following disclaimer. | ||
| * | ||
| * 2. Redistributions in binary form must reproduce the above copyright notice, | ||
| * this list of conditions and the following disclaimer in the documentation | ||
| * and/or other materials provided with the distribution. | ||
| * | ||
| * 3. Neither the name of the copyright holder nor the names of its contributors | ||
| * may be used to endorse or promote products derived from this software without | ||
| * specific prior written permission. | ||
| * | ||
| * THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" | ||
| * AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE | ||
| * IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE | ||
| * ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE | ||
| * LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR | ||
| * CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF | ||
| * SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS | ||
| * INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN | ||
| * CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) | ||
| * ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE | ||
| * POSSIBILITY OF SUCH DAMAGE. | ||
| * --------------------------------------------------------------------------- | ||
| * | ||
| * Contact: [email protected] | ||
| * Codes : https://github.com/CERN/TIGRE | ||
| * --------------------------------------------------------------------------- | ||
| */ | ||
|
|
||
| #include <stdio.h> | ||
| #include <stdlib.h> | ||
| #include <cuda.h> | ||
| #include <curand_kernel.h> | ||
| #include <curand.h> | ||
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| #include "gpuUtils.hpp" | ||
| #include "RandomNumberGenerator.hpp" | ||
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| #define cudaCheckErrors(msg) \ | ||
| do { \ | ||
| cudaError_t __err = cudaGetLastError(); \ | ||
| if (__err != cudaSuccess) { \ | ||
| mexPrintf("%s \n",msg);\ | ||
| cudaDeviceReset();\ | ||
| mexErrMsgIdAndTxt("RandomNumberGenerator:",cudaGetErrorString(__err));\ | ||
| } \ | ||
| } while (0) | ||
|
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|
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| __global__ void setup_kernel(curandState *state) { | ||
| int idx = threadIdx.x + blockIdx.x * blockDim.x; | ||
| /* Each thread gets same seed, a different sequence number, no offset */ | ||
| curand_init(1234, idx, 0, &state[idx]); | ||
| } | ||
|
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| __global__ void GeneratePoisson(curandState *state, const float* pfIn, size_t uiLen, float* pfOut) { | ||
| int idx = threadIdx.x + blockIdx.x * blockDim.x; | ||
| /* Copy state to local memory for efficiency */ | ||
| curandState localState = state[idx]; | ||
| int iIter = (uiLen + blockDim.x*gridDim.x - 1)/(blockDim.x*gridDim.x); | ||
| for (int iI = 0; iI < iIter; ++iI) { | ||
| size_t uiPos = (size_t)blockDim.x*gridDim.x*iI+idx; | ||
| if (uiPos < uiLen) { | ||
| /* Poisson */ | ||
| unsigned int uiPoisson = curand_poisson(&localState, pfIn[uiPos]); | ||
| pfOut[uiPos] = (float)uiPoisson; | ||
| } | ||
| } | ||
| /* Copy state back to global memory */ | ||
| state[idx] = localState; | ||
| } | ||
|
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| __global__ void GeneratePoissonAddGaussian(curandState *state, | ||
| const float* pfIn, | ||
| size_t uiLen, | ||
| float fGaussMu, | ||
| float fGaussSigma, | ||
| float* pfOut) | ||
| { | ||
| int idx = threadIdx.x + blockIdx.x * blockDim.x; | ||
| /* Copy state to local memory for efficiency */ | ||
| curandState localState = state[idx]; | ||
| int iIter = (uiLen + blockDim.x*gridDim.x - 1)/(blockDim.x*gridDim.x); | ||
| for (int iI = 0; iI < iIter; ++iI) { | ||
| size_t uiPos = (size_t)blockDim.x*gridDim.x*iI+idx; | ||
| if (uiPos < uiLen) { | ||
| /* Poisson */ | ||
| unsigned int uiPoisson = curand_poisson(&localState, pfIn[uiPos]); | ||
| /* Gaussian */ | ||
| float fNormal = curand_normal(&localState) * fGaussSigma + fGaussMu; | ||
| pfOut[uiPos] = fNormal + (float)uiPoisson; | ||
| } | ||
| } | ||
| /* Copy state back to global memory */ | ||
| state[idx] = localState; | ||
| } | ||
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| template<class T_value> | ||
| void GetMinMax(const T_value* pfIn, size_t uiLen, T_value& tvMin, T_value& tvMax) { | ||
| tvMin = pfIn[0]; | ||
| tvMax = pfIn[0]; | ||
| T_value tvVal; | ||
| for (int iI = 1; iI < uiLen; ++iI) { | ||
| tvVal = pfIn[iI]; | ||
| if (tvMax < tvVal) { tvMax = tvVal; continue;} | ||
| if (tvMin > tvVal) { tvMin = tvVal; continue;} | ||
| } | ||
| } | ||
| void poisson_1d(const float* pfIn, size_t uiLen, float* pfOut, const GpuIds& gpuids) { | ||
| // printf("poisson_1d(pfIn = %p, uiLen = %zd, pfOut = %p)\n", pfIn, uiLen, pfOut); | ||
| float* d_pfIn = nullptr; | ||
| float* d_pfOut = nullptr; | ||
| cudaMalloc((void **)&d_pfIn, uiLen * sizeof(float)); | ||
| cudaCheckErrors("poisson_1d fail cudaMalloc 1"); | ||
| cudaMalloc((void **)&d_pfOut, uiLen * sizeof(float)); | ||
| cudaCheckErrors("poisson_1d fail cudaMalloc 2"); | ||
| cudaMemcpy(d_pfIn, pfIn, uiLen*sizeof(float), cudaMemcpyHostToDevice); | ||
| cudaCheckErrors("poisson_1d fail cudaMemcpy 1"); | ||
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| // float fMin, fMax; | ||
| // GetMinMax(pfIn, uiLen, fMin, fMax); | ||
| // printf("fMin, fMax = %f, %f\n", fMin, fMax); | ||
| curandState *curandStates = nullptr; | ||
| const int kiBlockDim = 1024; // Threads per Block | ||
| const int kiGridDim = 64;//(uiLen+kiBlockDim-1)/kiBlockDim; | ||
| cudaMalloc((void **)&curandStates, kiGridDim * kiBlockDim * sizeof(curandState)); | ||
| cudaCheckErrors("poisson_1d fail cudaMalloc 3"); | ||
| setup_kernel<<<kiGridDim, kiBlockDim>>>(curandStates); | ||
| GeneratePoisson<<<kiGridDim, kiBlockDim>>>(curandStates, d_pfIn, uiLen, d_pfOut); | ||
| cudaMemcpy(pfOut, d_pfOut, uiLen*sizeof(float), cudaMemcpyDeviceToHost); | ||
| cudaCheckErrors("poisson_1d fail cudaMemcpy 2"); | ||
| // GetMinMax(pfOut, uiLen, fMin, fMax); | ||
| // printf("fMin, fMax = %f, %f\n", fMin, fMax); | ||
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| cudaFree(d_pfIn); d_pfIn = nullptr; | ||
| cudaFree(d_pfOut); d_pfOut = nullptr; | ||
| cudaFree(curandStates); curandStates = nullptr; | ||
| } | ||
|
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| void poisson_gaussian_1d(const float* pfIn, | ||
| size_t uiLen, | ||
| float fGaussMu, | ||
| float fGaussSigma, | ||
| float* pfOut, | ||
| GpuIds& gpuids) | ||
| { | ||
| // printf("poisson_gaussian_1d(pfIn = %p, uiLen = %zd, fGaussMu = %+f, fGaussSigma = %f, pfOut = %p)\n", pfIn, uiLen, fGaussMu, fGaussSigma, pfOut); | ||
| float* d_pfIn = nullptr; | ||
| float* d_pfOut = nullptr; | ||
| cudaMalloc((void **)&d_pfIn, uiLen * sizeof(float)); | ||
| cudaCheckErrors("poisson_gaussian_1d fail cudaMalloc 1"); | ||
| cudaMalloc((void **)&d_pfOut, uiLen * sizeof(float)); | ||
| cudaCheckErrors("poisson_gaussian_1d fail cudaMalloc 2"); | ||
| cudaMemcpy(d_pfIn, pfIn, uiLen*sizeof(float), cudaMemcpyHostToDevice); | ||
| cudaCheckErrors("poisson_gaussian_1d fail cudaMemcpy 1"); | ||
|
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| // float fMin, fMax; | ||
| // GetMinMax(pfIn, uiLen, fMin, fMax); | ||
| // printf("fMin, fMax = %f, %f\n", fMin, fMax); | ||
| curandState *curandStates = nullptr; | ||
| const int kiBlockDim = 64; // Threads per Block | ||
| const int kiGridDim = 64;//(uiLen+kiBlockDim-1)/kiBlockDim; | ||
| cudaMalloc((void **)&curandStates, kiGridDim * kiBlockDim * sizeof(curandState)); | ||
| cudaCheckErrors("poisson_gaussian_1d fail cudaMalloc 3"); | ||
| setup_kernel<<<kiGridDim, kiBlockDim>>>(curandStates); | ||
| GeneratePoissonAddGaussian<<<kiGridDim, kiBlockDim>>>(curandStates, d_pfIn, uiLen, fGaussMu, fGaussSigma, d_pfOut); | ||
| cudaMemcpy(pfOut, d_pfOut, uiLen*sizeof(float), cudaMemcpyDeviceToHost); | ||
| cudaCheckErrors("poisson_gaussian_1d fail cudaMemcpy 2"); | ||
| // GetMinMax(pfOut, uiLen, fMin, fMax); | ||
| // printf("fMin, fMax = %f, %f\n", fMin, fMax); | ||
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| cudaFree(d_pfIn); d_pfIn = nullptr; | ||
| cudaFree(d_pfOut); d_pfOut = nullptr; | ||
| cudaFree(curandStates); curandStates = nullptr; | ||
| } |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,49 @@ | ||
| /*------------------------------------------------------------------------- | ||
| * | ||
| * Header CUDA functions for random number generator | ||
| * | ||
| * Adds noise of Poisson and normal distribution to the input. | ||
| * | ||
| * CODE by Tomoyuki SADAKANE | ||
| * --------------------------------------------------------------------------- | ||
| * --------------------------------------------------------------------------- | ||
| * Copyright (c) 2015, University of Bath and CERN- European Organization for | ||
| * Nuclear Research | ||
| * All rights reserved. | ||
| * | ||
| * Redistribution and use in source and binary forms, with or without | ||
| * modification, are permitted provided that the following conditions are met: | ||
| * | ||
| * 1. Redistributions of source code must retain the above copyright notice, | ||
| * this list of conditions and the following disclaimer. | ||
| * | ||
| * 2. Redistributions in binary form must reproduce the above copyright notice, | ||
| * this list of conditions and the following disclaimer in the documentation | ||
| * and/or other materials provided with the distribution. | ||
| * | ||
| * 3. Neither the name of the copyright holder nor the names of its contributors | ||
| * may be used to endorse or promote products derived from this software without | ||
| * specific prior written permission. | ||
| * | ||
| * THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" | ||
| * AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE | ||
| * IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE | ||
| * ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE | ||
| * LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR | ||
| * CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF | ||
| * SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS | ||
| * INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN | ||
| * CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) | ||
| * ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE | ||
| * POSSIBILITY OF SUCH DAMAGE. | ||
| * --------------------------------------------------------------------------- | ||
| * | ||
| * Contact: [email protected] | ||
| * Codes : https://github.com/CERN/TIGRE | ||
| * --------------------------------------------------------------------------- | ||
| */ | ||
|
|
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| #include "TIGRE_common.hpp" | ||
| #include "GpuIds.hpp" | ||
| void poisson_1d(const float* pfIn, size_t uiLen, float* pfOut, const GpuIds& gpuids); | ||
| void poisson_gaussian_1d(const float* pfPoissonL, size_t uiLen, float fGaussMu, float fGaussSigma, float* pfOut, GpuIds& gpuids); |
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