1234567891011121314151617181920212223242526272829303132333435363738394041424344454647484950515253545556575859606162636465666768697071727374757677 |
- /*
- * nvbio
- * Copyright (c) 2011-2014, NVIDIA CORPORATION. All rights reserved.
- *
- * Redistribution and use in source and binary forms, with or without
- * modification, are permitted provided that the following conditions are met:
- * * Redistributions of source code must retain the above copyright
- * notice, this list of conditions and the following disclaimer.
- * * 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.
- * * Neither the name of the NVIDIA CORPORATION 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 NVIDIA CORPORATION 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.
- */
- #pragma once
- #include <nvbio/basic/timer.h>
- #include <nvbio/basic/cuda/timer.h>
- #include <cuda_runtime.h>
- namespace nvbio {
- namespace bowtie2 {
- namespace cuda {
- inline void optional_device_synchronize()
- {
- #if DO_OPTIONAL_SYNCHRONIZE
- cudaDeviceSynchronize();
- #endif
- }
- #if DO_DEVICE_TIMING
- typedef nvbio::cuda::Timer DeviceTimer;
- #else
- typedef nvbio::FakeTimer DeviceTimer;
- #endif
- // convert a range from a [begin,last] representation to a [begin,end) one
- NVBIO_FORCEINLINE NVBIO_HOST_DEVICE
- uint2 inclusive_to_exclusive(const uint2 range) { return make_uint2( range.x, range.y + 1u ); }
- #ifdef __CUDACC__
- // alloc some slots from a counter using a warp-synchronous reduction
- NVBIO_FORCEINLINE NVBIO_DEVICE uint32 alloc(uint32* counter, volatile uint32 *warp_broadcast)
- {
- #if USE_WARP_SYNCHRONOUS_QUEUES
- const uint32 mask = __ballot( true );
- const uint32 pop_scan = __popc( mask << (32u - warp_tid()) );
- const uint32 pop_count = __popc( mask );
- if (pop_scan == 0)
- *warp_broadcast = atomicAdd( counter, pop_count );
- return *warp_broadcast + pop_scan;
- #else
- return atomicAdd( counter, 1u );
- #endif
- }
- #endif // __CUDACC__
- } // namespace cuda
- } // namespace bowtie2
- } // namespace nvbio
|