Diffusion akantu (features/changes-to-address-joss-review) Browse

changes-to…

communicator_mpi_inline_impl.hh
View Options

			/**
			* @file communicator_mpi_inline_impl.hh
			*
			* @author Nicolas Richart <nicolas.richart@epfl.ch>
			*
			* @date creation: Tue Nov 07 2017
			* @date last modification: Mon Dec 18 2017
			*
			* @brief StaticCommunicatorMPI implementation
			*
			*
			* Copyright (©) 2016-2018 EPFL (Ecole Polytechnique Fédérale de Lausanne)
			* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
			*
			* Akantu is free software: you can redistribute it and/or modify it under the
			* terms of the GNU Lesser General Public License as published by the Free
			* Software Foundation, either version 3 of the License, or (at your option) any
			* later version.
			*
			* Akantu is distributed in the hope that it will be useful, but WITHOUT ANY
			* WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR
			* A PARTICULAR PURPOSE. See the GNU Lesser General Public License for more
			* details.
			*
			* You should have received a copy of the GNU Lesser General Public License
			* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
			*
			*/

			/* -------------------------------------------------------------------------- */
			#include "aka_iterators.hh"
			#include "communicator.hh"
			#include "mpi_communicator_data.hh"
			/* -------------------------------------------------------------------------- */
			#include <memory>
			#include <type_traits>
			#include <unordered_map>
			#include <vector>
			/* -------------------------------------------------------------------------- */
			#include <mpi.h>
			/* -------------------------------------------------------------------------- */

			#if (defined(__GNUC__) \|\| defined(__GNUG__))
			#if AKA_GCC_VERSION < 60000
			namespace std {
			template <> struct hash<akantu::SynchronizerOperation> {
			using argument_type = akantu::SynchronizerOperation;
			size_t operator()(const argument_type & e) const noexcept {
			auto ue = underlying_type_t<argument_type>(e);
			return uh(ue);
			}

			private:
			const hash<underlying_type_t<argument_type>> uh{};
			};
			} // namespace std
			#endif
			#endif

			namespace akantu {

			class CommunicationRequestMPI : public InternalCommunicationRequest {
			public:
			CommunicationRequestMPI(UInt source, UInt dest)
			: InternalCommunicationRequest(source, dest),
			request(std::make_unique<MPI_Request>()) {}
			MPI_Request & getMPIRequest() { return *request; };

			private:
			std::unique_ptr<MPI_Request> request;
			};

			namespace {
			template <typename T> inline MPI_Datatype getMPIDatatype();
			MPI_Op getMPISynchronizerOperation(SynchronizerOperation op) {
			std::unordered_map<SynchronizerOperation, MPI_Op> _operations{
			{SynchronizerOperation::_sum, MPI_SUM},
			{SynchronizerOperation::_min, MPI_MIN},
			{SynchronizerOperation::_max, MPI_MAX},
			{SynchronizerOperation::_prod, MPI_PROD},
			{SynchronizerOperation::_land, MPI_LAND},
			{SynchronizerOperation::_band, MPI_BAND},
			{SynchronizerOperation::_lor, MPI_LOR},
			{SynchronizerOperation::_bor, MPI_BOR},
			{SynchronizerOperation::_lxor, MPI_LXOR},
			{SynchronizerOperation::_bxor, MPI_BXOR},
			{SynchronizerOperation::_min_loc, MPI_MINLOC},
			{SynchronizerOperation::_max_loc, MPI_MAXLOC},
			{SynchronizerOperation::_null, MPI_OP_NULL}};
			return _operations[op];
			}

			template <typename T> MPI_Datatype inline getMPIDatatype() {
			return MPI_DATATYPE_NULL;
			}

			#define SPECIALIZE_MPI_DATATYPE(type, mpi_type) \
			template <> MPI_Datatype inline getMPIDatatype<type>() { return mpi_type; }

			#define COMMA ,
			SPECIALIZE_MPI_DATATYPE(char, MPI_CHAR)
			SPECIALIZE_MPI_DATATYPE(std::uint8_t, MPI_UINT8_T)
			SPECIALIZE_MPI_DATATYPE(float, MPI_FLOAT)
			SPECIALIZE_MPI_DATATYPE(double, MPI_DOUBLE)
			SPECIALIZE_MPI_DATATYPE(long double, MPI_LONG_DOUBLE)
			SPECIALIZE_MPI_DATATYPE(signed int, MPI_INT)
			SPECIALIZE_MPI_DATATYPE(unsigned int, MPI_UNSIGNED)
			SPECIALIZE_MPI_DATATYPE(signed long int, MPI_LONG)
			SPECIALIZE_MPI_DATATYPE(unsigned long int, MPI_UNSIGNED_LONG)
			SPECIALIZE_MPI_DATATYPE(signed long long int, MPI_LONG_LONG)
			SPECIALIZE_MPI_DATATYPE(unsigned long long int, MPI_UNSIGNED_LONG_LONG)
			SPECIALIZE_MPI_DATATYPE(SCMinMaxLoc<double COMMA int>, MPI_DOUBLE_INT)
			SPECIALIZE_MPI_DATATYPE(SCMinMaxLoc<float COMMA int>, MPI_FLOAT_INT)
			SPECIALIZE_MPI_DATATYPE(bool, MPI_CXX_BOOL)

			template <> MPI_Datatype inline getMPIDatatype<NodeFlag>() {
			return getMPIDatatype<std::underlying_type_t<NodeFlag>>();
			}

			inline int getMPISource(int src) {
			if (src == _any_source) {
			return MPI_ANY_SOURCE;
			}
			return src;
			}

			decltype(auto) convertRequests(std::vector<CommunicationRequest> & requests) {
			std::vector<MPI_Request> mpi_requests(requests.size());

			for (auto && request_pair : zip(requests, mpi_requests)) {
			auto && req = std::get<0>(request_pair);
			auto && mpi_req = std::get<1>(request_pair);
			mpi_req = aka::as_type<CommunicationRequestMPI>(req.getInternal())
			.getMPIRequest();
			}
			return mpi_requests;
			}

			} // namespace

			// this is ugly but shorten the code a lot
			#define MPIDATA \
			(reinterpret_cast<MPICommunicatorData >(communicator_data.get()))

			/* -------------------------------------------------------------------------- */
			/* Implementation */
			/* -------------------------------------------------------------------------- */

			/* -------------------------------------------------------------------------- */
			Communicator::Communicator(int & /argc/, char *& /argv*/,
			const private_member & m)
			: Communicator(m) {}

			/* -------------------------------------------------------------------------- */
			Communicator::Communicator(const private_member & /unused/)
			: communicator_data(std::make_unique<MPICommunicatorData>()) {
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			void Communicator::sendImpl(const T * buffer, Int size, Int receiver, Int tag,
			const CommunicationMode & mode) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			MPI_Datatype type = getMPIDatatype<T>();

			switch (mode) {
			case CommunicationMode::_auto:
			MPI_Send(buffer, size, type, receiver, tag, communicator);
			break;
			case CommunicationMode::_synchronous:
			MPI_Ssend(buffer, size, type, receiver, tag, communicator);
			break;
			case CommunicationMode::_ready:
			MPI_Rsend(buffer, size, type, receiver, tag, communicator);
			break;
			}
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			void Communicator::receiveImpl(T * buffer, Int size, Int sender,
			Int tag) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			MPI_Status status;
			MPI_Datatype type = getMPIDatatype<T>();
			MPI_Recv(buffer, size, type, getMPISource(sender), tag, communicator,
			&status);
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			CommunicationRequest
			Communicator::asyncSendImpl(const T * buffer, Int size, Int receiver, Int tag,
			const CommunicationMode & mode) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			auto * request = new CommunicationRequestMPI(whoAmI(), receiver);
			MPI_Request & req = request->getMPIRequest();

			MPI_Datatype type = getMPIDatatype<T>();

			switch (mode) {
			case CommunicationMode::_auto:
			MPI_Isend(buffer, size, type, receiver, tag, communicator, &req);
			break;
			case CommunicationMode::_synchronous:
			MPI_Issend(buffer, size, type, receiver, tag, communicator, &req);
			break;
			case CommunicationMode::_ready:
			MPI_Irsend(buffer, size, type, receiver, tag, communicator, &req);
			break;
			}
			return std::shared_ptr<InternalCommunicationRequest>(request);
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			CommunicationRequest Communicator::asyncReceiveImpl(T * buffer, Int size,
			Int sender, Int tag) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			auto * request = new CommunicationRequestMPI(sender, whoAmI());
			MPI_Datatype type = getMPIDatatype<T>();

			MPI_Request & req = request->getMPIRequest();
			MPI_Irecv(buffer, size, type, getMPISource(sender), tag, communicator, &req);
			return std::shared_ptr<InternalCommunicationRequest>(request);
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			void Communicator::probe(Int sender, Int tag,
			CommunicationStatus & status) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			MPI_Status mpi_status;
			MPI_Probe(getMPISource(sender), tag, communicator, &mpi_status);

			MPI_Datatype type = getMPIDatatype<T>();
			int count;
			MPI_Get_count(&mpi_status, type, &count);

			status.setSource(mpi_status.MPI_SOURCE);
			status.setTag(mpi_status.MPI_TAG);
			status.setSize(count);
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			bool Communicator::asyncProbe(Int sender, Int tag,
			CommunicationStatus & status) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			MPI_Status mpi_status;
			int test;
			MPI_Iprobe(getMPISource(sender), tag, communicator, &test, &mpi_status);

			if (not test) {
			return false;
			}

			MPI_Datatype type = getMPIDatatype<T>();
			int count;
			MPI_Get_count(&mpi_status, type, &count);

			status.setSource(mpi_status.MPI_SOURCE);
			status.setTag(mpi_status.MPI_TAG);
			status.setSize(count);
			return true;
			}

			/* -------------------------------------------------------------------------- */
			bool Communicator::test(CommunicationRequest & request) {
			MPI_Status status;
			int flag;
			auto & req_mpi = aka::as_type<CommunicationRequestMPI>(request.getInternal());

			MPI_Request & req = req_mpi.getMPIRequest();
			MPI_Test(&req, &flag, &status);

			return flag != 0;
			}

			/* -------------------------------------------------------------------------- */
			bool Communicator::testAll(std::vector<CommunicationRequest> & requests) {
			// int are_finished;
			// auto && mpi_requests = convertRequests(requests);
			// MPI_Testall(mpi_requests.size(), mpi_requests.data(), &are_finished,
			// MPI_STATUSES_IGNORE);
			// return are_finished;
			for (auto & request : requests) {
			if (not test(request)) {
			return false;
			}
			}
			return true;
			}

			/* -------------------------------------------------------------------------- */
			void Communicator::wait(CommunicationRequest & request) {
			MPI_Status status;
			auto & req_mpi = aka::as_type<CommunicationRequestMPI>(request.getInternal());
			MPI_Request & req = req_mpi.getMPIRequest();
			MPI_Wait(&req, &status);
			}

			/* -------------------------------------------------------------------------- */
			void Communicator::waitAll(std::vector<CommunicationRequest> & requests) {
			auto && mpi_requests = convertRequests(requests);
			MPI_Waitall(mpi_requests.size(), mpi_requests.data(), MPI_STATUSES_IGNORE);
			}

			/* -------------------------------------------------------------------------- */
			UInt Communicator::waitAny(std::vector<CommunicationRequest> & requests) {
			auto && mpi_requests = convertRequests(requests);

			int pos;
			MPI_Waitany(mpi_requests.size(), mpi_requests.data(), &pos,
			MPI_STATUSES_IGNORE);

			if (pos != MPI_UNDEFINED) {
			return pos;
			}
			return UInt(-1);
			}

			/* -------------------------------------------------------------------------- */
			void Communicator::barrier() const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			MPI_Barrier(communicator);
			}

			/* -------------------------------------------------------------------------- */
			CommunicationRequest Communicator::asyncBarrier() const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			auto * request = new CommunicationRequestMPI(0, 0);

			MPI_Request & req = request->getMPIRequest();
			MPI_Ibarrier(communicator, &req);

			return std::shared_ptr<InternalCommunicationRequest>(request);
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			void Communicator::reduceImpl(T * values, int nb_values,
			SynchronizerOperation op, int root) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			MPI_Datatype type = getMPIDatatype<T>();

			MPI_Reduce(MPI_IN_PLACE, values, nb_values, type,
			getMPISynchronizerOperation(op), root, communicator);
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			void Communicator::allReduceImpl(T * values, int nb_values,
			SynchronizerOperation op) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			MPI_Datatype type = getMPIDatatype<T>();

			MPI_Allreduce(MPI_IN_PLACE, values, nb_values, type,
			getMPISynchronizerOperation(op), communicator);
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			void Communicator::scanImpl(T * values, T * result, int nb_values,
			SynchronizerOperation op) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			MPI_Datatype type = getMPIDatatype<T>();

			if (values == result) {
			values = reinterpret_cast<T *>(MPI_IN_PLACE);
			}

			MPI_Scan(values, result, nb_values, type, getMPISynchronizerOperation(op),
			communicator);
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			void Communicator::exclusiveScanImpl(T * values, T * result, int nb_values,
			SynchronizerOperation op) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			MPI_Datatype type = getMPIDatatype<T>();

			if (values == result) {
			values = reinterpret_cast<T *>(MPI_IN_PLACE);
			}

			MPI_Exscan(values, result, nb_values, type, getMPISynchronizerOperation(op),
			communicator);

			if (whoAmI() == 0) {
			result[0] = T();
			}
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			void Communicator::allGatherImpl(T * values, int nb_values) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			MPI_Datatype type = getMPIDatatype<T>();

			MPI_Allgather(MPI_IN_PLACE, nb_values, type, values, nb_values, type,
			communicator);
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			void Communicator::allGatherVImpl(T * values, int * nb_values) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			std::vector<int> displs(getNbProc());
			displs[0] = 0;
			for (int i = 1; i < getNbProc(); ++i) {
			displs[i] = displs[i - 1] + nb_values[i - 1];
			}

			MPI_Datatype type = getMPIDatatype<T>();
			MPI_Allgatherv(MPI_IN_PLACE, *nb_values, type, values, nb_values,
			displs.data(), type, communicator);
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			void Communicator::gatherImpl(T * values, int nb_values, int root) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			T * send_buf = nullptr;
			T * recv_buf = nullptr;
			if (whoAmI() == root) {
			send_buf = (T *)MPI_IN_PLACE;
			recv_buf = values;
			} else {
			send_buf = values;
			}

			MPI_Datatype type = getMPIDatatype<T>();
			MPI_Gather(send_buf, nb_values, type, recv_buf, nb_values, type, root,
			communicator);
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			void Communicator::gatherImpl(T * values, int nb_values, T * gathered,
			int nb_gathered) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			T * send_buf = values;
			T * recv_buf = gathered;

			if (nb_gathered == 0) {
			nb_gathered = nb_values;
			}

			MPI_Datatype type = getMPIDatatype<T>();
			MPI_Gather(send_buf, nb_values, type, recv_buf, nb_gathered, type,
			whoAmI(), communicator);
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			void Communicator::gatherVImpl(T * values, int * nb_values, int root) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			int * displs = nullptr;
			auto psize = getNbProc();
			auto prank = whoAmI();
			if (prank == root) {
			displs = new int[psize];
			displs[0] = 0;
			for (int i = 1; i < psize; ++i) {
			displs[i] = displs[i - 1] + nb_values[i - 1];
			}
			}

			T * send_buf = nullptr;
			T * recv_buf = nullptr;
			if (prank == root) {
			send_buf = (T *)MPI_IN_PLACE;
			recv_buf = values;
			} else {
			send_buf = values;
			}

			MPI_Datatype type = getMPIDatatype<T>();

			MPI_Gatherv(send_buf, *nb_values, type, recv_buf, nb_values, displs, type,
			root, communicator);

			if (prank == root) {
			delete[] displs;
			}
			}

			/* -------------------------------------------------------------------------- */
			template <typename T>
			void Communicator::broadcastImpl(T * values, int nb_values, int root) const {
			MPI_Comm communicator = MPIDATA.getMPICommunicator();
			MPI_Datatype type = getMPIDatatype<T>();
			MPI_Bcast(values, nb_values, type, root, communicator);
			}

			/* -------------------------------------------------------------------------- */
			int Communicator::getMaxTag() const { return MPIDATA.getMaxTag(); }
			int Communicator::
			getMinTag() // NOLINT(readability-convert-member-functions-to-static)
			const {
			return 0;
			}
			/* -------------------------------------------------------------------------- */
			Int Communicator::getNbProc() const { return MPIDATA.size(); }
			Int Communicator::whoAmI() const { return MPIDATA.rank(); }

			} // namespace akantu

rAKA/src/synchronizer/communicator_mpi_inline_impl.hh1a7b1e2153f4features/changes-to…

communicator_mpi_inline_impl.hhView Options

rAKA/src/synchronizer/communicator_mpi_inline_impl.hh
1a7b1e2153f4features/changes-to…

communicator_mpi_inline_impl.hh
View Options