- Oct 04, 2018
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Benjamin Cumming authored
Extend the ring benchmark to have an optional number of synapses attached to each cell, instead of a fixed count of one synapse per cell. This doesn't change the behavior of the model: only the first synapse is used for communication. The other synapses only effect is to increase the per-cell computational overheads, to more effectively mimic real world performance.
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- Oct 03, 2018
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Fixes an error in vectorized kernels that sees the incorrect index passed to PROCEDURE calls. The loop index variable was being passed, instead of the pack of vector indexes. Fixes #609
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- Oct 01, 2018
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Add CMake options for V100 support. fixes #605
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Updates the install docs. Fixes #604
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changes: - .travis.yml: - added matrix for different osx's, since enumeration style only works for `env` and `compiler` - scripts/travis/build.sh: - changed getting compiler version from ``${CXX} -dumpversion`` to ``${CXX} --version | grep -m1 ""`` - added `--oversubscribe` flag to `mpiexec` on Mac to allow more processes on a node than processing elements - added `--mca btl tcp,self` flag for Open MPI to use the "tcp" and "self" BTLs for transporting MPI messages on Mac -
Fixes #603. * Clear exception pointer in exception_state helper class after move of state. * Rename exception_state::get() method to reset(). * Call std::terminate() if task_group is destroyed before tasks are collected with wait(). * Do not attempt to collect tasks in destructor for task_group. * Do not attempt to rethrow exception in destructor for exception_state. * Add unit test to verify correct exception behaviour when a task_group is runs and waits on a series of tasks. * Add unit test for terminate behaviour as above. Code quality fix ups: * Remove unused warning variable warning in threading exception tests. * Address if-statement spacing in threading.hpp. * Use ARB_HAVE_MPI in execution_context.cpp instead of introducing a dependency on generated version header via feature macro ARB_MPI_ENABLED.
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- Sep 26, 2018
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Propagate exceptions generated in `task_group` tasks on different threads in the threading backend, so that they are thrown on the main thread on `task_group.wait()`. Add tests that verify that exceptions are propagated correctly. Fixes #310.
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- Sep 19, 2018
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- Sep 18, 2018
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- Sep 17, 2018
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Dry-run mode: * An implementation of distributed_context that is used to mimic the performance of running an MPI distributed simulation with n ranks. * Verifiable against an MPI run with the same parameters. Implementation: * Describe the model on a single domain (tile) and translate it to however many domains we want to mimic using arb::tile and arb::symmetric_recipe. This allows us to know the exact behavior of the entire system by only running the simulation on a single node. * Mimic communication between domains using arb::dry_run_context Example: * dryrun in example/ is a verifiable example of using dry-run mode with mc_cells Other: * Documentation of dry-run mode * unit test for dry_run_context
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- Sep 07, 2018
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fixes #591
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Benjamin Cumming authored
Turns out that CMake thinks Clang and AppleClang are different things.
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- Sep 06, 2018
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Fixes #587. * Eliminate Clang warnings from GCC-tree-optimization bug work-around. * Error with static-assert if simd type is used with a missing simd abi. * Clarify install documentation regarding use of ARB_VECTORIZE with ARB_ARCH.
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- Sep 05, 2018
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Fixes #584. * Add CUDA compile guard generator expression to architecture options iff CUDA is an enabled language.
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Benjamin Cumming authored
Fixes #584.
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- Sep 01, 2018
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Remove redundant profiler calls that caused crashes when using event generators.
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- Aug 30, 2018
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Benjamin Cumming authored
Make the execution context presented to users an opaque handle, moving all implementation of the gpu, thread and distributed contexts into the back end. * move `execution_context` and `distributed_context` definitions to the back end * create `execution_context` handle called `context` in the public API * provide `make_context` helper functions that build different context configurations (default, user-specified local resources, with MPI) * update documentation for all parts of the public API that touch contexts * move `distributed_context` docs to the developer documentation (from the public API docs)
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- Aug 29, 2018
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Fixes #575. * Guard CPU architecture option for nvcc with generator expression.
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- Aug 24, 2018
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* Add new ring benchmark to examples. * Refactored common functionality for reading miniapp parameters from a json file to `aux` (used by both bench and ring). Fixes #516.
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Benjamin Cumming authored
Move implementation of `gpu_context` from header to `cpp` file, so that `ARB_WITH_CUDA` doesn't leak from library implementation.
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- Aug 22, 2018
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* Add gpu_context as part of execution context containing information about GPU availability, managed_memory synchronization, and atomic double availability. * Choose between ON and OFF for ARB_GPU in CMake. If ON compile for K20, K80, and P100 Note that we still need compile time information about the GPU in cuda_atomic.hpp for atomicAdd(double*, double*). This is because the function is only defined when the program is compiled for sm_60 or more.
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Fixes #568.
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Fixes #564
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Use a compat::fma wrapper for std::fma to avoid a bug in the tree optimizer in GCC version < 8.2. See: https://gcc.gnu.org/bugzilla/show_bug.cgi?id=87046 Fixes #568.
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- Aug 20, 2018
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Global temperature for mechanisms. * Make 'celsius' magic in modcc: now an indexed variable. * Add a new temperature data source for indexed variables. * Add support to printers for indexed variables that reference a scalar. * Check that indexed variables aren't used in PROCEDURE blocks (this is a problem not just for 'celsius'). * Modify built-in mod files to pass celsius as a parameter to rates() procedures. * Add global temperature to shared_state classes, and initialize through backend mechanism superclasses. * Add some infrastructure for unit-test only mechanisms. * Set modcc flags globally in top level CMakeLists.txt. * Add test mechanism/module for checking celsius setting. * Add unit test for multicore and gpu mechanism celsius setting. * Make common mechanism private field data access helper for unit tests. * Use helper in temperature, synapses tests. * Fix warning in `distribued_context.hpp` about errant semicolon. * Fix global scal...
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- Aug 06, 2018
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Sam Yates authored
Two MacPorts/gcc7 issues: std::uint64_t is unsigned long long on OS X, breaking an assumption about size_t in the distributed_context interface. Problems with missing errno defines in the standard library headers. With MacPorts gcc7, the installed c++config.h defines _GLIBCXX_HAVE_EOWNERDEAD and _GLIBCXX_HAVE_ENOTRECOVERABLE, but the corresponding errno defines are not provided by sys/errno.h unless __DARWIN_C_SOURCE, which takes its value from _POSIX_C_SOURCE if defined, is greater than or equal to 200809L. Technically a MacPorts configuration bug? but easily worked around. Use basic integral types for communication collectives interfaces. Define _POSIX_C_SOURCE to be 200809L for glob.cpp. Fixes #562.
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- Jul 31, 2018
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Sam Yates authored
* Remove dependency on memory library and range utils from `multi_event_stream.cu` source. Fixes #545
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* Replace distributed_contest with shared_ptr<distributed_context> in execution_context and pass around the shared pointer instead of a raw pointer. * Fix construction of mpi_context * Remove num_threads() from arb and arb::threading. Modify mpi_context so it also returns a shared_ptr. proc_allocation is initialized from execution context to determine available resources. * Rename threading backend files. Delete useless files. * Pass execution_context by const reference or value. * Remove code duplication in thread_system constructors.
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- Jul 26, 2018
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* Update the install docs for architecture build options * Update to reflect new install target
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Sam Yates authored
Reduce redundant functionality across event_generator, time_seq and schedule by providing a low-heap overhead interface to schedule and using that for time sequences in event_generator and specialized cell groups. * Have schedule return pair of pointers as view to generated times. * Fix missing DEBUG/TRACE functionality. * Use rate instead of mean_dt for Poisson schedule. * Move merge_events() functionality to simulator.cpp. * Migrate event_generator to event span interface. * Migrate tourney_tree to event span interface. * Only invoke tourney_tree merge if generators have events in the epoch. * Use schedule for times in event_generator implementations. * Replace seq_generator with explicit_generator that keeps a copy of events. * Replace vector_backed_generator and poisson_generator with schedule_generator. * Replace time_seq uses with schedule. * Add default empty schedule. * Move rounding error test for regular time sequence into sch...
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Use correct profiling and mpi flags. Fix profiler doc
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- Jul 25, 2018
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Benjamin Cumming authored
This small refactor simplifies the interface and implementation of the `tree` type. * use `std::vector` instead of `memory::array` for internal storage in `arb::tree` * return a `util::range` intstead of a view for `tree::children(int)` * remove unused functionality for changing the root of a tree.
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Add initialize method to the profiler to set up the needed threading parameters given a simulation's task system.
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- Jul 24, 2018
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- Task system is no longer a single system private to the implementation of the threading backend and used everywhere. A separate task_system can be used (with a specified number of threads) for every simulation. - arb::execution_context is the interface to task_system and the previously defined distributed_context - TBB and serial support has been removed. Cthreads is the only threading backend available.
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- Jul 20, 2018
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Sam Yates authored
Fixes #139. * Split colours and `pprintf(...)` into `io/pprintf.hpp` header. * Remove generic `to_string()` function, replacing its very occasional usage with `pprintf`. * Move block pretty printing into own .cpp file; this is the only place that the vector ostream printer was used. * Remove `enum_hash`, as not needed with C++14. * Move `is_in` utility function to `util.hpp`. * Remove old SIMD printer backend code.
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* Perform device-to-device copy when device_reference is assigned a device_reference.
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Benjamin Cumming authored
Better error message on missing file.
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Sam Yates authored
* Don't call a missing file an 'internal compiler error'.
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- Jul 19, 2018
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Cthreads classes: - Notification queue : Manages tasks: tries or forces popping and pushing tasks. - Task system : manages the notifications queues; controls which queue to pop from/push to; controls spinning on queues if necessary; manages creating/joining threads. Is a singleton. - Task group : manages synchronization on a group of tasks. Operation: - Each thread has an associated queue - Task system _tries to_ push tasks in one of the available queues. If it is unable to acquire a lock on a queue, it tries the next in a round robin fashion. After it loops all queues if it still hasn't successfully pushed the task, it spins on a single queue until lock is acquired and task is pushed. - Task system _tries to_ pop a task from the calling thread's queue. If it is unable to acquire the lock, it tries to steal the task from another thread's queue, in a round robin loop. If it is still unable to pop a task, it spins on its the c...
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- Jul 13, 2018
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