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StarPU is a run-time system that offers support for heterogeneous multicore machines. While many efforts are devoted to design efficient computation kernels for those architectures (e.g. to implement BLAS kernels on GPUs), StarPU not only takes care of offloading such kernels (and implementing data coherency across the machine), but it also makes sure the kernels are executed as efficiently as possible.
SCOTCH is a set of programs and libraries which implement the static mapping and sparse matrix reordering algorithms developed within the SCOTCH project. Its purpose is to apply graph theory, with a divide and conquer approach, to scientific computing problems such as graph and mesh partitioning, static mapping, and sparse matrix ordering, in application domains ranging from structural mechanics to operating systems or bio-chemistry.
SCOTCH is a set of programs and libraries which implement the static mapping and sparse matrix reordering algorithms developed within the SCOTCH project. Its purpose is to apply graph theory, with a divide and conquer approach, to scientific computing problems such as graph and mesh partitioning, static mapping, and sparse matrix ordering, in application domains ranging from structural mechanics to operating systems or bio-chemistry.
TopoMatch leverages on the Scotch library to handle any type of topologies and not only trees. Its main features are: - Handling any type of topologies (tgt Scotch format or hwloc format). - Handle large communication patterns (up to hundreds of thousands of processes and processing units) . - Manage binding constraints: you can specify a subset of the node onto which you want to do the mapping. - Manage oversubscribing: you can specify that more than one processes can be mapped onto a each processing unit. - Deal with logical numbering. Physical core numbering can be used with XML/HWLOC topologies. - Provide exhaustive search for small cases. - Adaptive algorithmic that provide a good trade-off between quality and speed. - Crucial sections of the code are multithreaded. - Optimize I/O to read large input files. - Portable on Unix-like systems (Linux, OS-X, etc.). - Many useful options (level of verbosity, topology optimization, partitioning, etc.).
IOR is a parallel IO benchmark that can be used to test the performance of parallel storage systems using various interfaces and access patterns. The IOR repository also includes the mdtest benchmark which specifically tests the peak metadata rates of storage systems under different directory structures. Both benchmarks use a common parallel I/O abstraction backend and rely on MPI for synchronization.
Fypp is a Python powered preprocessor. It can be used for any programming languages but its primary aim is to offer a Fortran preprocessor, which helps to extend Fortran with condititional compiling and template metaprogramming capabilities. Instead of introducing its own expression syntax, it uses Python expressions in its preprocessor directives, offering the consistency and versatility of Python when formulating metaprogramming tasks. It puts strong emphasis on robustness and on neat integration into developing toolchains.
The open source library MpiFx provides modern Fortran (Fortran 2003) wrappers around routines of the MPI library to make their use as simple as possible. Currently several data distribution routines are covered.
With libNEGF you can calculate Equilibrium and Non Equilibrium Green's Function in open systems and related quantities, within an efficient sparse iterative scheme.
HDF5 is a suite that makes possible the management of extremely large and complex data collections.
BLT is a streamlined CMake-based foundation for Building, Linking and Testing large-scale high performance computing (HPC) application.
RAJA offers portable, parallel loop execution by providing building blocks that extend the generally-accepted parallel for idiom. RAJA relies on standard C++14 features.
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HDF5 tools for use by GEOS
Pugixml is a C++ XML processing library, which consists of a DOM-like interface with rich traversal/modification capabilities, a fast XML parser which constructs the DOM tree from an XML file/buffer, and an XPath 1.0 implementation for complex data-driven tree queries. Full Unicode support is also available, with Unicode interface variants and conversions between different Unicode encodings which happen automatically during parsing/saving.
MPI for Python (mpi4py) provides bindings of the Message Passing Interface (MPI) standard for the Python programming language, allowing any Python program to exploit multiple processors.
mpi4py is constructed on top of the MPI-1/MPI-2 specification and provides an object oriented interface which closely follows MPI-2 C++ bindings. It supports point-to-point and collective communications of any picklable Python object as well as optimized communications of Python objects (such as NumPy arrays) that expose a buffer interface.
The h5py package provides both a high- and low-level interface to the HDF5 library from Python. The low-level interface is intended to be a complete wrapping of the HDF5 API, while the high-level component supports access to HDF5 files, datasets and groups using established Python and NumPy concepts.
CAMP collects a variety of macros and metaprogramming facilities for C++ projects. It's in the direction of projects like metal (a major influence) but with a focus on wide compiler compatibility across HPC-oriented systems.
Caliper is a program instrumentation and performance measurement framework. It is a performance-analysis toolbox in a library, allowing one to bake performance analysis capabilities directly into applications and activate them at runtime. Caliper is primarily aimed at HPC applications, but works for any C/C++/Fortran program.
Adiak is a library for recording meta-data about HPC simulations. An HPC application code may, for example, record what user invoked it, the version of the code being run, a computed time history showing density changes, or how long the application spent performing file IO. Adiak represents this metadata as Name/Value pairs. Names are arbitrary strings, with some standardization, and the values are represented by a flexible dynamic type system
LvArray is a collection of container classes designed for performance portability in that they are usable on the host and device and provide performance similar to direct pointer manipulation
Segyio is a small LGPL licensed C library for easy interaction with SEG-Y and Seismic Unix formatted seismic data, with language bindings for Python and Matlab
Umpire is a resource management library that allows the discovery, provision, and management of memory on machines with multiple memory devices like NUMA and GPUs.
Conduit is a project from Lawrence Livermore National Laboratory that provides an intuitive model for describing hierarchical scientific data in C++, C, Fortran, and Python. It is used for data coupling between packages in-core, serialization, and I/O tasks.
Silo is a library for reading and writing a wide variety of scientific data to binary, disk files. The files Silo produces and the data within them can be easily shared and exchanged between wholly independently developed applications running on disparate computing platforms.