Orbax is a namespace providing common utility libraries for JAX users. Orbax also includes a serialization library for JAX users, enabling the exporting of JAX models to the TensorFlow SavedModel format.

Python front-end in charge of orchestrating the execution a Melissa based study. It automatically handles large-scale scheduler interactions in OpenMPI and with common cluster schedulers (e.g. slurm or OAR).

TensorStore is a C++ and Python software library designed for storage and manipulation of large multi-dimensional arrays that:

• Provides advanced, fully composable indexing operations and virtual views.

• Provides a uniform API for reading and writing multiple array formats, including zarr and N5.

• Natively supports multiple storage systems, such as local and network filesystems, Google Cloud Storage, Amazon S3-compatible object stores, HTTP servers, and in-memory storage.

• Offers an asynchronous API to enable high-throughput access even to high-latency remote storage.

• Supports read caching and transactions, with strong atomicity, isolation, consistency, and durability (ACID) guarantees.

• Supports safe, efficient access from multiple processes and machines via optimistic concurrency.

This package provides a Python library for outlier and anomaly detection, integrating classical and deep learning techniques .

This package is an integration module of Optuna, an automatic Hyperparameter optimization software framework. The modules in this package provide users with extended functionalities for Optuna in combination with third-party libraries such as PyTorch, sklearn, and TensorFlow.

Melissa is a file-avoiding, adaptive, fault-tolerant and elastic framework, to run large-scale sensitivity analysis or deep-surrogate training on supercomputers. This package builds the API used when instrumenting the clients.

This package provides a library for sending commands and receiving replies to and from a Redis server. It comes with a synchronous API, asynchronous API and reply parsing API. Only the binary-safe Redis protocol is supported.

Geomstats is an open-source Python package for computations, statistics, and machine learning on nonlinear manifolds. Data from many application fields are elements of manifolds. For instance, the manifold of 3D rotations SO(3) naturally appears when performing statistical learning on articulated objects like the human spine or robotics arms. Likewise, shape spaces modeling biological shapes or other natural shapes are manifolds.

Haiku is a simple neural network library for JAX. It is developed by some of the authors of Sonnet, a neural network library for TensorFlow.

DBCSR is a library designed to efficiently perform sparse matrix-matrix multiplication, among other operations. It is MPI and OpenMP parallel and can exploit Nvidia and AMD GPUs via CUDA and HIP.

DOLFINx is the computational environment of FEniCSx and implements the FEniCS Problem Solving Environment in C++ and Python.

This package provides the Python interface.

FFCx is a compiler for finite element variational forms.

From a high-level description of the form in the UFL, it generates efficient low-level C code that can be used to assemble the corresponding discrete operator (tensor). In particular, a bilinear form may be assembled into a matrix and a linear form may be assembled into a vector.

This package provides the CLI and Python library.

Library implementing Block-GMres with Inexact Breakdown and Deflated Restarting, Breakdown Free Block Conjudate Gradiant, Block General Conjugate Residual and Block General Conjugate Residual with Inner Orthogonalization and with inexact breakdown and deflated restarting.

FFCx is a compiler for finite element variational forms.

From a high-level description of the form in the UFL, it generates efficient low-level C code that can be used to assemble the corresponding discrete operator (tensor). In particular, a bilinear form may be assembled into a matrix and a linear form may be assembled into a vector.

This package provides the UFCx interface header.

Grace is a 2D plotting tool for the X Window System. It has a Motif-based GUI and a scripting language that includes curve fitting, analysis, and export capabilities.

The Linear Algebra PACKage (LAPACK) is a standard software library for numerical linear algebra. The objective of LAPACK++ is to provide a convenient, performance oriented API for development in the C++ language, that, for the most part, preserves established conventions, while, at the same time, takes advantages of modern C++ features, such as: namespaces, templates, exceptions, etc.

DOLFINx is the computational environment of FEniCSx and implements the FEniCS Problem Solving Environment in C++ and Python.

This package provides the C++ interface.

CDT is a C++ library for generating constraint or conforming Delaunay triangulations.

Basix is a finite element definition and tabulation runtime library.

Basix allows users to:

• evaluate finite element basis functions and their derivatives at a set of points;

• access geometric and topological information about reference cells;

• apply push forward and pull back operations to map data between a reference cell and a physical cell;

• permute and transform DOFs to allow higher-order elements to be use on arbitrary meshes;

• interpolate into and between finite element spaces.

Basix includes a range of built-in elements, and also allows the user to define their own custom elements.

This package provides the Python wrapper for Basix.

The Basic Linear Algebra Subprograms (BLAS) have been around for many decades and serve as the de facto standard for performance-portable and numerically robust implementation of essential linear algebra functionality. The objective of BLAS++ is to provide a convenient, performance oriented API for development in the C++ language, that, for the most part, preserves established conventions, while, at the same time, takes advantages of modern C++ features, such as: namespaces, templates, exceptions, etc.

The Unified Form Language (UFL) is a domain specific language for declaration of finite element discretizations of variational forms. More precisely, it defines a flexible interface for choosing finite element spaces and defining expressions for weak forms in a notation close to mathematical notation.

Plastimatch is a computer software application which has been designed for volumetric (usually medical) image processing and radiation therapy applications. It can be used for the following purposes:

• Deformable registration

• Atlas-based segmentation

• Image conversion and manipulation

• Vector field conversion and manipulation

• Gamma analysis

• Dose calculation

• Registration analysis (Jacobian)

• Segmentation analysis (Dice, Hausdorff)

A prerequisite for sharing magnetic resonance (imaging) reconstruction algorithms and code is a common raw data format. The ISMRMRD project describes such a common raw data format, which attempts to capture the data fields that are required to describe the magnetic resonance experiment with enough detail to reconstruct images. This package provides a C/C++ library for working with the format.