Debian Science Physics-dev packages

FEniCS est une collection de logiciels libres pour la résolution automatique et rapide d’équations différentielles.

FEniCS possède une longue liste de fonctions, comprenant entre autres, la résolution automatique de problèmes variationnels, le contrôle automatique d’erreur, une bibliothèque complète d’éléments finis, une algèbre linéaire hautement performante.

FEniCS est organisée sous forme de collection de composants interopérables, comprenant l’environnement DOLFIN de résolution de problème, le compilateur de formes FFC, le « tabulateur » pour les éléments finis FIAT, le compilateur en temps réel Instant, l’interface de génération de code UFC, le langage de formes UFL et une variété de composants supplémentaires.

Il s’agit d’un métapaquet dépendant de tous les composants de FEniCS.

Il s’agit de la version historique de FEniCS. L’installation de la nouvelle génération, FEniCS-X (paquet fenicx), est à envisager.

This library computes FFTs in one or more dimensions. It is extremely fast. This package contains the statically linked library and the header files.

La bibliothèque ASL (« Advanced Simulation Library » – bibliothèque de simulation évoluée) est une plateforme libre de simulation multiphysique accélérée matériellement et un outil généraliste extensible pour résoudre des équations aux dérivées partielles.

Son moteur de calcul est écrit en OpenCL et utilise des techniques de résolution sans matrices, ce qui permet des performances extraordinaires, une gestion de la mémoire efficace et déployabilité sur une variété d'architectures massivement parallèles, allant des FPGA, DSP et GPU peu onéreux jusqu'aux grappes et superordinateurs hétérogènes. Le moteur est entièrement caché derrière des classes C++ simples afin qu'aucune connaissance d'OpenCL ne soit requise par les programmeurs d'applications. L'approche sans maillage (« mesh-free ») et « immersed boundary » permet de passer de la CAO à la simulation en réduisant de façon drastique les efforts de prétraitement et le nombre d'erreurs potentielles.

ASL peut servir à modéliser divers phénomènes physiques et chimiques et être utilisé dans une multitude de domaines : mécanique des fluides numérique, détection virtuelle, validation et rapprochement de données de traitement industriel, chirurgie guidée par vidéo, ingénierie assistée par ordinateur, exploration d’alternatives de conception (DSE), cristallographie, etc.

Ce paquet fournit les fichiers de développement.

Computes FE basis functions and derivatives for the following elements:

• Lagrange (interval, triangle, tetrahedron, prism, pyramid, quadrilateral, hexahedron)
• Nédélec (triangle, tetrahedron)
• Nédélec Second Kind (triangle, tetrahedron)
• Raviart-Thomas (triangle, tetrahedron)
• Regge (triangle, tetrahedron)
• Crouzeix-Raviart (triangle, tetrahedron)

Computes quadrature rules on different cell types

Provides reference topology and geometry for reference cells of each type.

Python wrapper provided with pybind11.

This package installs the development files for the shared library.

deal.II is a C++ program library targeted at the computational solution of partial differential equations using adaptive finite elements. It uses state-of-the-art programming techniques to offer you a modern interface to the complex data structures and algorithms required.

This package contains the development files.

DOLFIN is the Python and C++ interface of the FEniCS project for the automated solution of differential equations, providing a consistent PSE (Problem Solving Environment) for solving ordinary and partial differential equations. Key features include a simple, consistent and intuitive object-oriented API; automatic and efficient evaluation of variational forms; automatic and efficient assembly of linear systems; and support for general families of finite elements.

This package contains the common development files and depends on the real or complex development package.

This is the next-generation version of libdolfinx-dev (DOLFIN-X). The legacy version of DOLFIN is provided by libdolfin-dev.

fclib is an open source collection of Frictional Contact (FC) problems stored in a specific HDF5 format, and an open source light implementation of Input/Output functions in C Language to read and write problems.

The goal of this work is to set up a collection of 2D and 3D Frictional Contact (FC) problems in order to set up a list of benchmarks; provide a standard framework for testing available and new algorithms; and share common formulations of problems in order to exchange data.

Fclib is an open-source scientific software primarily targeted at modeling and simulating nonsmooth dynamical systems

This package includes the libfclib development headers.

Provides the header files and static libraries.

Feel++ is a versatile finite element library to solve partial differential equations.

Support 1D, 2D, 3D

Support the following basic entities: simplices (segment, triangle, tetrahedron) and product of simplices (quadrangle, hexahedron)

Support various point sets on these basic entities: equispaced points, quadrature points, interpolation points (Gauss-Lobatto, Fekete, WarpBlend?)

Support continuous and discontinuous Galerkin methods

Support various polynomial sets:

• Lagrange(continuous,discontinuous,all dimensions,all interpolation point sets)

• Dubiner(discontinuous), boundary adapted(continuous)

• Legendre(discontinuous), boundary adapted(continuous)

Provide mathematical concept for higher order abstraction (Function spaces and associated elements, forms and operators)

Provide a language embedded in C++ for variational formulations, projection and numerical integration

La bibliothèque FFTW calcule les transformées de Fourier rapides (FFT) en une ou plusieurs dimensions. Elle est très rapide. Ce paquet fournit la bibliothèque statique liée, les fichiers d'en-tête et les programmes de test.

Ce paquet fournit les fichiers d'en-tête et les bibliothèques statiques. Pour la documentation, consultez libfftw3-doc.

NFFT3 is a software library written in C for computing nonequispaced fast Fourier and related transformations. In detail, NFFT3 implements:

1) The nonequispaced fast Fourier transform (NFFT)

• the forward transform (NFFT)
• the adjoint transform (adjoint NFFT)

2) Generalisations of the NFFT

• to arbitrary knots in time and frequency domain (NNFFT)
• to the sphere S^2 (NFSFT)
• to the hyperbolic cross (NSFFT)
• to real-valued data, i.e. (co)sine transforms, (NFCT, NFST)
• to the rotation group (NFSOFT)

3) Generalised inverses based on iterative methods, e.g. CGNR, CGNE

4) Applications in

• medical imaging (i) magnetic resonance imaging (ii) computerised tomography
• summation schemes (i) fast Gauss transform (FGT) (ii) singular kernels (iii) zonal kernels
• polar FFT, discrete Radon transform, ridgelet transform

This package provides the development files for the NFFT library.

OpenCTM — the Open Compressed Triangle Mesh file format — is a file format, a software library and a tool set for compression of 3D triangle meshes. The geometry is compressed to a fraction of comparable file formats, and the format is easily accessible through a simple, portable API.

This package contains the development files needed for compiling programs using OpenCTM.

The p4est software library enables the dynamic management of a collection of adaptive octrees, conveniently called a forest of octrees. p4est is designed to work in parallel and scale to hundreds of thousands of processor cores.

This package contains the development files.

A software tool for classical CFD, particle-based models and complex physical interaction, Palabos offers a powerful environment for your fluid flow simulations.

Through the innovative matrix-based interface, setting up a massively parallel simulation or developing a new physical model has become simpler than ever. The package contains development files.

SpFFT was originally intended for transforms of data with spherical cutoff in frequency domain, as required by some computational material science codes. For distributed computations, SpFFT uses a slab decomposition in space domain and pencil decomposition in frequency domain (all sparse data within a pencil must be on one rank). If desired, the library can be compiled without any parallelization (MPI, OpenMP, CUDA / ROCm).

This package contains development files.

Xray::Absorption supports access to X-ray absorption data. It is designed to be a transparent interface to absorption data from a variety of sources. Currently, the only sources of data are the 1969 McMaster tables, the 1999 Elam tables, the 1993 Henke tables, and the 1995 Chantler tables. The Brennan-Cowen implementation of the Cromer-Liberman tables is available as a drop-on-top addition to this package. More resources can be added easily.

Xray::Scattering supports access to X-ray scattering data for atoms and ions. It is designed to be a transparent interface to scattering data from a variety of sources. Currently, the only sources of data are the Cromer-Mann tables from the International Tables of Crystallography and the 1995 Waasmaier-Kirfel tables. More resources can be added easily.

Xray::SpaceGroup provides an object-oriented interface to a database of space group symmetries transcribed from volume A of the International Tables of Crystallography.

PyFAI is a Python library for azimuthal integration; it allows the conversion of diffraction images taken with 2D detectors like CCD cameras into X-Ray powder patterns that can be used by other software like Rietveld refinement tools (i.e. FullProf), phase analysis or texture analysis.

As PyFAI is a library, its main goal is to be integrated in other tools like PyMca, LiMa or EDNA. To perform online data analysis, the precise description of the experimental setup has to be known. This is the reason why PyFAI includes geometry optimization code working on "powder rings" of reference samples. Alternatively, PyFAI can also import geometries fitted with other tools like Fit2D.

PyFAI has been designed to work with any kind of detector with any geometry (transmission, reflection, off-axis, ...). It uses the Python library FabIO to read most images taken by diffractometer.

Computes FE basis functions and derivatives for the following elements:

• Lagrange (interval, triangle, tetrahedron, prism, pyramid, quadrilateral, hexahedron)
• Nédélec (triangle, tetrahedron)
• Nédélec Second Kind (triangle, tetrahedron)
• Raviart-Thomas (triangle, tetrahedron)
• Regge (triangle, tetrahedron)
• Crouzeix-Raviart (triangle, tetrahedron)

Computes quadrature rules on different cell types

Provides reference topology and geometry for reference cells of each type.

Python wrapper provided with pybind11.

This package installs the library for Python 3.

dmsh: "The worst mesh generator you'll ever use."

Inspired by distmesh, dmsh is slow, requires a lot of memory, and isn't terribly robust either.

On the plus side, it's got a usable interface, is pure Python (and hence easily installable on any system), and if it works, it produces pretty high-quality meshes.

Combined with optimesh, dmsh produces the highest-quality 2D meshes in the west.

Example capabilities:

• Primitives
• circle, rectangle, polygon
• halfspace
• Combinations
• difference
• nonconstant edge length
• union
• intersection
• Transformations
• rotation, translation, scaling
• Local refinement

DOLFIN is the Python and C++ interface of the FEniCS project for the automated solution of differential equations, providing a consistent PSE (Problem Solving Environment) for solving ordinary and partial differential equations. Key features include a simple, consistent and intuitive object-oriented API; automatic and efficient evaluation of variational forms; automatic and efficient assembly of linear systems; and support for general families of finite elements.

This is the base package depending on specific dolfin builds. By default the version built against the preferred version of PETSc in /usr/lib/petsc is selected (with 32-bit indexing, but the alternative version (64-bit PETSc) can be selected by setting the environment variable PETSC_DIR.

This is the legacy version of DOLFIN, you may want to install the next-generation python3-dolfinx (DOLFIN-X) instead.

DOLFIN is the Python and C++ interface of the FEniCS project for the automated solution of differential equations, providing a consistent PSE (Problem Solving Environment) for solving ordinary and partial differential equations. Key features include a simple, consistent and intuitive object-oriented API; automatic and efficient evaluation of variational forms; automatic and efficient assembly of linear systems; and support for general families of finite elements.

This is the next-generation version of libdolfinx-dev (DOLFIN-X). The legacy version of DOLFIN is provided by python3-dolfin.

This is a base package depending on the dolfinx packages with real or complex number support. By default the version built against the preferred version of PETSc in /usr/lib/petsc is selected, but the alternative version can be selected by setting the environment variable PETSC_DIR.

The FEniCS Form Compiler FFC provides state-of-the-art automatic and efficient evaluation of general multilinear forms (variational formulations) for FEniCS. FFC functions as the form evaluation system for DOLFIN but can also be used to compile forms for other systems.

FFC works as a compiler for multilinear forms by generating code (C or C++) for the evaluation of a multilinear form given in mathematical notation. This new approach to form evaluation makes it possible to combine generality with efficiency; the form can be given in mathematical notation and the generated code is as efficient as hand-optimized code.

This package installs the next-generation FFC-X library for Python 3.

Cette enveloppe de Python est conçue pour s’intégrer étroitement avec PyOpenCL. Elle consiste en une enveloppe de bas niveau basée sur Cython avec une interface similaire à la bibliothèque C sous-jacente. Et par-dessus tout, elle propose une interface de haut niveau conçue pour travailler sur des données contenues dans des instances de pyopencl.array.Array, une classe de tableau fonctionnant comme numpy pour des calculs de GPU. L’interface de haut niveau s’inspire quelque peu de pyFFTW. Pour des détails sur l’interface de haut niveau, consulter fft.py.

Ce paquet installe la bibliothèque pour Python 3.

Le paquet ltfatpy constitue un portage partiel en Python de LTFAT (Large Time/Frequency Analysis Toolbox), une boîte à outils pour MATLAB® ou Octave pour travailler sur l’analyse et la synthèse temps-fréquence.

Il est conçu comme outil éducatif et de calcul.

Ce paquet fournit un grand nombre de transformations linéaires incluant les transformées de Gabor avec des routines de construction de fenêtre (prototypes de filtre) et des routines pour manipuler les coefficients.

Ce paquet fournit les modules pour Python⋅3.

Compute all sorts of interesting points, areas, and volumes in triangular and tetrahedral meshes, with a focus on efficiency. Useful in many contexts, e.g., finite-element and finite-volume computations.

This package installs the library for Python 3.

When generating meshes for FEM/FVM computations, sometimes your geometry is so simple that you don't need a complex mesh generator (like pygmsh, MeshPy, mshr, pygalmesh, dmsh), but something simple and fast that makes use of the structure of the domain. Enter meshzoo.

Examples: Triangle, Rectangle, Regular polygon, Disk, Möbius strip, Sphere (surface), Ball (solid), Tube, Cube.

This package installs the module for Python 3.

Multiple-tau correlation is computed on a logarithmic scale (less data points are computed) and is thus much faster than conventional correlation on a linear scale such as numpy.correlate

An online reference is available at http://paulmueller.github.io/multipletau

This is the Python 3 version of the package

Pythonic wrapper around FFTW, the speedy FFT library. The ultimate aim is to present a unified interface for all the possible transforms that FFTW can perform.

Both the complex DFT and the real DFT are supported, as well as arbitrary axes of abitrary shaped and strided arrays, which makes it almost feature equivalent to standard and real FFT functions of numpy.fft (indeed, it supports the clongdouble dtype which numpy.fft does not).

pyFFTW is BSD-licensed and should not be confused with python-fftw, a GPL-licensed python module with the same aim of providing python bindings to FFTW3. Or python3-gpyfft, which provides bindings to the OpenCL FFT library clFFT.

This package provides the Python 3 bindings.

pygalmesh makes it easy to create high-quality 3D volume and surface meshes.

CGAL offers two different approaches for mesh generation:

• Meshes defined implicitly by level sets of functions.
• Meshes defined by a set of bounding planes.

pygalmesh provides a front-end to the first approach, which has the following advantages and disadvantages:

• All boundary points are guaranteed to be in the level set within any specified residual. This results in smooth curved surfaces.
• Sharp intersections of subdomains (e.g., in unions or differences of sets) need to be specified manually (via feature edges, see below), which can be tedious.

On the other hand, the bounding-plane approach (realized by mshr), has the following properties:

• Smooth, curved domains are approximated by a set of bounding planes, resulting in more of less visible edges.
• Intersections of domains can be computed automatically, so domain unions etc. have sharp edges where they belong.

pygalmesh and mshr are therefore complementary.

pygalmesh also interfaces CGAL's 3D periodic mesh generation.

This package installs the pygalmesh module for Python 3.

It also provides the utility scripts pygalmesh-from-inr and pygalmesh-volume-from-surface for generating volume meshes from INR or surface meshes.

This package provides Python bindings to the NFFT library, useful for performing Fourier transforms on non-uniformly sampled data with efficient speed. The bindings were generated using Cython and abstract the creation and execution of NFFT plans out using classes.

This package provides the Python 3 version of the bindings.

PyODE est un ensemble de liaisons au code source ouvert de Python pour ODE (Open Dynamics), un moteur physique au code source ouvert. PyODE fournit aussi un analyseur XODE.

Ce paquet fournit PyODE pour les versions de Python prises en charge.

Quantities is designed to handle arithmetic and conversions of physical quantities, which have a magnitude, dimensionality specified by various units, and possibly an uncertainty. Quantities builds on the popular numpy library and is designed to work with numpy ufuncs, many of which are already supported.

This library computes FFTs in one or more dimensions. It is extremely fast. This package contains the statically linked library and the header files.

Le projet Trilinos Project est une initiative pour développer des algorithmes et des technologies habilitantes dans un cadriciel orienté objet, pour résoudre des problèmes d’ingénierie multiphysique complexe et scientifiques de vaste ampleur. Une caractéristique unique de conception de Trilinos est son attention particulière aux paquets.

Ce paquet dépend de tous les paquets de développement pour Trilinos.

The Open Porous Media (OPM) software suite provides libraries and tools for modeling and simulation of porous media processes, especially for simulating CO2 sequestration and improved and enhanced oil recovery.

This package contains the shared buildsystem of all OPM modules, the headers for input, parsing, and output of files in Eclipse format, a format widely used in the reservoir simulation community, and generic utilities used in other OPM modules.

The Open Porous Media (OPM) software suite provides libraries and tools for modeling and simulation of porous media processes, especially for simulating CO2 sequestration and improved and enhanced oil recovery.

opm-grid provides implementations of grids for reservoir simulation, corner point or more general pillar grids, following the DUNE grid interface: CpGrid, a parallel corner point grid, and PolyhedralGrid a more general serial grid implementation of an unstructured, legacy, grid.

A standard grid type in the petroleum industry, corner-point grids fills the domain with a relatively low number of cells while still providing sufficient flexibility to model faults, fractures and erosion. The grid format was originally designed with an eye towards geological modeling rather than numerical simulation, but is still suitable for e.g. low order finite volume discretizations.

This package provides the development files for the grid implementations, i.e. the headers and shared library links.

The Open Porous Media (OPM) software suite provides libraries and tools for modeling and simulation of porous media processes, especially for simulating CO2 sequestration and improved and enhanced oil recovery.

This header-only library contains the generic code for calculating material properties used when simulating porous media flow. It includes utilities for calculating relative-permeability/capillary pressure laws, thermodynamic relations, flash solvers, empirical heat conduction laws, et cetera.It uses automatic differentiation for calculating the properties.

This package contains the development files (headers) needed.

The Open Porous Media (OPM) software suite provides libraries and tools for modeling and simulation of porous media processes, especially for simulating CO2 sequestration and improved and enhanced oil recovery.

opm-models is a header-only simulation framework which is primary focused on fully implicit models for flow and transport in porous media. It uses finite volume schemes for discretization and automatic differentiation for calculating the Jacobians. Its main objectives is to provide an easily usable, well maintainable, high performance framework which is capable of capturing all macro-scale scenarios relevant for academic research and industrial applications involving flow and transport processes in porous media.

This package provides the development files (headers) needed to build applications based on opm-models.

The Open Porous Media (OPM) software suite provides libraries and tools for modeling and simulation of porous media processes, especially for simulating CO2 sequestration and improved and enhanced oil recovery.

opm-simulators provides a research (ebos) and a production (flow) fully implicit black-oil simulators, supporting one to three phases and supporting solvent and polymer options. It uses cell centered finite volume schemes with two point flux approximation and automatic differentiation for the discretization and uses state of the art linear and nonlinear solvers. It supports standard and multi segment well models and reading and writing file in Eclipse format, a very common format used in the oil reservoir simulation community.

Package provides the development files (headers and shared library links).

The Open Porous Media (OPM) software suite provides libraries and tools for modeling and simulation of porous media processes, especially for simulating CO2 sequestration and improved and enhanced oil recovery.

opm-upscaling provides tools for single phase and relative permeability upscaling. During upscaling effective parameters (like porosity, permeability, and capillary pressure) for a simulation on a coarser scale are computed from properties of a simulation on a fine scale.

Package provides the development files (headers and shared library links).

The Open Porous Media (OPM) software suite provides libraries and tools for modeling and simulation of porous media processes, especially for simulating CO2 sequestration and improved and enhanced oil recovery.

This package contains the Python wrappers for reading, parsing, and writing files in Eclipse format, a format widely used in the reservoir simulation community.

The Open Porous Media (OPM) software suite provides libraries and tools for modeling and simulation of porous media processes, especially for simulating CO2 sequestration and improved and enhanced oil recovery.

opm-simulators provides a research (ebos) and a production (flow) fully implicit black-oil simulators, supporting one to three phases and supporting solvent and polymer options. It uses cell centered finite volume schemes with two point flux approximation and automatic differentiation for the discretization and uses state of the art linear and nonlinear solvers. It supports standard and multi segment well models and reading and writing file in Eclipse format, a very common format used in the oil reservoir simulation community.

Package provides Python wrappers for the simulators.

Triangle is a library/program for meshing 2-D surfaces and manifolds.

This package contains its static library, headers, and shared library symbolic link, which are needed to compile programs using the triangle library.