Debian Science Engineering-dev packages

The basic capabilities of Code_Saturne enable the handling of either incompressible or expandable flows with or without heat transfer and turbulence. Dedicated modules are available for specific physics such as radiative heat transfer, combustion (gas, coal, heavy fuel oil, ...), magneto-hydrodynamics, compressible flows, two-phase flows (Euler-Lagrange approach with two-way coupling), extensions to specific applications (e.g. Mercure_Saturne for atmospheric environment).

It runs in parallel with MPI on distributed memory machines. Developed since 1997 at EDF R&D, it is based on a co-located Finite Volume approach that accepts meshes with any type of cell (tetrahedral, hexahedral, prismatic, pyramidal, polyhedral...) and any type of grid structure (unstructured, block structured, hybrid, conforming or with hanging nodes, ...).

This package contains the binary files.

The basic capabilities of Code_Saturne enable the handling of either incompressible or expandable flows with or without heat transfer and turbulence. Dedicated modules are available for specific physics such as radiative heat transfer, combustion (gas, coal, heavy fuel oil, ...), magneto-hydrodynamics, compressible flows, two-phase flows (Euler-Lagrange approach with two-way coupling), extensions to specific applications (e.g. Mercure_Saturne for atmospheric environment).

It runs in parallel with MPI on distributed memory machines. Developed since 1997 at EDF R&D, it is based on a co-located Finite Volume approach that accepts meshes with any type of cell (tetrahedral, hexahedral, prismatic, pyramidal, polyhedral...) and any type of grid structure (unstructured, block structured, hybrid, conforming or with hanging nodes, ...).

This package contains the include files.

The Adaptable IO System (ADIOS) provides a simple, flexible way for scientists to describe the data in their code that may need to be written, read, or processed outside of the running simulation. By providing an external to the code XML file describing the various elements, their types, and how you wish to process them this run, the routines in the host code (either Fortran or C) can transparently change how they process the data.

ALBERTA is an adaptive finite element library for solving partial differential equations (PDEs).

It offers a hierarchical mesh and methods for 1d, 2d and 3d stationary as well as time dependent problems. It is written in C with speed and flexibility in mind.

This package contains the development files.

ANN is a library written in C++, which supports data structures and algorithms for both exact and approximate nearest neighbor searching in arbitrarily high dimensions. ANN assumes that distances are measured using any class of distance functions called Minkowski metrics. These include the well known Euclidean distance, Manhattan distance, and max distance. ANN performs quite efficiently for point sets ranging in size from thousands to hundreds of thousands, and in dimensions as high as 20.

This package contains the header files for developing applications with the ANN library.

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.

Ceres Solver is an open source C++ library for modeling and solving large, complicated optimization problems. It is a feature rich, mature and performant library which has been used in production at Google since 2010.

Ceres Solver can solve two kinds of problems.

• Non-linear Least Squares problems with bounds constraints.
• General unconstrained optimization problems.

This package contains the development header files.

The CFD General Notation System (CGNS) provides a general, portable, and extensible standard for the storage and retrieval of computational fluid dynamics (CFD) analysis data. It consists of a collection of conventions, and free and open software implementing those conventions. It is self-descriptive, machine-independent, well-documented, and administered by an international steering committee. It is also an American Institute of Aeronautics and Astronautics (AIAA) Recommended Practice.

This package contains the development files needed to compile software to use the libcgns API.

Coin is an OpenGL-based, retain-mode 3D graphics library that implements the Open Inventor 2.1 API. It also includes support for VRML97 and 3D audio.

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.

Dime is a C++ class library for reading, constructing, manipulating, and writing DXF file data.

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.

dxflib is a C++ library for reading and writing DXF files. When reading DXF files, dxflib parses the file and calls functions that you define in your own C++ class for adding entities, layers, etc.

This package contains the development files (headers and documentation) for libdxflib.

FLANN is a library for performing fast approximate nearest neighbor searches in high dimensional spaces. It contains a collection of algorithms found to work best for nearest neighbor search and a system for automatically choosing the best algorithm and optimum parameters depending on the dataset.

This package contains development files needed to build FLANN applications.

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IT++ is a C++ library of mathematical, signal processing and communication classes and functions. Its main use is in simulation of communication systems and for performing research in the area of communications. The kernel of the library consists of generic vector and matrix classes, and a set of accompanying routines. Such a kernel makes IT++ similar to MATLAB or GNU Octave .

This package has the development libraries and headers for IT++.

liblxi is an open source software library which offers a simple API for communicating with LXI compatible instruments. The API allows applications to easily discover instruments on networks and communicate SCPI commands.

Development files

This package contains the development files (headers, so and static libraries) for MAdLib.

MAdLib is a library that performs global node repositioning and mesh adaptation by local mesh modifications on tetrahedral or triangular meshes. It is designed to frequently adapt the mesh in transient computations. MAdLib is written in C++.

The adaptation procedure is driven by two objectives:

• make the edge lengths as close as possible to a (non-homogenous)

  prescribed length,

• maintain a satisfying element quality everywhere.

MAdLib can be used in transient computations in order to maintain a satisfying element quality (moving boundaries, multiphase flows with interface tracking, ...) or/and to apply selective refinements and coarsenings (error estimators based, interface capturing: shocks, free surfaces, ...).

MED-fichier (Modélisation et Echanges de Données, in English Modelisation and Data Exchange) is a library to store and exchange meshed data or computation results. It uses the HDF5 file format to store the data.

MED-fichier (Modélisation et Echanges de Données, in English Modelisation and Data Exchange) is a library to store and exchange meshed data or computation results. It uses the HDF5 file format to store the data.

This package contains the header files and static library needed to compile applications that use libmedC.

MED-fichier (Modélisation et Echanges de Données, in English Modelisation and Data Exchange) is a library to store and exchange meshed data or computation results. It uses the HDF5 file format to store the data.

This package contains the header files and static library needed to compile applications that use libmedimport, including C++ applications.

NetCDF (network Common Data Form) is a set of interfaces for array-oriented data access and a freely distributed collection of data access libraries for C, Fortran, C++, Java, and other languages. The netCDF libraries support a machine-independent format for representing scientific data. Together, the interfaces, libraries, and format support the creation, access, and sharing of scientific data.

This package provides headers.

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.

NLopt is a free/open-source library for nonlinear optimization, providing a common interface for a number of different free optimization routines available online as well as original implementations of various other algorithms. Its features include:

• Callable from C, C++, Fortran, GNU Octave, Python, GNU Guile, GNU R.
• A common interface for many different algorithms
• Support for large-scale optimization.
• Both global and local optimization algorithms.
• Algorithms using function values only (derivative-free) and also algorithms exploiting user-supplied gradients.
• Algorithms for unconstrained optimization, bound-constrained optimization, and general nonlinear inequality/equality constraints.

This package contains the header files, static libraries and symbolic links that developers using NLopt library will need.

OpenTURNS is a powerful and generic tool to treat and quantify uncertainties in numerical simulations in design, optimization and control. It allows both sensitivity and reliability analysis studies:

• defining the outputs of interest and decision criterion;
• quantify and model the source of uncertainties;
• propagate uncertainties and/or analyse sensitivity and
• rank the sources of uncertainty

Targeted users are all engineers who want to introduce the probabilistic dimension in their so far deterministic studies.

This package contains development files needed to build OpenTURNS applications.

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.

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. Consequently, Silo facilitates the development of general purpose tools for processing scientific data. One of the more popular tools that process Silo data files is the VisIt visualization tool.

Silo supports gridless (point) meshes, structured meshes, unstructured-zoo and unstructured-arbitrary-polyhedral meshes, block structured AMR meshes, constructive solid geometry (CSG) meshes, piecewise-constant (e.g. zone-centered) and piecewise-linear (e.g. node-centered) variables defined on the node, edge, face or volume elements of meshes as well as the decomposition of meshes into arbitrary subset hierarchies including materials and mixing materials. In addition, Silo supports a wide variety of other useful objects to address various scientific computing application needs. Although the Silo library is a serial library, it has some key features which enable it to be applied quite effectively and scalable in parallel.

Architecturally, the library is divided into two main pieces; an upper-level application programming interface (API) and a lower-level I/O implementation called a driver. Silo supports multiple I/O drivers, the two most common of which are the HDF5 (Hierarchical Data Format 5) and PDB (Portable Data Base) drivers.

SLICOT (Subroutine Library In COntrol Theory) is a general purpose basic mathematical library for control theoretical computations. The library provides tools to perform essential system analysis and synthesis tasks. The main emphasis in SLICOT is on numerical reliability of implemented algorithms and the numerical robustness and efficiency of routines. Providing algorithmic flexibility and the use of rigorous implementation and documentation standards are other SLICOT features.

SLICOT is written is Fortran 77 and builds upon the numerical linear algebra routines from BLAS (Basic Linear Algebra Subroutines) and LAPACK (Linear Algebra PACKage).

This package contains a static version of the library.

TetGen generates the Delaunay tetrahedralization, Voronoi diagram, and convex hull for three-dimensional point sets, generates the constrained Delaunay tetrahedralizations and quality tetrahedral meshes for three-dimensional domains with piecewise linear boundary.

This package provides header file.

This package contains the headers and development tools needed to build against the Xdmf libraries.

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.

Pycollada is a Python module for creating, editing and loading COLLADA, which is a COLLAborative Design Activity for establishing an interchange file format for interactive 3D applications. The library allows you to load a COLLADA file and interact with it as a Python object. In addition, it supports creating a collada Python object from scratch, as well as in-place editing.

This package contains the Python 3 files for Pycollada.

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.

Fluids is open-source software for engineers and technicians working in the fields of chemical, mechanical, or civil engineering. It includes modules for piping, fittings, pumps, tanks, compressible flow, open-channel flow, and more.

The fluids library depends on the SciPy library to provide numerical constants, interpolation, integration, and numerical solving functionality.

This package contains the Python 3 version of fluids.

NetCDF version 4 has many features not found in earlier versions of the library and is implemented on top of HDF5. This module can read and write files in both the new netCDF 4 and the old netCDF 3 format, and can create files that are readable by HDF5 clients. The API is modelled after Scientific.IO.NetCDF, and should be familiar to users of that module.

Most new features of netCDF 4 are implemented, such as multiple unlimited dimensions, groups and zlib data compression. All the new numeric data types (such as 64 bit and unsigned integer types) are implemented. Compound and variable length (vlen) data types are supported, but the enum and opaque data types are not. Mixtures of compound and vlen data types (compound types containing vlens, and vlens containing compound types) are not supported.

This package contains the netCDF 4 module for Python 3.

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 is a set of open-source Python bindings for The Open Dynamics Engine, an open-source physics engine. PyODE also includes an XODE parser.

This package provides PyODE for supported versions of Python.

This package provides an R interface to Unidata's NetCDF library functions. NetCDF (network Common Data Form) is a set of interfaces for array-oriented data access. In addition to the interface to the NetCDF library functions, R interfaces are provided to access Unidata's UDUNITS calendar conversions.

The Trilinos Project is an effort to develop algorithms and enabling technologies within an object-oriented software framework for the solution of large-scale, complex multi-physics engineering and scientific problems. A unique design feature of Trilinos is its focus on packages.

This package depends on all Trilinos development packages.

Ceres Solver is an open source C++ library for modeling and solving large, complicated optimization problems. It is a feature rich, mature and performant library which has been used in production at Google since 2010.

Ceres Solver can solve two kinds of problems.

• Non-linear Least Squares problems with bounds constraints.
• General unconstrained optimization problems.

This package contains the documentation found on http://ceres-solver.org/ and the examples that were included with the release.

One or more data sets of thousands of data points (X and Y coordinate) may be displayed and updated in split seconds. The widget is therefore used in many scientific and private projects that need to show quickly changing data live. GtkDatabox offers the ability to zoom into and out of the data and to navigate through your data by scrolling.

In addition to rulers and a simple coordinate cross, GtkDatabox now also allows you to add one (or even more) configurable grids like on an oscilloscope.

Data may be presented as dots, lines connecting the data, or vertical bars. The widget allows you to easily transform pixel coordinates into data coordinates, thus allowing you to easily create powerful applications for data analysis.

Development package

The Qwt library contains Qt GUI Components and utility classes which are primarily useful for programs with a technical background. Most of these widgets are used to control or display values, arrays, or ranges of type double.

This package contains the Qwt development files for Qt4 and qt4-designer plugin.

The Qwt library contains Qt GUI Components and utility classes which are primarily useful for programs with a technical background. Most of these widgets are used to control or display values, arrays, or ranges of type double.

This package contains the Qwt development files for Qt4.

METIS: A Family of Multilevel Partitioning Algorithms

This is a collection of serial and parallel programs & libraries that can be used to partitioning unstructured graphs, finite element meshes, and hypergraphs, both on serial as well as on parallel computers.

Adaptation of METIS for Code_Aster purpose

This package contains files needed for development

DIET (Distributed Interactive Engineering Toolbox) is a middleware designed for HPC (High Performance Computing) in heterogeneous and distributed environments (workstations, clusters, grids, clouds). DIET provides a standard-compliant implementation of OGF (Open Grid Forum) Grid RPC API. It works in a hierarchical fashion, clients requests computational resources to a hierarchy of agents which will choose the most adequate computational service (known as SeD or Server Daemon).

DIET is the core component of SysFera-DS HPC middleware (http://www.sysfera.com/SysFera-DS,10).

DIET development libraries and headers to build DIET applications using admin API.

DIET (Distributed Interactive Engineering Toolbox) is a middleware designed for HPC (High Performance Computing) in heterogeneous and distributed environments (workstations, clusters, grids, clouds). DIET provides a standard-compliant implementation of OGF (Open Grid Forum) Grid RPC API. It works in a hierarchical fashion, clients requests computational resources to a hierarchy of agents which will choose the most adequate computational service (known as SeD or Server Daemon).

DIET is the core component of SysFera-DS HPC middleware (http://www.sysfera.com/SysFera-DS,10).

DIET development libraries and headers to build DIET clients.

DIET (Distributed Interactive Engineering Toolbox) is a middleware designed for HPC (High Performance Computing) in heterogeneous and distributed environments (workstations, clusters, grids, clouds). DIET provides a standard-compliant implementation of OGF (Open Grid Forum) Grid RPC API. It works in a hierarchical fashion, clients requests computational resources to a hierarchy of agents which will choose the most adequate computational service (known as SeD or Server Daemon).

DIET is the core component of SysFera-DS HPC middleware (http://www.sysfera.com/SysFera-DS,10).

DIET development libraries and headers to build DIET based applications.

DIET (Distributed Interactive Engineering Toolbox) is a middleware designed for HPC (High Performance Computing) in heterogeneous and distributed environments (workstations, clusters, grids, clouds). DIET provides a standard-compliant implementation of OGF (Open Grid Forum) Grid RPC API. It works in a hierarchical fashion, clients requests computational resources to a hierarchy of agents which will choose the most adequate computational service (known as SeD or Server Daemon).

DIET is the core component of SysFera-DS HPC middleware (http://www.sysfera.com/SysFera-DS,10).

DIET development libraries and headers to build DIET server daemons.

The Elmer multiphysics simulation package includes physical models of fluid dynamics, structural mechanics, electromagnetics, heat transfer, and acoustics, among others. These are described by partial differential equations which Elmer solves by the Finite Element Method (FEM).

Elmer uses METIS (or its free counterpart Scotch) for mesh partitioning, and (P)ARPACK, UMFPACK, BLAS/LAPACK, and hypre to solve the sparse linear systems resulting from FEM discretization. It includes pre- and post-processors, and several examples illustrating simulation of various physical phenomena.

Elmer's lead institution is CSC in collaboration with Finnish universities, research institutes, and industry.

This package contains the static libraries and header files for eio, huti, and matc, as well as the Elmer solver shared library symlink. These are used for developing Elmer, and are not needed to run the software.

G+Smo (Geometry + Simulation Modules, pronounced "gismo") is a new open-source C++ library that brings together mathematical tools for geometric design and numerical simulation. This package contains inlude headers, cmake configuration files and other development utils.

This little library provides contour surface viewing for PETSc's 3-D distributed array (DA) objects using the Geomview viewer, and distributed storage and retrieval of PETSc DAs of any dimensionality in the Illumulti (optionally compressed) binary format.

This package contains the static libs and header files necessary for development with illuminator.

Salomé is a pre- and post-processor for numerical simulations. It can import CAD files in IGES and STEP formats, facilitates component integration in heterogeneous systems, and has a user-friendly GUI as well as a Python console with all of the platform functionality.

This package contains the Salomé header files, IDL files, and .m4 files.

The package contains a wrapper on top of the ADF and MLL APIs, some tools, demos, tests, and examples taken from the CGNS tutorial..