Package: cluster3 Description-md5: fdd3e34e11f67c13bdf614925d3877ff Description-en: Reimplementation of the Eisen-clustering software The open source clustering software available here contains clustering routines that can be used to analyze gene expression data. Routines for hierarchical (pairwise simple, complete, average, and centroid linkage) clustering, k-means and k-medians clustering, and 2D self-organizing maps are included. The routines are available in the form of a C clustering library, an extension module to Python, a module to Perl, as well as an enhanced version of Cluster, which was originally developed by Michael Eisen of Berkeley Lab. The C clustering library and the associated extension module for Python was released under the Python license. The Perl module was released under the Artistic License. Cluster 3.0 is covered by the original Cluster/TreeView license. . This package only contains the command line and motif gui versions of Cluster 3.0. Package: libamgcl-dev Description-md5: ec65c5ece2e2ac48e9fba2a354789071 Description-en: Solves large sparse linear systems with algebraic multigrid method AMG is one of the most effective iterative methods for solution of equation systems arising, for example, from discretizing PDEs on unstructured grids. The method can be used as a black-box solver for various computational problems, since it does not require any information about the underlying geometry. AMG is often used not as a standalone solver but as a preconditioner within an iterative solver (e.g. Conjugate Gradients, BiCGStab, or GMRES). . AMGCL builds the AMG hierarchy on a CPU and then transfers it to one of the provided backends. This allows for transparent acceleration of the solution phase with help of OpenCL, CUDA, or OpenMP technologies. Users may provide their own backends which enables tight integration between AMGCL and the user code. . AMG is a header-only C++ library, with the headers provided by this package. Package: libdemeter-perl Description-md5: 61bcaabdcd578f132064042eed689bdf Description-en: comprehensive XAS data analysis system using Feff and Ifeffit or Larch Demeter provides an object oriented interface to the EXAFS data analysis capabilities of the popular and powerful Ifeffit package and its successor Larch. Given that the Ifeffit and Larch APIs involve streams of text commands, this package is, at heart, a code generator. Many methods of this package return text. All actual interaction with Ifeffit or Larch is handled through a single method, dispose, which is described below. The internal structure of this package involves accumulating text in a scalar variable through successive calls to the various code generating methods. This text is then disposed to Ifeffit, to Larch, to a file, or elsewhere. The outward looking methods organize all of the complicated interactions of your data with Ifeffit or Larch. . This package is aimed at many targets. It can be the back-end of a graphical data analysis program, providing the glue between the on-screen representation of the fit and the actual command executed by Ifeffit or Larch. It can be used for one-off data analysis chores -- indeed most of the examples that come with the package can be reworked into useful one-off scripts. It can also be the back-end to sophisticated data analysis chores such as high-throughout data processing and analysis or complex physical modeling. Package: libnccl-dev Description-md5: eb51ac028af4e93d497fb00fb21ea648 Description-en: NVIDIA Optimized primitives for inter-GPU communication (development) NCCL (pronounced "Nickel") is a stand-alone library of standard communication routines for GPUs, implementing all-reduce, all-gather, reduce, broadcast, reduce-scatter, as well as any send/receive based communication pattern. It has been optimized to achieve high bandwidth on platforms using PCIe, NVLink, NVswitch, as well as networking using InfiniBand Verbs or TCP/IP sockets. NCCL supports an arbitrary number of GPUs installed in a single node or across multiple nodes, and can be used in either single- or multi-process (e.g., MPI) applications. . This package contains the development files. Package: libnccl2 Description-md5: 9d65922c97dff88e1fb00aa87e7e5d73 Description-en: NVIDIA Optimized primitives for inter-GPU communication NCCL (pronounced "Nickel") is a stand-alone library of standard communication routines for GPUs, implementing all-reduce, all-gather, reduce, broadcast, reduce-scatter, as well as any send/receive based communication pattern. It has been optimized to achieve high bandwidth on platforms using PCIe, NVLink, NVswitch, as well as networking using InfiniBand Verbs or TCP/IP sockets. NCCL supports an arbitrary number of GPUs installed in a single node or across multiple nodes, and can be used in either single- or multi-process (e.g., MPI) applications. . This package contains the shared objects. Package: librna-perl Description-md5: 895cf06070e423e768fdaf45508091e5 Description-en: ViennaRNA perl wrappers Perl wrappers above ViennaRNA library. . The Vienna RNA Package consists of a C code library and several stand-alone programs for the prediction and comparison of RNA secondary structures Package: libsocl-contrib-1.4-1 Description-md5: 4a69ce3f02f2cf01466ed8b9a22d8758 Description-en: Task scheduler for heterogeneous multicore machines StarPU is a runtime 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 or on Cell's SPUs), 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. . This package contains an OpenCL-compatible library interface to StarPU. This "contrib" version is built against CUDA. Package: libstarpu-contrib-1.4-4 Description-md5: f0ca811d02d6bbb6c830781bf9811bff Description-en: Task scheduler for heterogeneous multicore machines StarPU is a runtime 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 or on Cell's SPUs), 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. . This package contains the main StarPU library This "contrib" version is built against CUDA. Package: libstarpu-contrib-dev Description-md5: e7f42763fbe9c087a6defa203190f56e Description-en: Task scheduler for heterogeneous multicore machines - dev StarPU is a runtime 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 or on Cell's SPUs), 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. . This package contains development headers and libraries. This "contrib" version is built against CUDA. Package: libstarpu-contrib-openmp-llvm-1.4-1 Description-md5: 0c4cf9967f5b66c184481dbb23c8faa6 Description-en: Task scheduler for heterogeneous multicore machines StarPU is a runtime 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 or on Cell's SPUs), 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. . This package contains the runtime support for LLVM OpenMP. This "contrib" version is built against CUDA. Package: libstarpu-contribfft-1.4-1 Description-md5: 1079179920c93a735ab89566a3855d36 Description-en: Task scheduler for heterogeneous multicore machines StarPU is a runtime 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 or on Cell's SPUs), 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. . This package contains a hybrid CPU+GPU FFT library. This "contrib" version is built against CUDA. Package: libstarpu-contribmpi-1.4-3 Description-md5: 4d3ce5602db3c9fbd91b7e19dcc14e2a Description-en: Task scheduler for heterogeneous multicore machines StarPU is a runtime 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 or on Cell's SPUs), 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. . This package contains MPI extensions for StarPU. This "contrib" version is built against CUDA. Package: libstarpu-contribrm-1.4-1 Description-md5: 3008682b6502a417f1d5f1b0170499a0 Description-en: Task scheduler for heterogeneous multicore machines StarPU is a runtime 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 or on Cell's SPUs), 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. . This package contains the resource management library. This "contrib" version is built against CUDA. Package: octave-astra-toolbox Description-md5: 19af48502a78cfefea101547a3f3aa12 Description-en: toolbox of high-performance GPU primitives for 2D and 3D tomography (octave) It supports 2D parallel and fan beam geometries, and 3D parallel and cone beam. All of them have highly flexible source/detector positioning. . A large number of 2D and 3D algorithms are available, including FBP, SIRT, SART, CGLS. . The basic forward and backward projection operations are GPU-accelerated, and directly callable from Octave and Python to enable building new algorithms. . This is the Octave library. Package: python3-amgcl Description-md5: ecbb9c7c4315244c6b65581f6b220a1f Description-en: Solves large sparse linear systems with algebraic multigrid method AMG is one of the most effective iterative methods for solution of equation systems arising, for example, from discretizing PDEs on unstructured grids. The method can be used as a black-box solver for various computational problems, since it does not require any information about the underlying geometry. AMG is often used not as a standalone solver but as a preconditioner within an iterative solver (e.g. Conjugate Gradients, BiCGStab, or GMRES). . AMGCL builds the AMG hierarchy on a CPU and then transfers it to one of the provided backends. This allows for transparent acceleration of the solution phase with help of OpenCL, CUDA, or OpenMP technologies. Users may provide their own backends which enables tight integration between AMGCL and the user code. . This package provides the Python interface Package: python3-astra-toolbox Description-md5: 7f59c83f6c23c2f985b14da805dfece4 Description-en: toolbox of high-performance GPU primitives for 2D and 3D tomography (Python3) It supports 2D parallel and fan beam geometries, and 3D parallel and cone beam. All of them have highly flexible source/detector positioning. . A large number of 2D and 3D algorithms are available, including FBP, SIRT, SART, CGLS. . The basic forward and backward projection operations are GPU-accelerated, and directly callable from Octave and Python to enable building new algorithms. . This is the Python3 library. Package: python3-pyvkfft Description-md5: f985c4654936ca95c93802557c36a929 Description-en: binding to the CUDA and OpenCL backends of VkFFT - Python3 pyvkfft offers a simple python interface to the CUDA and OpenCL backends of VkFFT, compatible with pyCUDA, CuPy and pyOpenCL. . This package installs the library for Python 3. Package: python3-rna Description-md5: 310e3dd7fe72676202a1db1d473b4678 Description-en: ViennaRNA Python wrappers Python wrappers above ViennaRNA library. . The Vienna RNA Package consists of a C code library and several stand-alone programs for the prediction and comparison of RNA secondary structures Package: ruby-kas-grpc Description-md5: 49bf131b372a8015f7e8d12a2e2a28db Description-en: Auto-generated gRPC client for KAS The Kubernetes Agent Server (KAS) is a GitLab backend service dedicated to managing Kubernetes Agents. This gem is the auto-generated gRPC client for it. . gitlab-agent source package has code for both GitLab Kubernetes Agent and GitLab Kubernetes Agent Server. This binary package include part of KAS. Package: ruby-pgplot Description-md5: cf08efc3d00267462ecffbd245d9bf82 Description-en: Ruby interface to the PGPLOT graphics library Ruby/PGPLOT is the Ruby interface to the PGPLOT graphics library. PGPLOT is a FORTRAN library to draw line/scatter/histogram plot, error bar, contour/image/vector map, etc. Supports various output devices including Postscript, PNG, X-Window, etc. Package: sabnzbdplus Description-md5: 9af99c00c3efdc0801f9fda555ddbd78 Description-en: web-based binary newsreader with nzb support SABnzbd+ is a web-based binary newsgrabber written in Python, with support for the popular nzb file format. It greatly simplifies the process of downloading from Usenet, thanks to a friendly web-based, fully customizable user interface and advanced built-in post-processing options including the ability to automatically verify, repair, extract and clean up downloaded posts. . Multiple servers are supported, as well as secure (ssl) connections, ipv6, scheduling, pausing and resuming downloads, queue manipulation, rss feeds, automatic sorting, a download history, email notifications, and custom post-processing scripts. An extensive API allows third party applications to interact with the program. . This package contains the program itself and all interface templates. Package: slurm-wlm-nvml-plugin Description-md5: 382ad5eb1a96045c9ecbf90f2e89d21b Description-en: SLURM NVML plugins SLURM, the Simple Linux Utility for Resource Management, is an open-source cluster resource management and job scheduling. . This package contains the Nvidia NVML-based SLURM plugin. Package: slurm-wlm-nvml-plugin-dev Description-md5: 25e2f364af04a256ac8860bffe699da0 Description-en: SLURM NVML plugin development files SLURM, the Simple Linux Utility for Resource Management, is an open-source cluster resource management and job scheduling. . This package contains development files for the Nvidia NVML-based SLURM plugins. Package: speech-dispatcher-ivona Description-md5: 86870f9edb7fda6696c749808c9ab8ad Description-en: Speech Dispatcher: Ivona output module Speech Dispatcher provides a device independent layer for speech synthesis. It supports various software and hardware speech synthesizers as backends and provides a generic layer for synthesizing speech and playing back PCM data via those different backends to applications. . Various high level concepts like enqueueing vs. interrupting speech and application specific user configurations are implemented in a device independent way, therefore freeing the application programmer from having to yet again reinvent the wheel. . This package contains the output module for the Ivona speech synthesizer, which needs to be installed separately. Package: speech-dispatcher-pico Description-md5: 3f7b0336934407e292229150a3407010 Description-en: Speech Dispatcher: Pico output module Speech Dispatcher provides a device independent layer for speech synthesis. It supports various software and hardware speech synthesizers as backends and provides a generic layer for synthesizing speech and playing back PCM data via those different backends to applications. . Various high level concepts like enqueueing vs. interrupting speech and application specific user configurations are implemented in a device independent way, therefore freeing the application programmer from having to yet again reinvent the wheel. . This package contains the output module for the pico speech synthesizer. Package: speech-dispatcher-voxin Description-md5: 83b1d95c5cad4931b0402c5c5475c962 Description-en: Speech Dispatcher: Voxin output module Speech Dispatcher provides a device independent layer for speech synthesis. It supports various software and hardware speech synthesizers as backends and provides a generic layer for synthesizing speech and playing back PCM data via those different backends to applications. . Various high level concepts like enqueueing vs. interrupting speech and application specific user configurations are implemented in a device independent way, therefore freeing the application programmer from having to yet again reinvent the wheel. . This package contains the output module for the Voxin speech synthesizer, which supports IBM TTS (aka Eloquence) and Vocalizer Embedded, which needs to be installed separately. Package: starpu-contrib-examples Description-md5: 11b8c6811b08d3b761c4e2f5fd0e0890 Description-en: Task scheduler for heterogeneous multicore machines - exs StarPU is a runtime 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 or on Cell's SPUs), 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. . This package contains application examples. This "contrib" version is built against CUDA. Package: starpu-contrib-tools Description-md5: 21e204c0915cd3972a9cf41ad059d147 Description-en: Task scheduler for heterogeneous multicore machines - tools StarPU is a runtime 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 or on Cell's SPUs), 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. . This package contains StarPU tools. This "contrib" version is built against CUDA. Package: vienna-rna Description-md5: cd4926e923e0b58439a80df654cba8f9 Description-en: RNA sequence analysis The Vienna RNA Package consists of a C code library and several stand-alone programs for the prediction and comparison of RNA secondary structures. It is developed and maintained by the group of Ivo Hofacker in Vienna. . RNA secondary structure prediction through energy minimization is the most used function in the package. It provides three kinds of dynamic programming algorithms for structure prediction: * the minimum free energy algorithm of (Zuker & Stiegler 1981) which yields a single optimal structure, * the partition function algorithm of (McCaskill 1990) which calculates base pair probabilities in the thermodynamic ensemble, and the suboptimal folding algorithm of (Wuchty et.al 1999) which generates all suboptimal structures within a given energy range of the optimal energy. . For secondary structure comparison, the package contains several measures of distance (dissimilarities) using either string alignment or tree-editing (Shapiro & Zhang 1990). Finally, is provided an algorithm to design sequences with a predefined structure (inverse folding). The RNAforester package is a tool for aligning RNA secondary structures and it's user interface integrates to those of the tools of the Vienna RNA package. Package: virtualbox Description-md5: 30f96d22c1a6ca04db16bdc1e79ad965 Description-en: x86 virtualization solution - base binaries VirtualBox is a free x86 virtualization solution allowing a wide range of x86 operating systems such as Windows, DOS, BSD or Linux to run on a Linux system. . This package provides the binaries for VirtualBox. Either the virtualbox-dkms or the virtualbox-source package is also required in order to compile the kernel modules needed for virtualbox. A graphical user interface for VirtualBox is provided by the package virtualbox-qt. Package: virtualbox-dkms Description-md5: 4d42f0fe51c4a92f2aed5071f84524ae Description-en: x86 virtualization solution - kernel module sources for dkms VirtualBox is a free x86 virtualization solution allowing a wide range of x86 operating systems such as Windows, DOS, BSD or Linux to run on a Linux system. . This package provides the source code for the virtualbox kernel module to be build with dkms. Kernel sources or headers are required to compile this module. Package: virtualbox-guest-utils Description-md5: 0c420aa026ad03a572b15c6e38dbebf7 Description-en: x86 virtualization solution - non-X11 guest utilities VirtualBox is a free x86 virtualization solution allowing a wide range of x86 operating systems such as Windows, DOS, BSD or Linux to run on a Linux system. . This package provides the non-X11 guest utilities for VirtualBox. These utilities are meant to be run inside the virtual machine. They provide closer integration and allow to share data through shared folders between the host system and the virtual machine. Package: virtualbox-guest-x11 Description-md5: 3487afde0b114ec7e205b11f1dd3f7a5 Description-en: x86 virtualization solution - X11 guest utilities VirtualBox is a free x86 virtualization solution allowing a wide range of x86 operating systems such as Windows, DOS, BSD or Linux to run on a Linux system. . This package provides the X11 guest utilities for VirtualBox. These utilities are meant to be run inside the virtual machine. They provide closer integration and improve the interactive performance. Package: virtualbox-qt Description-md5: 41ed29f36ba23b3ce0155f9a8efcff60 Description-en: x86 virtualization solution - Qt based user interface VirtualBox is a free x86 virtualization solution allowing a wide range of x86 operating systems such as Windows, DOS, BSD or Linux to run on a Linux system. . This package provides the Qt based graphical user interface for VirtualBox. Package: virtualbox-source Description-md5: 53035ede584988f3413156cb7a5dbe8b Description-en: x86 virtualization solution - kernel module source VirtualBox is a free x86 virtualization solution allowing a wide range of x86 operating systems such as Windows, DOS, BSD or Linux to run on a Linux system. . This package provides the source code for the virtualbox kernel module. The virtualbox package is also required in order to make use of these modules. Kernel sources or headers are required to compile this module. . The source is placed under /usr/src, and after decompression it can be built to produce a virtualbox-modules-_KVERS_ providing "virtualbox-modules" package. Package: speech-dispatcher-ibmtts Description-md5: 58e52cccb215af6ea193914e90fd5155 Description-en: Speech Dispatcher: IBM TTS output module Speech Dispatcher provides a device independent layer for speech synthesis. It supports various software and hardware speech synthesizers as backends and provides a generic layer for synthesizing speech and playing back PCM data via those different backends to applications. . Various high level concepts like enqueueing vs. interrupting speech and application specific user configurations are implemented in a device independent way, therefore freeing the application programmer from having to yet again reinvent the wheel. . This package contains the output module for the IBM TTS (aka Eloquence), which needs to be installed separately.