HELIOS software
Uwaga
W niektórych przypadkach oprogramowanie z poniższej listy może wymagać posiadania dodatkowej licencji i może nie być ogólnodostępne dla wszystkich użytkowników PLGrid.
ADF
ADF Quantum Chemistry Package with GPGPU support (AMS)
Versions:
| Module | Default |
|---|---|
module load ADF/2024.102 |
✅ |
module load ADF/2023.104 |
AMS
ADF Quantum Chemistry Package with GPGPU support (AMS)
Versions:
| Module | Default |
|---|---|
module load AMS/2024.102 |
✅ |
module load AMS/2023.104 |
ANSYS
ANSYS simulation software enables organizations to confidently predict how their products will operate in the real world. We believe that every product is a promise of something greater.
Versions:
| Module | Default |
|---|---|
module load ANSYS/2024R1 |
✅ |
Autoconf
Autoconf is an extensible package of M4 macros that produce shell scripts to automatically configure software source code packages. These scripts can adapt the packages to many kinds of UNIX-like systems without manual user intervention. Autoconf creates a configuration script for a package from a template file that lists the operating system features that the package can use, in the form of M4 macro calls.
Versions:
| Module | Default |
|---|---|
module load Autoconf/2.71 |
✅ |
Automake
Automake: GNU Standards-compliant Makefile generator
Versions:
| Module | Default |
|---|---|
module load Automake/1.16.5 |
✅ |
Autotools
This bundle collect the standard GNU build tools: Autoconf, Automake and libtool
Versions:
| Module | Default |
|---|---|
module load Autotools/20220317 |
✅ |
Bison
Bison is a general-purpose parser generator that converts an annotated context-free grammar into a deterministic LR or generalized LR (GLR) parser employing LALR(1) parser tables.
Versions:
| Module | Default |
|---|---|
module load Bison/3.8.2 |
✅ |
CMake
CMake, the cross-platform, open-source build system. CMake is a family of tools designed to build, test and package software.
Versions:
| Module | Default |
|---|---|
module load CMake/3.26.5 |
✅ |
CUDA
CUDA (formerly Compute Unified Device Architecture) is a parallel computing platform and programming model created by NVIDIA and implemented by the graphics processing units (GPUs) that they produce. CUDA gives developers access to the virtual instruction set and memory of the parallel computational elements in CUDA GPUs.
Versions:
| Module | Default |
|---|---|
module load CUDA/12.4.0 |
✅ |
module load CUDA/12.2.2 |
CrayCCE
Toolchain using Cray compiler wrapper, using PrgEnv-cray (PE release: December 2023).
Versions:
| Module | Default |
|---|---|
module load CrayCCE/23.12 |
✅ |
GCC
The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Java, and Ada, as well as libraries for these languages (libstdc++, libgcj,...).
Versions:
| Module | Default |
|---|---|
module load GCC/13.2.0 |
✅ |
module load GCC/12.3.0 |
GCCcore
The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Java, and Ada, as well as libraries for these languages (libstdc++, libgcj,...).
Versions:
| Module | Default |
|---|---|
module load GCCcore/13.2.0 |
✅ |
module load GCCcore/12.3.0 |
Gaussian
Gaussian G16 quantum chemistry package.
Versions:
| Module | Default |
|---|---|
module load Gaussian/g16.C.01 |
✅ |
Geant4-data
Datasets for Geant4.
Versions:
| Module | Default |
|---|---|
module load Geant4-data/11.2.2 |
✅ |
Go
Go is an open source programming language that makes it easy to build simple, reliable, and efficient software.
Versions:
| Module | Default |
|---|---|
module load Go/1.22.1 |
✅ |
HAlign
HAlign 3: Fast multiple alignment of ultra-large numbers of similar DNA/RNA sequences
Versions:
| Module | Default |
|---|---|
module load HAlign/3.0.0-Java-21.0.2 |
✅ |
Java
Java Platform, Standard Edition (Java SE) lets you develop and deploy Java applications on desktops and servers.
Versions:
| Module | Default |
|---|---|
module load Java/21.0.2 |
✅ |
module load Java/11.0.20 |
Lua
Lua is a powerful, fast, lightweight, embeddable scripting language. Lua combines simple procedural syntax with powerful data description constructs based on associative arrays and extensible semantics. Lua is dynamically typed, runs by interpreting bytecode for a register-based virtual machine, and has automatic memory management with incremental garbage collection, making it ideal for configuration, scripting, and rapid prototyping.
Versions:
| Module | Default |
|---|---|
module load Lua/5.3.5 |
✅ |
LuaRocks
LuaRocks is the package manager for Lua modules. It allows you to create and install Lua modules as self-contained packages called rocks.
Versions:
| Module | Default |
|---|---|
module load LuaRocks/3.11.1 |
✅ |
M4
GNU M4 is an implementation of the traditional Unix macro processor. It is mostly SVR4 compatible although it has some extensions (for example, handling more than 9 positional parameters to macros). GNU M4 also has built-in functions for including files, running shell commands, doing arithmetic, etc.
Versions:
| Module | Default |
|---|---|
module load M4/1.4.19 |
✅ |
module load M4/1.4.18 |
MVAPICH
This is an MPI 3.0 implementation. It is based on MPICH2 and MVICH.
Versions:
| Module | Default |
|---|---|
module load MVAPICH/3.0 |
✅ |
MinIO-Client
MinIO Client (mc) provides a modern alternative to UNIX commands like ls, cat, cp, mirror, diff, find etc. It supports filesystems and Amazon S3 compatible cloud storage service (AWS Signature v2 and v4).
Versions:
| Module | Default |
|---|---|
module load MinIO-Client/2024-07-31T15-58-33Z |
✅ |
Miniconda3
Miniconda is a free minimal installer for conda. It is a small, bootstrap version of Anaconda that includes only conda, Python, the packages they depend on, and a small number of other useful packages.
Versions:
| Module | Default |
|---|---|
module load Miniconda3/23.9.0-0 |
✅ |
OpenSSL
The OpenSSL Project is a collaborative effort to develop a robust, commercial-grade, full-featured, and Open Source toolchain implementing the Secure Sockets Layer (SSL v2/v3) and Transport Layer Security (TLS v1) protocols as well as a full-strength general purpose cryptography library.
Versions:
| Module | Default |
|---|---|
module load OpenSSL/1.1 |
✅ |
S-Lang
S-Lang is a multi-platform programmer's library designed to allow a developer to create robust multi-platform software. It provides facilities required by interactive applications such as display/screen management, keyboard input, keymaps, and so on.
Versions:
| Module | Default |
|---|---|
module load S-Lang/2.3.0 |
✅ |
Tcl
Tcl (Tool Command Language) is a very powerful but easy to learn dynamic programming language, suitable for a very wide range of uses, including web and desktop applications, networking, administration, testing and many more.
Versions:
| Module | Default |
|---|---|
module load Tcl/8.6.13 |
✅ |
Trimmomatic
Trimmomatic performs a variety of useful trimming tasks for illumina paired-end and single ended data.The selection of trimming steps and their associated parameters are supplied on the command line.
Versions:
| Module | Default |
|---|---|
module load Trimmomatic/0.39-Java-21.0.2 |
✅ |
binutils
binutils: GNU binary utilities
Versions:
| Module | Default |
|---|---|
module load binutils/2.40 |
✅ |
bwakit
Bwakit is a self-consistent installation-free package of scripts and precompiled binaries, providing an end-to-end solution to read mapping.
Versions:
| Module | Default |
|---|---|
module load bwakit/0.7.15_x64-linux |
✅ |
bzip2
bzip2 is a freely available, patent free, high-quality data compressor. It typically compresses files to within 10% to 15% of the best available techniques (the PPM family of statistical compressors), whilst being around twice as fast at compression and six times faster at decompression.
Versions:
| Module | Default |
|---|---|
module load bzip2/1.0.8 |
✅ |
cURL
libcurl is a free and easy-to-use client-side URL transfer library, supporting DICT, FILE, FTP, FTPS, Gopher, HTTP, HTTPS, IMAP, IMAPS, LDAP, LDAPS, POP3, POP3S, RTMP, RTSP, SCP, SFTP, SMTP, SMTPS, Telnet and TFTP. libcurl supports SSL certificates, HTTP POST, HTTP PUT, FTP uploading, HTTP form based upload, proxies, cookies, user+password authentication (Basic, Digest, NTLM, Negotiate, Kerberos), file transfer resume, http proxy tunneling and more.
Versions:
| Module | Default |
|---|---|
module load cURL/8.0.1 |
✅ |
cuDNN
The NVIDIA CUDA Deep Neural Network library (cuDNN) is a GPU-accelerated library of primitives for deep neural networks.
Versions:
| Module | Default |
|---|---|
module load cuDNN/9.2.1.18-CUDA-12.4.0 |
✅ |
module load cuDNN/8.9.7.29-CUDA-12.4.0 |
ffnvcodec
FFmpeg nvidia headers. Adds support for nvenc and nvdec. Requires Nvidia GPU and drivers to be present (picked up dynamically).
Versions:
| Module | Default |
|---|---|
module load ffnvcodec/12.1.14.0 |
✅ |
flex
Flex (Fast Lexical Analyzer) is a tool for generating scanners. A scanner, sometimes called a tokenizer, is a program which recognizes lexical patterns in text.
Versions:
| Module | Default |
|---|---|
module load flex/2.6.4 |
✅ |
foss
GNU Compiler Collection (GCC) based compiler toolchain, including OpenMPI for MPI support, OpenBLAS (BLAS and LAPACK support), FFTW and ScaLAPACK.
Versions:
| Module | Default |
|---|---|
module load foss/2023b |
✅ |
gettext
GNU 'gettext' is an important step for the GNU Translation Project, as it is an asset on which we may build many other steps. This package offers to programmers, translators, and even users, a well integrated set of tools and documentation
Versions:
| Module | Default |
|---|---|
module load gettext/0.22 |
✅ |
module load gettext/0.19.8.1 |
gfbf
GNU Compiler Collection (GCC) based compiler toolchain, including FlexiBLAS (BLAS and LAPACK support) and (serial) FFTW.
Versions:
| Module | Default |
|---|---|
module load gfbf/2023b |
✅ |
gompi
GNU Compiler Collection (GCC) based compiler toolchain, including OpenMPI for MPI support.
Versions:
| Module | Default |
|---|---|
module load gompi/2023b |
✅ |
htop
An interactive process viewer for Unix
Versions:
| Module | Default |
|---|---|
module load htop/3.3.0 |
✅ |
iimkl
Intel C/C++ and Fortran compilers, alongside Intel Math Kernel Library (MKL).
Versions:
| Module | Default |
|---|---|
module load iimkl/2023b |
✅ |
iimpi
Intel C/C++ and Fortran compilers, alongside Intel MPI.
Versions:
| Module | Default |
|---|---|
module load iimpi/2023b |
✅ |
imkl
Intel oneAPI Math Kernel Library
Versions:
| Module | Default |
|---|---|
module load imkl/2024.0.0 |
✅ |
module load imkl/2023.2.0 |
intel-compilers
Intel C, C++ & Fortran compilers (classic and oneAPI)
Versions:
| Module | Default |
|---|---|
module load intel-compilers/2023.2.1 |
✅ |
intel
Compiler toolchain including Intel compilers, Intel MPI and Intel Math Kernel Library (MKL).
Versions:
| Module | Default |
|---|---|
module load intel/2023b |
✅ |
iomkl
Compiler toolchain including Intel compilers, Open MPI and Intel Math Kernel Library (MKL).
Versions:
| Module | Default |
|---|---|
module load iomkl/2023b |
✅ |
iompi
Intel C/C++ and Fortran compilers, alongside Open MPI.
Versions:
| Module | Default |
|---|---|
module load iompi/2023b |
✅ |
libarchive
Multi-format archive and compression library
Versions:
| Module | Default |
|---|---|
module load libarchive/3.6.2 |
✅ |
libffi
The libffi library provides a portable, high level programming interface to various calling conventions. This allows a programmer to call any function specified by a call interface description at run-time.
Versions:
| Module | Default |
|---|---|
module load libffi/3.2.1 |
✅ |
libnsl
The libnsl package contains the public client interface for NIS(YP).
Versions:
| Module | Default |
|---|---|
module load libnsl/1.3.0 |
✅ |
libreadline
The GNU Readline library provides a set of functions for use by applications that allow users to edit command lines as they are typed in. Both Emacs and vi editing modes are available. The Readline library includes additional functions to maintain a list of previously-entered command lines, to recall and perhaps reedit those lines, and perform csh-like history expansion on previous commands.
Versions:
| Module | Default |
|---|---|
module load libreadline/8.2 |
✅ |
module load libreadline/8.0 |
|
module load libreadline/7.0 |
libtirpc
Libtirpc is a port of Suns Transport-Independent RPC library to Linux.
Versions:
| Module | Default |
|---|---|
module load libtirpc/1.3.3 |
✅ |
libtool
GNU libtool is a generic library support script. Libtool hides the complexity of using shared libraries behind a consistent, portable interface.
Versions:
| Module | Default |
|---|---|
module load libtool/2.4.7 |
✅ |
libxml2
Libxml2 is the XML C parser and toolchain developed for the Gnome project (but usable outside of the Gnome platform).
Versions:
| Module | Default |
|---|---|
module load libxml2/2.9.10 |
✅ |
ncurses
The Ncurses (new curses) library is a free software emulation of curses in System V Release 4.0, and more. It uses Terminfo format, supports pads and color and multiple highlights and forms characters and function-key mapping, and has all the other SYSV-curses enhancements over BSD Curses.
Versions:
| Module | Default |
|---|---|
module load ncurses/6.4 |
✅ |
module load ncurses/6.3 |
|
module load ncurses/6.1 |
|
module load ncurses/6.0 |
p7zip
p7zip is a quick port of 7z.exe and 7za.exe (CLI version of 7zip) for Unix. 7-Zip is a file archiver with highest compression ratio.
Versions:
| Module | Default |
|---|---|
module load p7zip/17.04 |
✅ |
picard
A set of tools (in Java) for working with next generation sequencing data in the BAM format.
Versions:
| Module | Default |
|---|---|
module load picard/2.25.1-Java-21 |
✅ |
pkgconf
pkgconf is a program which helps to configure compiler and linker flags for development libraries. It is similar to pkg-config from freedesktop.org.
Versions:
| Module | Default |
|---|---|
module load pkgconf/1.8.0 |
✅ |
psi4
PSI4 is an open-source suite of ab initio quantum chemistry programs designed for efficient, high-accuracy simulations of a variety of molecular properties. We can routinely perform computations with more than 2500 basis functions running serially or in parallel.
Versions:
| Module | Default |
|---|---|
module load psi4/1.9.1 |
✅ |
rclone
Rclone is a command line program to sync files and directories to and from a variety of online storage services
Versions:
| Module | Default |
|---|---|
module load rclone/1.67.0 |
✅ |
shieldhit
SHIELD-HIT12A is a Monte Carlo particle transport program which is modified for proton and heavy ion particle therapy research
Versions:
| Module | Default |
|---|---|
module load shieldhit/current |
✅ |
zlib
zlib is designed to be a free, general-purpose, legally unencumbered -- that is, not covered by any patents -- lossless data-compression library for use on virtually any computer hardware and operating system.
Versions:
| Module | Default |
|---|---|
module load zlib/1.2.13 |
✅ |
FLUENT
Ansys/Fluent
Versions:
| Module | Default |
|---|---|
module load FLUENT/2024r1 |
✅ |
ML-bundle
Bundle of modules for ML
Versions:
| Module | Default |
|---|---|
module load ML-bundle/24.06a |
✅ |
NVHPC
C, C++ and Fortran compilers included with the NVIDIA HPC SDK (previously: PGI)
Versions:
| Module | Default |
|---|---|
module load NVHPC/24.5-CUDA-12.4.0 |
✅ |
cuSPARSELt
NVIDIA cuSPARSELt is a high-performance CUDA library dedicated to general matrix-matrix operations in which at least one operand is a sparse matrix
Versions:
| Module | Default |
|---|---|
module load cuSPARSELt/0.6.1.0-CUDA-12.4.0 |
✅ |
git-lfs
Git Large File Storage (LFS) replaces large files such as audio samples, videos, datasets, and graphics with text pointers inside Git, while storing the file contents on a remote server like GitHub.com
Versions:
| Module | Default |
|---|---|
module load git-lfs/3.5.1 |
✅ |
nvofbf
NVHPC based compiler toolchain, including OpenMPI for MPI support.
Versions:
| Module | Default |
|---|---|
module load nvofbf/2023b |
✅ |
nvompic
NVHPC based compiler toolchain, including OpenMPI for MPI support.
Versions:
| Module | Default |
|---|---|
module load nvompic/2023b |
✅ |