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| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: ANNOVAR is an efficient software tool to utilize update-to-date information to functionally annotate genetic variants detected from diverse genomes (including human genome hg18, hg19, hg38, as well as mouse, worm, fly, yeast and many others). Homepage: http://annovar.openbioinformatics.org/en/latest/ Keyword:bio<br />'''Prerequisites:''' - or gcc/5.4.0 or intel/2016.4<br />'''Description:''' </div> | | <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: ANNOVAR is an efficient software tool to utilize update-to-date information to functionally annotate genetic variants detected from diverse genomes (including human genome hg18, hg19, hg38, as well as mouse, worm, fly, yeast and many others). Homepage: http://annovar.openbioinformatics.org/en/latest/ Keyword:bio<br />'''Prerequisites:''' - or gcc/5.4.0 or intel/2016.4<br />'''Description:''' </div> | ||
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| align="center" | [http://www.ansys.com ansys/16.2.3] | |||
| align="center" | phys | |||
| align="center" | [[ANSYS]] | |||
| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: 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. Homepage: http://www.ansys.com Keyword:phys CC-Wiki: ANSYS<br />'''Prerequisites:''' -<br />'''Description:''' </div> | |||
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| align="center" | [http://www.ansys.com ansys/17.2] | | align="center" | [http://www.ansys.com ansys/17.2] | ||
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| align="center" | [http://www.ansys.com ansys/19.1] | | align="center" | [http://www.ansys.com ansys/19.1] | ||
| align="center" | phys | |||
| align="center" | [[ANSYS]] | |||
| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: 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. Homepage: http://www.ansys.com Keyword:phys CC-Wiki: ANSYS<br />'''Prerequisites:''' -<br />'''Description:''' </div> | |||
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| align="center" | [http://www.ansys.com ansys/19.2] | |||
| align="center" | phys | | align="center" | phys | ||
| align="center" | [[ANSYS]] | | align="center" | [[ANSYS]] | ||
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| align="center" | [https://developer.nvidia.com/cudnn cudnn/7.4] | | align="center" | [https://developer.nvidia.com/cudnn cudnn/7.4] | ||
| align="center" | math | |||
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| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: The NVIDIA CUDA Deep Neural Network library (cuDNN) is a GPU-accelerated library of primitives for deep neural networks. Homepage: https://developer.nvidia.com/cudnn Keyword:math<br />'''Prerequisites:''' gcc/7.3.0 and cuda/10.0.130<br />'''Description:''' </div> | |||
|- | |||
| align="center" | [https://developer.nvidia.com/cudnn cudnn/7.5] | |||
| align="center" | math | | align="center" | math | ||
| align="center" | | | align="center" | | ||
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| align="center" | [http://gcc.gnu.org/ gcc/7.3.0] | | align="center" | [http://gcc.gnu.org/ gcc/7.3.0] | ||
| align="center" | tools | |||
| align="center" | | |||
| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: 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,...). Homepage: http://gcc.gnu.org/ Keyword:tools<br />'''Prerequisites:''' -<br />'''Description:''' </div> | |||
|- | |||
| align="center" | [http://gcc.gnu.org/ gcc/8.3.0] | |||
| align="center" | tools | | align="center" | tools | ||
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| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: A C library for reading/writing high-throughput sequencing data. This package includes the utilities bgzip and tabix Homepage: http://www.htslib.org/ Keyword:bio<br />'''Prerequisites:''' gcc/5.4.0 or intel/2016.4<br />'''Description:''' </div> | | <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: A C library for reading/writing high-throughput sequencing data. This package includes the utilities bgzip and tabix Homepage: http://www.htslib.org/ Keyword:bio<br />'''Prerequisites:''' gcc/5.4.0 or intel/2016.4<br />'''Description:''' </div> | ||
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| align="center" | [http://www.ichthyop.org/ ichthyop/3.3.3] | |||
| align="center" | - | |||
| align="center" | | |||
| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: Ichthyop is a free Java tool designed to study the effects of physical and biological factors on ichthyoplankton dynamics. It incorporates the most important processes involved in fish early life: spawning, movement, growth, mortality and recruitment. The tool uses as input time series of velocity, temperature and salinity fields archived from ROMS, MARS, NEMO or SYMPHONIE oceanic models (either files or OpenDAP). Homepage: http://www.ichthyop.org/<br />'''Prerequisites:''' -<br />'''Description:''' </div> | |||
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| align="center" | [https://www.ncbi.nlm.nih.gov/igblast/intro.html igblast/1.7.0] | | align="center" | [https://www.ncbi.nlm.nih.gov/igblast/intro.html igblast/1.7.0] | ||
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| align="center" | [http://software.intel.com/en-us/intel-mkl/ imkl/2019.2.187] | | align="center" | [http://software.intel.com/en-us/intel-mkl/ imkl/2019.2.187] | ||
| align="center" | math | |||
| align="center" | | |||
| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: Intel Math Kernel Library is a library of highly optimized, extensively threaded math routines for science, engineering, and financial applications that require maximum performance. Core math functions include BLAS, LAPACK, ScaLAPACK, Sparse Solvers, Fast Fourier Transforms, Vector Math, and more. Homepage: http://software.intel.com/en-us/intel-mkl/ Keyword:math<br />'''Prerequisites:''' -<br />'''Description:''' </div> | |||
|- | |||
| align="center" | [http://software.intel.com/en-us/intel-mkl/ imkl/2019.3.199] | |||
| align="center" | math | | align="center" | math | ||
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| align="center" | [http://software.intel.com/en-us/intel-cluster-toolkit-compiler/ intel/2018.3] | | align="center" | [http://software.intel.com/en-us/intel-cluster-toolkit-compiler/ intel/2018.3] | ||
| align="center" | tools | |||
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| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: Intel C, C++ and Fortran compilers Homepage: http://software.intel.com/en-us/intel-cluster-toolkit-compiler/ Keyword:tools<br />'''Prerequisites:''' -<br />'''Description:''' </div> | |||
|- | |||
| align="center" | [http://software.intel.com/en-us/intel-cluster-toolkit-compiler/ intel/2019.3] | |||
| align="center" | tools | | align="center" | tools | ||
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| align="center" | [http://llvm.org/ llvm/6.0.1] | | align="center" | [http://llvm.org/ llvm/6.0.1] | ||
| align="center" | tools | |||
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| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: The LLVM Core libraries provide a modern source- and target-independent optimizer, along with code generation support for many popular CPUs (as well as some less common ones!) These libraries are built around a well specified code representation known as the LLVM intermediate representation ("LLVM IR"). The LLVM Core libraries are well documented, and it is particularly easy to invent your own language (or port an existing compiler) to use LLVM as an optimizer and code generator. Homepage: http://llvm.org/ Keyword:tools<br />'''Prerequisites:''' -<br />'''Description:''' </div> | |||
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| align="center" | [http://llvm.org/ llvm/7.0.0] | |||
| align="center" | tools | | align="center" | tools | ||
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| align="center" | [http://icl.cs.utk.edu/magma/ magma/2.4.0] | | align="center" | [http://icl.cs.utk.edu/magma/ magma/2.4.0] | ||
| align="center" | math | |||
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| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: The MAGMA project aims to develop a dense linear algebra library similar to LAPACK but for heterogeneous/hybrid architectures, starting with current Multicore+GPU systems. Homepage: http://icl.cs.utk.edu/magma/ Keyword:math<br />'''Prerequisites:''' gcc/7.3.0 and cuda/10.0.130<br />'''Description:''' </div> | |||
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| align="center" | [http://icl.cs.utk.edu/magma/ magma/2.5.0] | |||
| align="center" | math | | align="center" | math | ||
| align="center" | | | align="center" | | ||
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| align="center" | tools | | align="center" | tools | ||
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| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: MPI for Python (mpi4py) provides bindings of the Message Passing Interface (MPI) standard for the Python programming language, allowing any Python program to exploit multiple processors. Homepage: https://bitbucket.org/mpi4py/mpi4py Keyword:tools<br />'''Prerequisites:''' gcc/5.4.0 and cuda/8.0.44 and openmpi/2.1.1 or gcc/5.4.0 and openmpi/2.1.1 or intel/2016.4 and openmpi/2.1.1<br />'''Description:''' </div> | | <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: MPI for Python (mpi4py) provides bindings of the Message Passing Interface (MPI) standard for the Python programming language, allowing any Python program to exploit multiple processors. Homepage: https://bitbucket.org/mpi4py/mpi4py Keyword:tools<br />'''Prerequisites:''' gcc/5.4.0 and cuda/8.0.44 and openmpi/2.1.1 or gcc/5.4.0 and openmpi/2.1.1 or gcc/6.4.0 and cuda/9.0.176 and openmpi/2.1.1 or intel/2016.4 and cuda/8.0.44 and openmpi/2.0.2 or intel/2016.4 and cuda/8.0.44 and openmpi/2.1.1 or intel/2016.4 and cuda/9.0.176 and openmpi/2.1.1 or intel/2016.4 and openmpi/2.1.1<br />'''Description:''' </div> | ||
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| align="center" | [http://mrbayes.csit.fsu.edu mrbayes/3.2.6] | | align="center" | [http://mrbayes.csit.fsu.edu mrbayes/3.2.6] | ||
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| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. - Homepage: http://www.unidata.ucar.edu/software/netcdf/ Keyword:io<br />'''Prerequisites:''' gcc/5.4.0 or intel/2016.4 or intel/2017.1<br />'''Description:''' </div> | | <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. - Homepage: http://www.unidata.ucar.edu/software/netcdf/ Keyword:io<br />'''Prerequisites:''' gcc/5.4.0 or intel/2016.4 or intel/2017.1<br />'''Description:''' </div> | ||
|- | |||
| align="center" | [http://www.lysator.liu.se/~nisse/nettle/ nettle/3.3] | |||
| align="center" | - | |||
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| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: Nettle is a cryptographic library that is designed to fit easily in more or less any context: In crypto toolkits for object-oriented languages (C++, Python, Pike, ...), in applications like LSH or GNUPG, or even in kernel space. Homepage: http://www.lysator.liu.se/~nisse/nettle/<br />'''Prerequisites:''' -<br />'''Description:''' </div> | |||
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| align="center" | [http://python.org/ networkx/1.1] | | align="center" | [http://python.org/ networkx/1.1] | ||
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| align="center" | [http://mdx.plm.automation.siemens.com/star-ccm-plus starccm-mixed/13.04.010] | | align="center" | [http://mdx.plm.automation.siemens.com/star-ccm-plus starccm-mixed/13.04.010] | ||
| align="center" | phys | |||
| align="center" | [[StarCCM]] | |||
| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: Predicting the real-world performance of a product requires simulation tools that span a variety of engineering disciplines. STAR-CCM+ is an all-in-one solution that delivers accurate and efficient multidisciplinary technologies in a single integrated user interface. This version uses mixed precision. Homepage: http://mdx.plm.automation.siemens.com/star-ccm-plus Keyword:phys CC-Wiki: StarCCM<br />'''Prerequisites:''' -<br />'''Description:''' </div> | |||
|- | |||
| align="center" | [http://mdx.plm.automation.siemens.com/star-ccm-plus starccm-mixed/13.06.012] | |||
| align="center" | phys | | align="center" | phys | ||
| align="center" | [[StarCCM]] | | align="center" | [[StarCCM]] | ||
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| align="center" | [http://mdx.plm.automation.siemens.com/star-ccm-plus starccm/13.04.010-R8] | | align="center" | [http://mdx.plm.automation.siemens.com/star-ccm-plus starccm/13.04.010-R8] | ||
| align="center" | phys | |||
| align="center" | [[StarCCM]] | |||
| <div class="mw-collapsible mw-collapsed" style="white-space: pre-line;"><br />Description: Predicting the real-world performance of a product requires simulation tools that span a variety of engineering disciplines. STAR-CCM+ is an all-in-one solution that delivers accurate and efficient multidisciplinary technologies in a single integrated user interface. This verison uses double precision. Homepage: http://mdx.plm.automation.siemens.com/star-ccm-plus Keyword:phys CC-Wiki: StarCCM<br />'''Prerequisites:''' -<br />'''Description:''' </div> | |||
|- | |||
| align="center" | [http://mdx.plm.automation.siemens.com/star-ccm-plus starccm/13.06.012-R8] | |||
| align="center" | phys | | align="center" | phys | ||
| align="center" | [[StarCCM]] | | align="center" | [[StarCCM]] | ||