HPC Cluster Software Resources: Difference between revisions
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| Amber16<br>Amber18 || <code>module add amber/16</code><br><code>module add amber/18</code> || http://ambermd.org/Manuals.php || Amber is a suite of biomolecular simulation programs | | Amber16<br>Amber18 || <code>module add amber/16</code><br><code>module add amber/18</code> || http://ambermd.org/Manuals.php || Amber is a suite of biomolecular simulation programs | ||
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| Athena || <code>module add athena</code> || https://princetonuniversity.github.io/Athena-Cversion/ || Athena is a grid-based code for astrophysical magnetohydrodynamics (MHD) | | Athena || <code>module add athena/4.2</code> || https://princetonuniversity.github.io/Athena-Cversion/ || Athena is a grid-based code for astrophysical magnetohydrodynamics (MHD) | ||
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| Athena++ || <code>module add athena++</code> || https://princetonuniversity.github.io/athena/ || Athena++ is a complete re-write of the Athena astrophysical magnetohydrodynamics (MHD) code in C++ | | Athena++ || <code>module add athena++/1.0</code> || https://princetonuniversity.github.io/athena/ || Athena++ is a complete re-write of the Athena astrophysical magnetohydrodynamics (MHD) code in C++ | ||
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| Blast+ || <code>module add blast+/2.7.1</code> || https://www.ncbi.nlm.nih.gov/books/NBK279690/ || Basic Local Alignment Search Tool | | Blast+ || <code>module add blast+/2.7.1</code> || https://www.ncbi.nlm.nih.gov/books/NBK279690/ || Basic Local Alignment Search Tool | ||
Revision as of 18:18, 16 May 2019
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| Application Name | Module Command | Application Website/Docs | Notes |
|---|---|---|---|
| Amber16 Amber18 |
module add amber/16module add amber/18 |
http://ambermd.org/Manuals.php | Amber is a suite of biomolecular simulation programs |
| Athena | module add athena/4.2 |
https://princetonuniversity.github.io/Athena-Cversion/ | Athena is a grid-based code for astrophysical magnetohydrodynamics (MHD) |
| Athena++ | module add athena++/1.0 |
https://princetonuniversity.github.io/athena/ | Athena++ is a complete re-write of the Athena astrophysical magnetohydrodynamics (MHD) code in C++ |
| Blast+ | module add blast+/2.7.1 |
https://www.ncbi.nlm.nih.gov/books/NBK279690/ | Basic Local Alignment Search Tool |
| Cassandra | module add cassandra/1.2 |
https://cassandra.nd.edu/index.php/documentation | Cassandra is an open source Monte Carlo package |
| cuda/8.0 cuda/9.2 cuda/10.0 |
module add cuda/8.0module add cuda/9.2module add cuda/10.0 |
https://docs.nvidia.com/cuda/ | Default is CUDA 9.2 if using module add cuda
|
| cuDNN | module add cudnn/5.05module add cudnn/5.1.10module add cudnn/6.0.21 |
https://docs.nvidia.com/deeplearning/sdk/cudnn-developer-guide/index.html | - |
| ELSA Tutorial | module add elsa-tutorial/1.0 |
TBA | Used with ELSA SLURM tutorial |
| ESPResSo | module add espresso/3.3.1 |
http://espressomd.org/wordpress/documentation/ | Extensible Simulation Package for Research on Soft Matter |
| FASTX-Toolkit | module add fastx/0.0.14 |
http://hannonlab.cshl.edu/fastx_toolkit/commandline.html | FASTQ/A short-reads pre-processing tools |
| FFmpeg | module add ffmpeg/2.8 |
https://ffmpeg.org/ffmpeg.html | ffmpeg is a very fast video and audio converter |
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