Difference between revisions of "Apps Queue"
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|<span style="color:green">In Progress</span> | |<span style="color:green">Bowtie2 2.3.4</span> | ||
|<span style="color:green">In Progress</span> | |||
|<span style="color:green">Mar 2018</span> | |<span style="color:green">Mar 2018</span> | ||
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|<span style="color: | |<span style="color:green">Trimmomatic 0.36</span> | ||
|<span style="color:green">In Progress</span> | |||
|<span style="color:green">Mar 2018</span> | |||
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Revision as of 17:16, 5 March 2018
Typical Software Installation Process
List of Current Software Projects
| Application Name | Installation Status | Estimated Completion | Notes |
| Bowtie2 2.3.4 | In Progress | Mar 2018 | |
| Trimmomatic 0.36 | In Progress | Mar 2018 | |
| SPAdes 3.11.1 | Pending | Mar 2018 | |
| Quantum ESPRESSO v6.2.1 | Pending | Mar 2018 | |
| Wannier90 v2.1.0 | Pending | Mar 2018 |
Recently Completed Software Projects
| Application Name | Date Completed | License Type | Additional Info |
| COMSOL 5.3a | 02/28/2018 | USF Site License | |
| Trinity 2.6.5 | 02/26/2018 | Open Source | |
| SageMath 7.5.1 | 02/12/2018 | Open Source | |
| Cufflinks 2.2.1 | 02/07/2018 | Open Source | |
| ORCA 4.0.1 | 02/05/2018 | Open Source | |
| SPECFEM3D 3.0 | 01/30/2018 | Open Source | |
| MEGA-CC 7.0.26-1 | 01/08/2018 | Open Source | |
| MUSCLE 3.8.31 | 01/08/2018 | Open Source | |
| Xilinx ISE 14.7 | 12/14/2017 | Restricted - Authorized users only | Electrical Engineering |
| Xilinx Vivado 2017.3 | 12/14/2017 | Restricted - Authorized users only | Electrical Engineering |
| GDC Data Transfer Tool 1.3.0 | 11/22/2017 | Open Source | |
| epiGBS | 11/01/2017 | Open Source | Python tools and scripts for analysis of epiGBS data. |
| xHLA 10.04.2017 | 10/26/2017 | Open Source | |
| R 3.4.2 | 10/23/2017 | Open Source | |
| Matlab R2017b | 10/18/2017 | USF Site License | |
| Gurobi 7.5.1 | 10/17/2017 | Academic Use License | |
| FastQC 0.11.5 | 10/16/2017 | Open Source | |
| bcbio-nextgen 1.0.5 | 10/09/2017 | Open Source | |
| QIIME2 2017.8 | 10/04/2017 | Open Source | |
| Anaconda 5.0.0 | 09/27/2017 | Open Source | Tools for use with python |
| Trim Galore 0.4.4 | 09/15/2017 | Open Source | |
| Apache Maven 3.5.0 | 08/14/2017 | Open Source | Tools for Java-based projects |
| Rosetta 3.5 | 08/11/2017 | Academic Use License | |
| Agilent ADS 2016_01 | 08/10/2017 | USF Site License | |
| Maple 2017 | 08/04/2017 | USF Site License | |
| MaSuRCA 3.2.2 | 07/28/2017 | Academic Use License | |
| Jellyfish 2.2.6 | 07/14/2017 | Open Source | |
| TraCeR 0.15.2 | 07/12/2017 | Open Source | |
| SAS 9.4 Rev TS1M4 | 07/11/2017 | USF Site License | |
| NAMD 2.12 | 06/30/2016 | Academic Use License | Includes CUDA support |
| MHC epitope predictors 2.17 | 06/16/2017 | Academic Use License | |
| R 3.4.0 | 06/12/2017 | Open Source | |
| ANSYS Suite 18.1 | 06/07/2016 | Restricted - Authorized users only | ANSYS finite-element analysis applications |
| Ansys Electronics Desktop 18.1 | 06/07/2016 | Restricted - Authorized users only | ANSYS electromagnetic and circuit design applications |
| GATK 3.7 | 06/02/2016 | Academic Use License | |
| STATA 14 | 05/26/2016 | Restricted - Authorized users only | |
| COMSOL 5.3 | 05/22/2016 | USF Site License | |
| Julia 0.5.2 | 05/15/2017 | Open Source | |
| GMT 5.4.0 | 05/11/2017 | Open Source | |
| Mathematica 11.1 | 05/08/2017 | USF Site License | |
| VASP 5.4.4 | 05/04/2017 | Restricted - Authorized users only | Includes CUDA support |
| CUDA 8.0 toolkit | 05/01/2017 | Free-to-use | Nvidia drivers updated to 375.26 |
| SAS 9.4 Rev TS1M2 | 04/28/2017 | USF Site License | |
| Matlab R2017a | 04/13/2017 | USF Site License | |
| Java JDK 1.8.1_121 | 03/22/2017 | Open Source | |
| CircuitScape 4.0.5 | 03/14/2017 | Open Source | Python module built with Python 2.7.5 |
| DeepMask v0.1 | 03/03/2017 | Open Source | |
| SMRT Analysis v2.3.0 | 02/17/2017 | Open Source |
Typical Software Installation Process
- New request is submitted via email to: rc-help@usf.edu
- Please include name of software, license type, and URL to software's website.
- Application is reviewed by RC staff for compatibility with Linux and cluster resources.
- Also, is it open source or is a license required?
- Source code or installer is downloaded to cluster filesystem.
- Application is built using latest Intel Cluster Studio release, if possible.
- Compilation for cluster systems and troubleshooting can take several hours to a few days depending on the complexity of the application.
- Once a working executable has been built, it must then be integrated with the filesystem, modules, scheduler, and other services.
- Testing and verification of compatibility with scheduler and cluster resources.
- Documentation and release.