Apps Queue
Revision as of 15:57, 24 September 2018 by Tgreen (talk | contribs) (→Recently Completed Software Projects)
Typical Software Installation Process
List of Current Software Projects
| Application Name | Installation Status | Estimated Start | Estimated Completion | Notes |
| SCIP 5.0.1 | Stalled | Apr 2018 | Stalled due to issues with some dependencies | |
| OrthoFinder 2.2.1 | In Progress | May 2018 | July 2018 | Requires 9 additional dependencies |
| Quantum ESPRESSO v6.2.1 | In Progress | Jun 2018 | Jun 2018 | Main install completed on Jun 28. Minor cleanup remaining. |
| Wannier90 v2.1.0 | In Progress | Jun 2018 | July 2018 | |
| Maple 2018 | In Progress | July 2018 | July 2018 | |
| FastTree v2.1 | In Progress | Jun 2018 | July 2018 | Required dependency for Orthofinder |
| Antelope 5.8 | Pending | July 2018 | ||
| GISMO 1.1.0 | Pending | July 2018 | ||
| MPIR | Pending | July 2018 | ||
| Yasm | Pending | July 2018 | ||
| MPFR | Pending | July 2018 | ||
| FLINT | Pending | July 2018 |
Recently Completed Software Projects
| Application Name | Date Completed | License Type | Notes | Additional Info |
| Ansys Electronics Desktop Suite v19.1 | 05/29/2018 | Restricted - Authorized users only | Electromagnetic and circuit design applications including HFSS, Maxwell, etc. | |
| Ansys Multiphysics v19.1 | 05/29/2018 | Restricted - Authorized users only | ANSYS finite-element analysis applications | |
| MaxQuant 1.6.2.3 | 06/15/2018 | Academic License | Required an update of system tool "mono" to the specific version 5.4.1.7 | |
| NCBI Blast 2.7.1+ | 06/07/2018 | Open Source | Issues encountered and resolved when compiling on RHEL6 using Intel compilers | Standalone and dependency for OrthoFinder |
| Circos 0.69-6 | 06/06/2018 | Open Source | Requires additional Perl modules for full functionality and an update to Perl 5.27 | |
| LinBox 1.5.2 | 05/22/2018 | Open Source | Required updated install of 8 additional library packages | |
| Matlab R2018a | 05/14/2018 | USF Site License | ||
| Mathematica 11.3 | 05/11/2018 | USF Site License | ||
| Julia 0.6.2 | 05/03/2018 | Open Source | ||
| R 3.5.0 | 04/30/2017 | Open Source | ||
| RSEM 1.3.0 | 04/27/2018 | Open Source | ||
| Tophat 2.1.1 | 04/26/2018 | Open Source | ||
| Pear 0.9.11 | 04/20/2018 | Open Source | ||
| Bowtie 2.3.4.1 | 04/19/2018 | Open Source | ||
| Intel Parallel Studio XE 2018 | 04/18/2018 | USF Site License | ||
| Trimmomatic 0.36 | 04/12/2018 | Open Source | ||
| SIESTA 4.0.1 | 04/05/2018 | Open Source | ||
| SPAdes 3.11.1 | 03/30/2018 | Open Source | ||
| Psi4 1.1 | 03/15/2018 | Open Source | ||
| GCC 7.3.0 | 02/28/2018 | GNU License | ||
| OpenMPI 2.0.4 | 03/14/2018 | GNU License | ||
| 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 |
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.