Difference between revisions of "Apps Queue"
Line 6: | Line 6: | ||
|'''Application Name''' | |'''Application Name''' | ||
|'''Installation Status''' | |'''Installation Status''' | ||
|'''Estimated Start''' | |||
|'''Estimated Completion''' | |'''Estimated Completion''' | ||
|'''Notes''' | |'''Notes''' | ||
|- | |- | ||
|- | |- | ||
|<span style="color: | |<span style="color:red">SCIP 5.0.1</span> | ||
|<span style="color: | |<span style="color:red">Stalled</span> | ||
|<span style="color: | |<span style="color:red">Apr 2018</span> | ||
| | | | ||
|Stalled due to issues with some dependencies | |||
|- | |||
|<span style="color:green">OrthoFinder 2.2.1</span> | |||
|<span style="color:green">In Progress</span> | |||
|<span style="color:green">May 2018</span> | |||
|<span style="color:green">July 2018</span> | |||
|Requires 9 additional dependencies | |||
|- | |- | ||
|<span style="color:green">Quantum ESPRESSO v6.2.1</span> | |<span style="color:green">Quantum ESPRESSO v6.2.1</span> | ||
|<span style="color:green">In Progress</span> | |<span style="color:green">In Progress</span> | ||
|<span style="color:green">Jun 2018</span> | |||
|<span style="color:green">Jun 2018</span> | |<span style="color:green">Jun 2018</span> | ||
| | | | ||
Line 23: | Line 32: | ||
|<span style="color:blue">Pending</span> | |<span style="color:blue">Pending</span> | ||
|<span style="color:blue">Jun 2018</span> | |<span style="color:blue">Jun 2018</span> | ||
| | |||
| | | | ||
|- | |- | ||
Line 28: | Line 38: | ||
|<span style="color:blue">Pending</span> | |<span style="color:blue">Pending</span> | ||
|<span style="color:blue">Jun 2018</span> | |<span style="color:blue">Jun 2018</span> | ||
| | |||
| | |||
|- | |||
|<span style="color:blue">Antelope 5.8</span> | |||
|<span style="color:blue">Pending</span> | |||
|<span style="color:blue">July 2018</span> | |||
| | |||
| | |||
|- | |||
|<span style="color:blue">GISMO 1.1.0</span> | |||
|<span style="color:blue">Pending</span> | |||
|<span style="color:blue">July 2018</span> | |||
| | |||
| | |||
|- | |||
|<span style="color:blue">MPIR</span> | |||
|<span style="color:blue">Pending</span> | |||
|<span style="color:blue">July 2018</span> | |||
| | |||
| | |||
|- | |||
|<span style="color:blue">Yasm</span> | |||
|<span style="color:blue">Pending</span> | |||
|<span style="color:blue">July 2018</span> | |||
| | |||
| | |||
|- | |||
|<span style="color:blue">MPFR</span> | |||
|<span style="color:blue">Pending</span> | |||
|<span style="color:blue">July 2018</span> | |||
| | |||
| | |||
|- | |||
|<span style="color:blue">FLINT</span> | |||
|<span style="color:blue">Pending</span> | |||
|<span style="color:blue">July 2018</span> | |||
| | |||
| | | | ||
|} | |} | ||
Line 38: | Line 85: | ||
|'''Date Completed''' | |'''Date Completed''' | ||
|'''License Type''' | |'''License Type''' | ||
|'''Notes''' | |||
|'''Additional Info''' | |'''Additional Info''' | ||
|- | |||
|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 | |||
| | |||
|- | |||
|[[Blast|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 and an update to Perl 5.27 | |||
| | |||
|- | |- | ||
|LinBox 1.5.2 | |LinBox 1.5.2 | ||
|05/22/2018 | |05/22/2018 | ||
|Open Source | |Open Source | ||
|Required updated install of 8 additional library packages | |||
| | | | ||
|- | |- | ||
|Matlab R2018a | |[[Matlab|Matlab R2018a]] | ||
|05/14/2018 | |05/14/2018 | ||
|USF Site License | |USF Site License | ||
| | |||
| | | | ||
|- | |- | ||
|Mathematica 11.3 | |[[Mathematica|Mathematica 11.3]] | ||
|05/11/2018 | |05/11/2018 | ||
|USF Site License | |USF Site License | ||
| | |||
| | | | ||
|- | |- | ||
|Julia 0.6.2 | |[[Julia|Julia 0.6.2]] | ||
|05/03/2018 | |05/03/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 63: | Line 133: | ||
|04/30/2017 | |04/30/2017 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
| | |RSEM 1.3.0 | ||
|04/27/2018 | |04/27/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 73: | Line 145: | ||
|04/26/2018 | |04/26/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 78: | Line 151: | ||
|04/20/2018 | |04/20/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 83: | Line 157: | ||
|04/19/2018 | |04/19/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 88: | Line 163: | ||
|04/18/2018 | |04/18/2018 | ||
|USF Site License | |USF Site License | ||
| | |||
| | | | ||
|- | |- | ||
Line 93: | Line 169: | ||
|04/12/2018 | |04/12/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 98: | Line 175: | ||
|04/05/2018 | |04/05/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 103: | Line 181: | ||
|03/30/2018 | |03/30/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 108: | Line 187: | ||
|03/15/2018 | |03/15/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 113: | Line 193: | ||
|02/28/2018 | |02/28/2018 | ||
|GNU License | |GNU License | ||
| | |||
| | | | ||
|- | |- | ||
Line 118: | Line 199: | ||
|03/14/2018 | |03/14/2018 | ||
|GNU License | |GNU License | ||
| | |||
| | | | ||
|- | |- | ||
Line 123: | Line 205: | ||
|02/28/2018 | |02/28/2018 | ||
|USF Site License | |USF Site License | ||
| | |||
| | | | ||
|- | |- | ||
Line 128: | Line 211: | ||
|02/26/2018 | |02/26/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 133: | Line 217: | ||
|02/12/2018 | |02/12/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 138: | Line 223: | ||
|02/07/2018 | |02/07/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 143: | Line 229: | ||
|02/05/2018 | |02/05/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 148: | Line 235: | ||
|01/30/2018 | |01/30/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | |||
|- | |- | ||
|[[MEGA|MEGA-CC 7.0.26-1]] | |[[MEGA|MEGA-CC 7.0.26-1]] | ||
|01/08/2018 | |01/08/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 157: | Line 247: | ||
|01/08/2018 | |01/08/2018 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 162: | Line 253: | ||
|12/14/2017 | |12/14/2017 | ||
|Restricted - Authorized users only | |Restricted - Authorized users only | ||
| | |||
|Electrical Engineering | |Electrical Engineering | ||
|- | |- | ||
Line 167: | Line 259: | ||
|12/14/2017 | |12/14/2017 | ||
|Restricted - Authorized users only | |Restricted - Authorized users only | ||
| | |||
|Electrical Engineering | |Electrical Engineering | ||
|- | |- | ||
Line 172: | Line 265: | ||
|11/22/2017 | |11/22/2017 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 177: | Line 271: | ||
|11/01/2017 | |11/01/2017 | ||
|Open Source | |Open Source | ||
| | |||
|Python tools and scripts for analysis of epiGBS data. | |Python tools and scripts for analysis of epiGBS data. | ||
|- | |- | ||
Line 182: | Line 277: | ||
|10/26/2017 | |10/26/2017 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 187: | Line 283: | ||
|10/23/2017 | |10/23/2017 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 192: | Line 289: | ||
|10/18/2017 | |10/18/2017 | ||
|USF Site License | |USF Site License | ||
| | |||
| | | | ||
|- | |- | ||
Line 197: | Line 295: | ||
|10/17/2017 | |10/17/2017 | ||
|Academic Use License | |Academic Use License | ||
| | |||
| | | | ||
|- | |- | ||
Line 202: | Line 301: | ||
|10/16/2017 | |10/16/2017 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 207: | Line 307: | ||
|10/09/2017 | |10/09/2017 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 217: | Line 318: | ||
|09/27/2017 | |09/27/2017 | ||
|Open Source | |Open Source | ||
| | |||
|Tools for use with python | |Tools for use with python | ||
|- | |- | ||
Line 222: | Line 324: | ||
|09/15/2017 | |09/15/2017 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 227: | Line 330: | ||
|08/14/2017 | |08/14/2017 | ||
|Open Source | |Open Source | ||
| | |||
|Tools for Java-based projects | |Tools for Java-based projects | ||
|- | |- | ||
Line 232: | Line 336: | ||
|08/11/2017 | |08/11/2017 | ||
|Academic Use License | |Academic Use License | ||
| | |||
| | | | ||
|- | |- | ||
Line 237: | Line 342: | ||
|08/10/2017 | |08/10/2017 | ||
|USF Site License | |USF Site License | ||
| | |||
| | | | ||
|- | |- | ||
Line 242: | Line 348: | ||
|08/04/2017 | |08/04/2017 | ||
|USF Site License | |USF Site License | ||
| | |||
| | | | ||
|- | |- | ||
Line 247: | Line 354: | ||
|07/28/2017 | |07/28/2017 | ||
|Academic Use License | |Academic Use License | ||
| | |||
| | | | ||
|- | |- | ||
Line 252: | Line 360: | ||
|07/14/2017 | |07/14/2017 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 257: | Line 366: | ||
|07/12/2017 | |07/12/2017 | ||
|Open Source | |Open Source | ||
| | |||
| | | | ||
|- | |- | ||
Line 263: | Line 373: | ||
|USF Site License | |USF Site License | ||
| | | | ||
| | | | ||
|} | |} |
Revision as of 19:19, 19 June 2018
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 | |
Wannier90 v2.1.0 | Pending | Jun 2018 | ||
Maple 2018 | Pending | Jun 2018 | ||
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 |
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 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.