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| |<span style="color:green">Ansys Multiphysics 2019 R1</span> | | |<span style="color:red">GAP 4.11</span> |
| |<span style="color:green">In Progress</span> | | |<span style="color:red">In Progress</span> |
| |<span style="color:green">Apr 2019</span> | | |<span style="color:red">June 2021</span> |
| |<span style="color:green">Apr 2019</span> | | |<span style="color:red">July 2021</span> |
| | | | |<span style="color:red">Stalled due to issues with dependent packages</span> |
| |- | | |- |
| |<span style="color:green">Ansys Electromagnetics 2019 R1</span> | | |<span style="color:green">Intel OneAPI Toolkit 2021</span> |
| |<span style="color:green">In Progress</span> | | |<span style="color:green">In Progress</span> |
| |<span style="color:green">Apr 2019</span> | | |<span style="color:green">June 2021</span> |
| |<span style="color:green">Apr 2019</span> | | |<span style="color:green">July 2021</span> |
| | | | | |
| |- | | |- |
| |<span style="color:green">Gem5 Simulator</span> | | |<span style="color:green">Haddock 2.4</span> |
| |<span style="color:green">In Progress</span> | | |<span style="color:green">In Progress</span> |
| |<span style="color:green">Apr 2019</span> | | |<span style="color:green">June 2021</span> |
| |<span style="color:green">Apr 2019</span> | | |<span style="color:green">July 2021</span> |
| | | | | |
| |- | | |- |
| |<span style="color:blue">Maple 2019</span> | | |<span style="color:blue">Amber20/AmberTools2020</span> |
| |<span style="color:blue">Pending</span> | | |<span style="color:blue">Pending</span> |
| |<span style="color:blue">Apr 2019</span> | | |<span style="color:blue">July 2021</span> |
| | | | | |
| | | | | |
| |- | | |- |
| |<span style="color:blue">Matlab R2019a</span> | | |<span style="color:blue">GNUplot 5.4</span> |
| |<span style="color:blue">Pending</span> | | |<span style="color:blue">Pending</span> |
| |<span style="color:blue">Apr 2019</span> | | |<span style="color:blue">July 2021</span> |
| | | | | |
| | | | | |
| |- | | |- |
| |<span style="color:blue">Amber16/AmberTools18</span> | | |<span style="color:blue">MuTect</span> |
| |<span style="color:blue">Pending</span> | | |<span style="color:blue">Pending</span> |
| |<span style="color:blue">Apr 2019</span> | | |<span style="color:blue">July 2021</span> |
| | | | | |
| | | | | |
| |- | | |- |
| |<span style="color:blue">Mathematica 12</span> | | |<span style="color:blue">Mummer</span> |
| |<span style="color:blue">Pending</span> | | |<span style="color:blue">Pending</span> |
| |<span style="color:blue">May 2019</span> | | |<span style="color:blue">July 2021</span> |
| | | | | |
| | | | | |
| |}
| |
|
| |
| = Recently Completed Software Projects =
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|
| |
| {| class=wikitable
| |
| |- style="background-color:#f1edbe;"
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| |'''Application Name'''
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| |'''Date Completed'''
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| |'''License Type'''
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| |'''Notes'''
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| |'''Additional Info'''
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| |- | | |- |
| |[[Stacks|Stacks 2.3e]] | | |<span style="color:blue">Psi4 1.3.2</span> |
| |04/09/2019
| | |<span style="color:blue">Pending</span> |
| |Open Source
| | |<span style="color:blue">Aug 2021</span> |
| |
| |
| |
| |
| |-
| |
| |SeqTK 1.0
| |
| |03/20/2019
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| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |Deblur 1.1.0
| |
| |03/18/2019
| |
| |Open Source
| |
| |Python add-on module.
| |
| |Loads with apps/python/3.6.2
| |
| |-
| |
| |Anvio 5.4
| |
| |03/15/2019
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |Prodigal 2.6.2
| |
| |03/15/2019
| |
| |Open Source | |
| |
| |
| |
| |
| |-
| |
| |Bayestraits 3.0.1
| |
| |03/14/2019
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[R_and_Rmpi|R 3.5.2]]
| |
| |03/04/2019
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |Ataqv 1.0.0
| |
| |02/27/2019
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |AfterQC 0.9.7
| |
| |02/19/2019
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |Tophat 2.1.1
| |
| |02/15/2019
| |
| |Open Source
| |
| |Revision
| |
| |
| |
| |-
| |
| |Intel Parallel Studio XE 2019
| |
| |02/11/2019
| |
| |USF Site License
| |
| |
| |
| |
| |
| |-
| |
| |HOMER 4.10
| |
| |02/05/2019
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |bcbio-nextgen 1.1.3
| |
| |01/30/2019
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |Reporter 0.7.15
| |
| |01/29/2019
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| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |DeNovoGUI 1.16.2
| |
| |01/29/2019
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |PeptideShaker 1.16.37
| |
| |01/29/2019
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[GDC-client|GDC-client 1.4.0]]
| |
| |01/28/2019
| |
| |Open Source
| |
| |Python add-on module
| |
| |Loads with apps/python/2.7.15
| |
| |-
| |
| |[[COMSOL|COMSOL 5.4]]
| |
| |01/28/2019
| |
| |USF Site License
| |
| |
| |
| |
| |
| |-
| |
| |SearchGUI 3.3.12
| |
| |01/28/2019
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |SICKLE 1.33
| |
| |01/28/2019
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |MultiQC Version 1.7
| |
| |01/22/2019
| |
| |Open Source
| |
| |Python add-on module.
| |
| |Loads with apps/python/2.7.15
| |
| |-
| |
| |ImageMagick++ 7.0.8-23
| |
| |01/11/2019
| |
| |Open Source
| |
| |Built with Intel compiler suite 2017.
| |
| |
| |
| |-
| |
| |[[Subread|Subread 1.6.3]]
| |
| |01/11/2019
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[LAMMPS|LAMMPS 12Dec18]]
| |
| |12/21/2018
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| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[ABySS|ABySS 2.1.5]]
| |
| |12/18/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |Boost 1.69.0
| |
| |12/18/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |SparseHash v07-26-2016
| |
| |12/18/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[Burrows-Wheeler Alignment (BWA)|BWA 0.7.17]]
| |
| |12/14/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[ANSYS_EDT_(formerly_HFSS)|Ansys Electronics Desktop Suite v19.2]]
| |
| |11/29/2018
| |
| |Restricted - Authorized users only
| |
| |
| |
| |Electromagnetic and circuit design applications including HFSS, Maxwell, etc.
| |
| |-
| |
| |[[ANSYS|Ansys Multiphysics v19.2]]
| |
| |11/29/2018
| |
| |Restricted - Authorized users only
| |
| |
| |
| |ANSYS finite-element analysis applications
| |
| | |
| |-
| |
| |Artemis 17.0.2
| |
| |11/08/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |Trinotate 3.1.1
| |
| |11/06/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |Transdecoder 5.5.0
| |
| |11/06/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |PLINK 2.00a
| |
| |10/30/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |HTSeq 0.11.0
| |
| |10/29/2018
| |
| |Open Source
| |
| |Python add-on module.
| |
| |Loads with apps/python/2.7.15
| |
| |-
| |
| |METAL r2018-08-28
| |
| |10/29/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |HMMR 3.2.1
| |
| |10/29/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |GffCompare v0.10.6
| |
| |10/25/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |GATK 4.0.10
| |
| |10/24/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |Schrodinger Suite 2018
| |
| |10/23/2018
| |
| |Restricted - Authorized users only
| |
| |
| |
| |
| |
| |-
| |
| |RepeatMasker 4.0.7
| |
| |10/19/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |MEME 5.0.2
| |
| |10/16/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[Matlab|Matlab R2018b]]
| |
| |10/12/2018
| |
| |USF Site License
| |
| |
| |
| |
| |
| |-
| |
| |STAR 2.6.0a
| |
| |10/11/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |Cell Ranger 2.1.0
| |
| |10/08/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |RUST 1.29.1
| |
| |10/05/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |Go Programming Language 1.11.1
| |
| |10/05/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |IBM CPLEX Optimization Studio 12.8
| |
| |10/05/2018
| |
| |Academic License
| |
| |
| |
| |
| |
| |-
| |
| |CellProfiler 3.1.5
| |
| |10/02/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |BEDOPS 2.4.35
| |
| |10/01/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |BEAST 1.10.1
| |
| |09/27/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |AdapterRemoval 2.1.7
| |
| |09/27/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |LiftOver 2018-0918
| |
| |09/26/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |Kallisto 0.44.0
| |
| |09/24/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |IGV 2.4.14
| |
| |09/21/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[MAGMA|MAGMA 2.24-1]]
| |
| |09/17/2018
| |
| |Restricted - Authorized users only
| |
| |
| |
| |
| |
| |-
| |
| |FLINT 2.5.2
| |
| |09/07/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |MPFR 4.0.1
| |
| |09/06/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |MPIR 3.0.0
| |
| |09/05/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |YASM 1.3.0
| |
| |09/04/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |OrthoFinder 2.2.7
| |
| |08/30/2018
| |
| |Open Source
| |
| |Updated to recently released 2.2.7 and integrated with 9 additional dependencies.
| |
| |
| |
| |-
| |
| |[[Maple|Maple 2018]]
| |
| |08/17/2018
| |
| |USF Site License
| |
| |
| |
| |
| |
| |-
| |
| |[[Mothur|Mothur 1.40.5]]
| |
| |07/31/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |GISMO 1.1.0
| |
| |07/26/2018
| |
| |Open Source
| |
| |Matlab add-on package for seismic data analysis
| |
| |Installed and available in /apps/matlab/share/GISMO on the CIRCE cluster.
| |
| |-
| |
| |[[Development_Tools|Perl 5.28.0]]
| |
| |07/12/2018
| |
| |Open Source
| |
| |Newer version of Perl programming language needed for some applications.
| |
| |
| |
| |-
| |
| |[[SCIP|SCIP 6.0.0]]
| |
| |07/02/2018
| |
| |Open Source
| |
| |Dependency issues prevented 5.X versions from installing properly. A work-around was developed and found to be valid with the 6.0.0 version.
| |
| |Contact rc-help@usf.edu for details regarding work-around if SCIP > 3.1.1 is needed.
| |
| |-
| |
| |[[ANSYS_EDT_(formerly_HFSS)|Ansys Electronics Desktop Suite v19.1]]
| |
| |06/29/2018
| |
| |Restricted - Authorized users only | |
| |
| |
| |Electromagnetic and circuit design applications including HFSS, Maxwell, etc.
| |
| |-
| |
| |[[ANSYS|Ansys Multiphysics v19.1]]
| |
| |06/29/2018
| |
| |Restricted - Authorized users only
| |
| |
| |
| |ANSYS finite-element analysis applications
| |
| |-
| |
| |[[Wannier90|Wannier90 2.1.0]]
| |
| |06/29/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[Quantum_Espresso|Quantum Espresso 6.2.1]]
| |
| |06/28/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[MaxQuant|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 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
| |
| |
| |
| |-
| |
| |MPlus 8
| |
| |05/15/2018
| |
| |Restricted - Authorized users only
| |
| |
| |
| |
| |
| |-
| |
| |[[Matlab|Matlab R2018a]]
| |
| |05/14/2018
| |
| |USF Site License
| |
| |
| |
| |
| |
| |-
| |
| |[[Mathematica|Mathematica 11.3]]
| |
| |05/11/2018
| |
| |USF Site License
| |
| |
| |
| |
| |
| |-
| |
| |[[Julia|Julia 0.6.2]]
| |
| |05/03/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[R_and_Rmpi|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
| |
| |
| |
| |
| |
| |-
| |
| |[[Bowtie2|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|SIESTA 4.0.1]]
| |
| |04/05/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[SPAdes|SPAdes 3.11.1]]
| |
| |03/30/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |Psi4 1.1
| |
| |03/15/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[Development_Tools|GCC 7.3.0]]
| |
| |02/28/2018
| |
| |GNU License
| |
| |
| |
| |
| |
| |-
| |
| |[[Development_Tools|OpenMPI 2.0.4]]
| |
| |03/14/2018
| |
| |GNU License
| |
| |
| |
| |
| |
| |-
| |
| |[[COMSOL|COMSOL 5.3a]]
| |
| |02/28/2018
| |
| |USF Site License
| |
| |
| |
| |
| |
| |-
| |
| |[[Trinity|Trinity 2.6.5]]
| |
| |02/26/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[SageMath|SageMath 7.5.1]]
| |
| |02/12/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[Cufflinks|Cufflinks 2.2.1]]
| |
| |02/07/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[ORCA|ORCA 4.0.1]]
| |
| |02/05/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[SPECFEM3D|SPECFEM3D 3.0]]
| |
| |01/30/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[MEGA|MEGA-CC 7.0.26-1]]
| |
| |01/08/2018
| |
| |Open Source
| |
| |
| |
| |
| |
| |-
| |
| |[[MUSCLE|MUSCLE 3.8.31]]
| |
| |01/08/2018
| |
| |Open Source
| |
| | | | | |
| | | | | |