Cheaha Software: Difference between revisions
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==Software modules installed on Cheaha== | ==Software modules installed on Cheaha== | ||
{| border="1" align="center" cellpadding="10" style="text-align:center;" | {| border="1" align="center" cellpadding="10" style="text-align:center;" | ||
|+ Current as of | |+ Current as of '''April 15th 2013''' | ||
! Software | ! Software | ||
! Latest Version | ! Latest Version | ||
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|'''[[ANNOVAR]]''' | |'''[[ANNOVAR]]''' | ||
|2012Feb23 | |2012Feb23 | ||
| | |||
| | |||
|- | |||
|'''[[ANSYS]]''' | |||
|14.0 | |||
| | | | ||
| | | | ||
| Line 89: | Line 94: | ||
|2.02 | |2.02 | ||
| | | | ||
| | |?? | ||
|- | |- | ||
|'''[[ENT]]''' | |'''[[ENT]]''' | ||
| Line 107: | Line 112: | ||
|- | |- | ||
|'''[[FreeSurfer]]''' | |'''[[FreeSurfer]]''' | ||
| | |5.2.0 | ||
| | | | ||
| | | | ||
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| | | | ||
|- | |- | ||
|genn | |'''[[genn]]''' | ||
| | | | ||
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|- | |- | ||
|'''[[Gromacs]]''' | |'''[[Gromacs]]''' | ||
|4. | |4.6.1 | ||
|4 | |4,4.5 | ||
|gnu/intel | |gnu/intel | ||
|- | |- | ||
| Line 183: | Line 188: | ||
|'''[[MACS]]''' | |'''[[MACS]]''' | ||
|1.3.6 | |1.3.6 | ||
| | |||
| | |||
|- | |||
|'''[[Magma]]''' | |||
|5.2 | |||
| | | | ||
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| Line 197: | Line 207: | ||
|- | |- | ||
|'''[[MATLAB]]''' | |'''[[MATLAB]]''' | ||
| | |R2012b | ||
|R2009(a,b),R2010(a,b),R2011(a,b) | |R2009(a,b),R2010(a,b),R2011(a,b),R2012a | ||
|DCS-128 | |DCS-128 | ||
|- | |- | ||
| Line 217: | Line 227: | ||
|- | |- | ||
|'''[[Namd]]''' | |'''[[Namd]]''' | ||
|2. | |2.9 | ||
|2.7,2.6 | |2.8,2.7,2.6 | ||
|ibverbs | |ibverbs | ||
|- | |- | ||
|'''[[OpenMPI]]''' | |'''[[OpenMPI]]''' | ||
|1. | |1.6.4 | ||
| | | | ||
|gnu/intel | |gnu/intel | ||
| Line 257: | Line 267: | ||
|- | |- | ||
|'''[[R]]''' | |'''[[R]]''' | ||
|2. | |2.15.3 | ||
|2.6.2,2.7.2,2.8.1,2.9.0,2.9.2,2.11.1,2.12.2,2.14.2,2.15.0 | |2.6.2,2.7.2,2.8.1,2.9.0,2.9.2,2.11.1,2.12.2,2.14.2,2.15.0 | ||
| | | | ||
|- | |- | ||
| Line 266: | Line 276: | ||
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|- | |- | ||
|RNA pipeline | |'''[[RNA pipeline]]''' | ||
|0.5.0 | |0.5.0 | ||
|0.31 | |0.31 | ||
Revision as of 14:19, 15 April 2013
This page shows a list of installed modules on the Cheaha research computing system. If you don't find a particular package listed on this page, please send a request to cheaha support to request the software.
This list is not exhaustive and may not reflect the accurate current versions of the different software installed on the system. This list is current as of March 15th 2012.
Software modules installed on Cheaha
| Software | Latest Version | Other Versions | Remarks |
|---|---|---|---|
| AFNI | AFNI_2011_12_21_1014 | linux openmp 64 | |
| Affymetrix | 1.4.3 | ||
| Amber | 10 | ||
| ANNOVAR | 2012Feb23 | ||
| ANSYS | 14.0 | ||
| APBS | 1.0 | ||
| Aspera | 2.4.7 | ||
| Atlas | 3.8 | ||
| AutoDock | 4.2.3 | ||
| Birdsuite | 1.5.5 | 1.5.3 | |
| Bowtie | 0.9 | 0.10,0.12 | |
| CHASE | 1 | ||
| CUDA | 4 | ||
| COMSOL | 4.2 | ||
| Cufflinks | 0.9 | ||
| eigenstrat | 2.0 | ||
| EMAN2 | 2.02 | ?? | |
| ENT | 1.0.2 | ||
| fastPHASE | 1.4 | ||
| FFTW | 3.1.2 | gnu/intel | |
| FreeSurfer | 5.2.0 | ||
| FREGENE | 2008 | ||
| Fsl | 4.1.6 | ||
| Galaxy | 1.0 | ||
| genn | |||
| Gromacs | 4.6.1 | 4,4.5 | gnu/intel |
| GTOOL | 0.6.7 | ||
| HAPGEN | 1.3.0 | ||
| Haskell/GHC | 6.10.4 | ||
| Illuminus | 2 | ||
| IMPUTE2 | 2.1.2 | 2.1.0, 2.0.3 | |
| JAGS | 1.0 | gnu | |
| LAM-MPI | 7.1 | gnu/intel | |
| LS-DYNA | 9.7.1 | ||
| MACH | 1.0.16 | ||
| MACS | 1.3.6 | ||
| Magma | 5.2 | ||
| Maq | 0.7.1 | ||
| MarthLab | mosaik 0.9.891 | gigabayes, pyrobayes | |
| MATLAB | R2012b | R2009(a,b),R2010(a,b),R2011(a,b),R2012a | DCS-128 |
| MPICH | 2 | 1.2 | gnu/intel |
| MrBayes | 3.1.2 | intel | |
| MVAPICH | 2 | gnu | |
| Namd | 2.9 | 2.8,2.7,2.6 | ibverbs |
| OpenMPI | 1.6.4 | gnu/intel | |
| ParaView | 3.12 | 3.4,3.6,3.8 | |
| PDT | 3.17 | 3.14 | |
| PennCNV | 2010May01 | ||
| PHASE | 2.1.1 | ||
| PLINK | 1.07 | 1.06,1.05 | |
| Python | 2.7 | 2.6 | |
| R | 2.15.3 | 2.6.2,2.7.2,2.8.1,2.9.0,2.9.2,2.11.1,2.12.2,2.14.2,2.15.0 | |
| RAxML | 7.2.6 | ||
| RNA pipeline | 0.5.0 | 0.31 | |
| S.A.G.E. | 6.2 | 6.0 | |
| SAMtools | 0.1 | ||
| ScaleMP | 3.2.2 | fftw optimized | |
| SHRiMP | 1.3 | 1.2 | |
| SOLAR | 4.3.1 | ||
| SPPARKS | 30May11 | 07Aug09 | |
| Structure | 2.2 | ||
| TAU | 2.21.1 | lam, open mpi | |
| TopHat | 1.1 | 1.0.8 | |
| varianttools | 1.0.1 | 1.0 | |
| VEGAS | 0.8 | ||
| VMD | 1.9.0 | 1.8.6 |