ICERM Wiki

User Guides and Systems Documentation

User Tools

Site Tools


oscar:modules

Oscar: Software Modules

If you require a software package that is not currently available on the Oscar cluster, please contact ICERM's IT staff and we will work with CCV to get the software installed.

Currently Available Modules

This list is current as of November 6, 2019. To see the most up to date list of software modules, log into your Oscar account and run the command module avail.

~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category:  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
JAGS/4.2.0               cesm_post_process/Oct18  pigz/2.4                 
bxh_xcede_tools/1.11.14  confocal/1.0             
~~~~~~~~~~~~~~~~~~~~~~ category:  Microstructure modeling ~~~~~~~~~~~~~~~~~~~~~~
oof2/2.1.17  
~~~~~~~~~~~~~~~~~~~~~~~~~ category:  access controlled ~~~~~~~~~~~~~~~~~~~~~~~~~
Molpro/2012.1.15       gaussian/g09           vasp/5.4.4             
Molpro/2015_gcc        gaussian/g09-D01       vasp/5.4.4_intel       
Molpro/2015_serial     gaussian/g09-D01-TEST  vasp/5.4.4a            
Molpro/2018.2_ga       vasp/5.4.1             
Molpro/2018.2_no_ga    vasp/5.4.1_debug       
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category:  chemistry ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
schrodinger/2017-3  
~~~~~~~~~~~~~~~~~~~~~~~~ category:  graph partitioning ~~~~~~~~~~~~~~~~~~~~~~~~~
metis/5.1.0     parmetis/4.0.3  scotch/6.0.4    
~~~~~~~~~~~~~~~~~~~~~~~~~ category:  image processing ~~~~~~~~~~~~~~~~~~~~~~~~~~
multinest/3.10   openslide/3.4.1  pstokes/1.0      
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category:  libraries ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
astropy/3.2.1                     tensorflow/1.1.0_gpu              
blas/3.7.0                        tensorflow/1.13.1_cpu_py3         
cudnn/5.1                         tensorflow/1.13.1_gpu             
cudnn/6.0                         tensorflow/1.13.1_gpu_keras       
cudnn/7.0                         tensorflow/1.13.1_gpu_py3         
cudnn/7.4                         tensorflow/1.13.1_gpu_py36        
dlib/19.17                        tensorflow/1.14.0_gpu_py36        
flann/1.8.4                       tensorflow/1.4.1_cpu              
hnn/1.0                           tensorflow/1.4.1_cpu_py3          
horovod/0.16                      tensorflow/1.4.1_gpu              
lapack/3.6.0                      tensorflow/1.4.1_gpu_py3          
lapack/3.7.0                      tensorflow/1.4.1_gpu_py3_cuda9.1  
mumps/5.0.2                       tensorflow/1.5.0_cpu_py3          
mumps/5.0.2-seq                   tensorflow/1.5.0_gpu              
pcl/1.9.1                         tensorflow/1.5.0_gpu_py3          
pcl/1.9.1_nurbs                   tensorflow/2.0.0_cpu_py37         
scalapack/2.0.2                   tensorflow/2.0.0_gpu_py37         
tensorflow/1.1.0_cpu              
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category:  library ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
openslide-python/1.1.1  
~~~~~~~~~~~~~~~~~~~~~~~~~ category:  machine learning ~~~~~~~~~~~~~~~~~~~~~~~~~~
keras/2.0.9      keras/2.1.1      keras/2.1.3_py3  nccl/2.4.7       
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category:  math ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gsl/1.15  gsl/2.3   gsl/2.5   
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category:  package ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
subread/1.6.2  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category:  software ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mriconvert/2.1.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category:  utility ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mriconvert/2.1.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~~ category:  visualization ~~~~~~~~~~~~~~~~~~~~~~~~~~~
mayavi/4.6.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: (none) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
HiC-Pro/2.7.8         ncl/6.4.0             repeatmodeler/1.0.11  
HiC-Pro~/2.10.0       neuron/7.5            skewer/0.2.1          
canu/1.7.1            pdflib/7.0.5          squashfs/4.3          
fiji/2017-java6       pypy/6.0.0_2.7        tmux/2.8              
grads/2.2.0           pypy/6.0.0_3.5        transrate/1.0.3       
mumax/3.9.3           repeatmasker/4.0.7    
~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: Applied Maths ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
oof2/2.1.17  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: Astrophysics ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
polychord/1.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: Bioinformatics ~~~~~~~~~~~~~~~~~~~~~~~~~~~
MultiQC/1.0    muscle/3.8.31  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: CAD ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
freecad/0.18  librecad/2.0  
~~~~~~~~~~~~~~~~~~~~~~~ category: Computer Architecture ~~~~~~~~~~~~~~~~~~~~~~~~
risc/1.0  
~~~~~~~~~~~~~~~~~~~~ category: Executable for ceckpointings ~~~~~~~~~~~~~~~~~~~~
dmtcp/2.6.0  
~~~~~~~~~~~~~~~~~~~ category: Flag for CMAKE for fast build ~~~~~~~~~~~~~~~~~~~~
ninja/1.9.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: GENETEICS ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
eigensoft/6.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: Genomic ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Genrich/0.5  mcscanx/1.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~ category: Genomic Library ~~~~~~~~~~~~~~~~~~~~~~~~~~~
redundans/1.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: Genomics ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
beast/1.10.4  beast/2.5.2   
~~~~~~~~~~~~~~~~~~~ category: Genomics Sequencing Alignment ~~~~~~~~~~~~~~~~~~~~
qualimap/2.2.1  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: Graphics ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
beagle/1.0.0  
~~~~~~~~~~~~~~~~~~~~~~~~ category: Helper function type ~~~~~~~~~~~~~~~~~~~~~~~~
datamash/1.3  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: I/O ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
hdf5/1.10.0                    netcdf/3.6.3                   
hdf5/1.10.1_parallel           netcdf/4.4.1.1_gcc             
hdf5/1.10.5                    netcdf/4.4.1.1_intel           
hdf5/1.10.5_fortran            netcdf/4.4.1.1_pgi             
hdf5/1.10.5_openmpi_4.0.0_gcc  netcdf/4.7.0_intel2019.3       
hdf5/1.10.5_parallel           sqlite/3.25.2                  
jasper/1.900.1-intel           udunits/1.12.11                
nco/4.6.6                      udunits/2.2.24                 
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: IDE ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
meshlab/20190129_qt59  spyder/3.3.5           
~~~~~~~~~~~~~~~~~ category: Image processing and visualization ~~~~~~~~~~~~~~~~~
opencv-python/4.1.0.25  
~~~~~~~~~~~~~~~~~~~~~~~ category: Library for optimizer ~~~~~~~~~~~~~~~~~~~~~~~~
numbbo/2.3_python2  numbbo/2.3_python3  
~ category: Material sceince: https://icet.materialsmodeling.org/overview.html ~
icet/0.3  
~~~~~~~~~~~~~~~~~~~~~~~~~~ category: Medical imaging ~~~~~~~~~~~~~~~~~~~~~~~~~~~
mricrogl/1.0  
~~~~~~~~~~~~~~~ category: Multifunctional Wavefunction Analyzer ~~~~~~~~~~~~~~~~
multiwfn/3.3.9  
~~~~~~~~~~~~~~~~~~~~~~~~~ category: Numerical Library ~~~~~~~~~~~~~~~~~~~~~~~~~~
ngsolve/6.2.1901  
~~~~~~~~~~~~~~~~~~~~~~~~~~ category: Numerical Solver ~~~~~~~~~~~~~~~~~~~~~~~~~~
dedalus/2.1810   dedalus/2.1905   dedalus/Sep2019  nektar++/4.5.0   
~~~~~~~~~~~~~~~~~~~~ category: Tool for Image Manipulation ~~~~~~~~~~~~~~~~~~~~~
netpbm/10.47.71  
~~~~~~~~~~~~~~~ category: Visualization Package Qt's Python API ~~~~~~~~~~~~~~~~
pyqt/4.12.1  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: X ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
turbovnc/2.1.1   turbovnc/2.2.1   turbovnc/2.2.b1  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: astronomy ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ares/0.1                iraf/2.16               supermongo/2.4.34       
ares/0.5                iraf/2.16.1+2018.11.01  swarp/2.38              
ccfits/2.5              lsst/14.0               theli/1.9.5             
cfitsio/3.450           scamp/2.0.4             wcstools/3.9.5          
ds9/7.6                 sextractor/2.19.5       
galfit/3.0.5            sextractor/2.8.6        
~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: astrophysics ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
fiat/Oct2019  
~~~~~~~~~~~~~~~~~~~~~~~~~ category: astropy computing ~~~~~~~~~~~~~~~~~~~~~~~~~~
astropy/3.2.1  
~~~~~~~~~~~~~~~~~~~~~ category: binary for genome studies ~~~~~~~~~~~~~~~~~~~~~~
bedGraphToBigWig/1.04  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: bio ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SNAP/2013-11-29              metabat/2.12.1               
abyss/2.1.1                  metavelvet/1.2.01            
ale/20140120                 migrate/3.6.11               
aliview/1.25                 mira/4.0.2                   
amplisat/20170208            mne/0.17.0                   
angsd/0.920                  mothur/1.39.5                
anvio/5.2                    mrbayes/3.2.6                
anvio/5.5                    msmc/1.0.0                   
arb/6.0.6                    msmc/1.1.0                   
augustus/3.3                 msprime/0.7.0                
bamcleave/Oct2018            msprime/0.7.2                
bamtools/2.3.0               mummer/4.0.0.beta2           
bamtools/2.4.1               namd/2.11-multicore          
bbmap/38.23                  namd/2.13b1-multicore        
bbtools/38.12                nextclip/1.3.1               
bcftools/1.9                 nseg/20181012                
bcl2fastq/2.20.0             obitools/1.2.12              
bedops/2.4.35                oligotyping/2.0              
bedtools/2.25.0              opera/2.0.6                  
bedtools/2.26.0              orthomcl/2.0.9               
biolite/1.0.0                paml/4.8                     
biomed/1.0                   pandaseq/2.11                
biopython/1.66               paup/4.0a157                 
biopython/1.73               paup/4.0a166                 
bismark/0.20.0               pbsuite/15.8.24              
blast/2.2.30+                pcangsd/0.98                 
blast/2.6.0+                 picard-tools/2.9.2           
blast/2.7.1+                 pilon/1.22                   
blast/2.8.1+                 plink/1.07                   
blast/2.9.0+                 plink/1.90                   
blat/36x2                    plink/2.00                   
bowtie/1.2.0                 polyphen/2.2.2               
bowtie2/2.3.0                prinseq/0.20.4               
bowtie2/2.3.5.1              prodigal/2.6.3               
braker/2.1.0                 psmc/0.6.5                   
busco/3.0.2                  psmc/0.6.5a                  
bwa/0.7.15                   pymol/2.2b                   
ccp4/7.0                     qctool/2.0                   
circlator/1.5.5              qiime/1.9.1                  
conn/16b                     quast/5.0.0                  
conn/18a                     raremetal/4.14.1             
conn/18b                     raxml/8.2.10                 
connectome_workbench/1.3.1   raxml-ng/0.9.0               
connectome_workbench/1.3.2   recon/1.08                   
cpac/1.0.1                   repeatscout/1.0.5            
cpac/1.5.0                   revbayes/1.0.5               
cutadapt/1.14                revbayes/1.0.6               
dada2/1.4.1                  rmblastn/2.6.0               
dada2/1.8                    rsem/1.3.1                   
dbg2olc/Sep2018              salmon/0.11.3                
dendropy/4.2.0               salmon/0.8.2                 
diamond/0.9.12               samtools/0.1.18              
diamond/0.9.24               samtools/1.3.1               
dida/1.0.1                   samtools/1.4.1               
diffreps/1.55.6              samtools/1.9                 
dlcpar/1.1                   schrodinger/2017-3           
edge-pro/1.3.1               selscan/1.2.0a               
eems/1.0                     seqkit/0.10.1                
emboss/6.6.0                 seqtk/1.3                    
entap/0.8.1-beta             sga/0.10.15                  
entap/0.8.4-beta             sift/6.2.1                   
exonerate/2.2.0              sift4g/2.0.0                 
fastme/2.1.5                 skesa/1.68                   
fastqc/0.11.5                slicer/4.10.0                
fastsimcoal/2                slim/3.1                     
fasttree/2.1.10              slim/3.2.1                   
fasttree/2.1.11              slim/3.3                     
fastuniq/1.1                 snippy/Oct2017               
fastx-toolkit/2.6            spades/3.10.1                
fgap/1.8.1                   spades/3.13.0                
fgbio/0.6.1                  span/0.10.0.4787             
figtree/1.4.4                spm/spm12                    
flashpca/2.0                 sratoolkit/2.8.2-1           
freebayes/1.1.0              stacks/2.2                   
freebayes/1.2.0              stampy/1.0.32                
gatk/4.0.9.0                 star/2.6.1b                  
gdcclient/1.4.0              star/2.7.2a                  
genemark/4.33                starfusion/1.7.0             
hapbin/1.3.0                 stringtie/1.3.3b             
hisat2/2.1.0                 stringtie/1.3.4d             
hmmer/3.1b2                  tabix/0.2.6                  
homer/4.10                   tablemaker/2.1.1             
hotnet2/1.2.1                taxonkit/0.3.0               
htseq/0.9.1                  tophat/2.1.1                 
idba/1.1.3                   transabyss/2.0.1             
idemp/20180928               transindel/20181017          
interproscan/5.26-65.0       trf/4.09                     
interproscan/5.27-66.0       trimal/1.4                   
interproscan/5.28-67.0       trimgalore/0.5.0             
interproscan/5.32-71.0       trimmomatic/0.36             
interproscan/5.33-72.0       trinity/2.4.0                
iq-tree/1.6.7                trinity/2.8.4                
jellyfish/1.1.11             usearch/5.2.32               
jellyfish/2.2.10             usearch/8.1.1861             
kneaddata/0.6.1              varscan/2.4.3                
kraken/2.0.7-beta            vcftools/0.1.16              
last/956                     velvet/1.2.10                
macs/2.1.1                   velvet/1.2.10a               
mafft/7.310-with-extensions  viennarna/2.4.9              
maker/2.31.10                vmd/1.9.3                    
maxbin2/2.2.5                vsearch/2.11.1               
megahit/1.1.3                weblogo/2.8.2                
meraculous/2.2.6             
~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: bioinformatics ~~~~~~~~~~~~~~~~~~~~~~~~~~~
umitools/1.0.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: biology ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
haplostrips/1.2.1  libBigWig/0.4.4    mmsplice/0.2.7     
htslib/1.9         meme/5.0.5         wiggletools/1.2.3  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: build tool ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
scons/3.0.1  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: cave ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gigapixelviewer/alpha  minvr/dev_ben          vrg3d/265_compat       
minvr/0.3master        planetaryviewer/alpha  vrg3d/265_demos        
minvr/0.4              scalable/20150828      vrpn/7.33              
minvr/beta             scalable/opengl32+     
minvr/beta-bleeding    vrg3d/265              
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: chemistry ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Molpro/2012.1.15              molden/5.7                    
Molpro/2015_gcc               mrcc/2014-intel               
Molpro/2015_serial            mrcc/2014-intel-threaded      
Molpro/2018.2_ga              mrcc/2018-intel               
Molpro/2018.2_no_ga           mrcc/2018-intel-threaded      
ambertools/amber17            nwchem/6.8-openmpi            
ambertools/amber17_lic        openbabel/2.4.1               
ase/3.13.0                    openmolcas/18.09.617          
ase/3.8.1                     orca/4.0.1.2                  
crossrate/2016.3.23           orca/4.1.1                    
dacapo/2.7.16_mvapich2_intel  pyscf/1.4.7                   
elk/5.2.14                    pyscf/1.6.3                   
gaussian/g09                  qchem/5.0.2                   
gaussian/g09-D01              qchem/5.0.2-openmpi           
gaussian/g09-D01-TEST         qmcpack/3.7.0                 
gaussview/14Aug20             quantumespresso/6.1           
gromacs/2018.2                quantumespresso/6.3           
gromacs/2018.2_gpu            quantumespresso/6.4           
hande/1.1.1                   quantumespresso/6.4.1         
hande/1.1.1_64                rotd/2014-11-15_mvapich2      
hande/1.1.1_debug             sharc/2.0                     
hotbit/10mar17                vasp/5.4.1                    
lammps/11Aug17                vasp/5.4.1_debug              
lammps/11Aug17_serial         vasp/5.4.4                    
lammps/16Mar18                vasp/5.4.4_intel              
lammps/17Nov16                vasp/5.4.4a                   
lammps/22Aug18                xcrysden/1.5.60               
lammps/7Aug19                 
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: clients ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
aspera/3.8.1  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: climate ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
cesm/1.2.1   cesm/1.2.2   cesm/2.1.1   esmf/7.1.0r  esmf/8.0.0b  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: compilers ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Xvfb/1.10.4        cuda/9.1.85.1      gcc/7.2            java/jdk-12.0.2    
clang/3.9.1        cuda/9.2.148       gcc/8.3            llvm/3.8.1         
clang/7.0.0        gcc/4.5.4          intel/2011.11.339  llvm/4.0.0         
clang/7.1.0        gcc/4.7.2          intel/2013.1.106   nag/6.2            
cuda/10.0.130      gcc/4.9.4          intel/2017.0       pgi/16.7           
cuda/7.5.18        gcc/5.4            intel/2018.1       swig/3.0.10        
cuda/8.0.61        gcc/6.2            intel/2019.3       
cuda/9.0.176       gcc/6.3            java/8u111         
~~~~~~~~~~~~~~~~~~~~~~~ category: computer architecture ~~~~~~~~~~~~~~~~~~~~~~~~
llvmOpenmp/1.0  llvmOpenmp/2.0  
~~~~~~ category: cross webbrowser web application development environment ~~~~~~
chromedriver/2.46  
~~~~~~~~~~~~~~ category: data analysis(http://www.mega-nerd.com/) ~~~~~~~~~~~~~~
libsnd/1.0.28  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: data science ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
catboost/0.8.1      catboost/0.8.1_py3  pandas/py_3.5.2     pandas/py_3.6.6     
~~~~~~~~~~~~~~~~~~~~~~~ category: data structure library ~~~~~~~~~~~~~~~~~~~~~~~
dcm2bids/2.1.4  
~~~~~~~~~~~~~~~~~~~~~~ category: debugging and profiling ~~~~~~~~~~~~~~~~~~~~~~~
forge/18.2.3  forge/19.1.2  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: dev ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
googletest/1.8.0  qemu/4.1.0        
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: devel ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
bazel/0.23.0           glew/2.1.0             opengl/nvidia-410.72   
bazel/0.4.4            opengl/mesa-12.0.6     protobuf/3.4.1         
bazel/0.5.4            opengl/nvidia-375.66   protobuf/3.6.0_gcc5.4  
glew/1.13.0            opengl/nvidia-390.30   
~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: engineering ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
abaqus/2017             ansys/18.1              synopsys/2018.06        
abaqus/6.12sp2          comsol/5.4              synopsys/L_2016.03-SP2  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: fMRI ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
brainiak/Feb2018  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: fonts ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
freetype/2.7.1  
~~~~~~~~~~~~~~~~~~~~~~~ category: gene and species tree ~~~~~~~~~~~~~~~~~~~~~~~~
phyldog/1.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: genomic ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
admixture/1.3.0           glactools/1.0.7           pybigwig/0.3.15           
deeptools/3.2.1           partitionfinder/2.1.1     pysam/0.15.2              
deeptoolsintervals/0.1.7  py2bit/0.3.0              pyslim/1.0                
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: graphics ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gnuplot/5.2.3      inkscape/Sep-2019  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: image ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
c3d/1.0.0          ffmpeg/4.0.1       isis/3.5.1         openexr/2.2.1      
ffmpeg/3.2.4       imagemagick/7.0.7  libgd/2.2.5        
~~~~~~~~~~~~~~~~~~~~~~~~~~ category: image converter ~~~~~~~~~~~~~~~~~~~~~~~~~~~
mriconvert/2.1.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~ category: image processing ~~~~~~~~~~~~~~~~~~~~~~~~~~
libgif/5.1.9            libjpeg-turbo/2.0.2     openjpeg/2.3.1          
libjpeg/9.0             mayavi/4.6.0            openslide-python/1.1.1  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: languages ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
R/3.3.2              julia/0.7.0          perl/5.30.0          
R/3.4.0              julia/1.0            perl/5.8.9           
R/3.4.3              julia/1.0.2          python/2.7.12        
R/3.4.3_mkl          julia/1.1.0          python/2.7.12_clean  
R/3.4.4              julia/1.2.0          python/2.7.16        
R/3.5.2              lua/5.3.4            python/3.5.2         
R/3.6.0              maple/16             python/3.6.6         
anaconda/2-4.3.0     mathematica/10.3.1   python/3.6.6_test    
anaconda/2-5.3.0     mathematica/11.0     python/3.7.4         
anaconda/3-4.3.0     matlab/R2016a        qt/3.3.8b            
anaconda/3-5.2.0     matlab/R2017a        qt/3.3.8b-51         
idl/8.5.1            matlab/R2017b        qt/5.10.1            
idl_DEEPS/8.7.2      matlab/R2018a        qt/5.12              
java/8u111           matlab/R2018b        qt/5.13.1            
java/jdk-12.0.2      matlab/R2019a        qt/5.7.0             
julia/0.5.1          perl/5.16.0          qt/5.9.0             
julia/0.6.1          perl/5.18.2          ruby/2.4.0           
julia/0.6.4          perl/5.24.1          scala/2.12.2         
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: lib ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lftp/4.8.4  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: libraries ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Xvfb/1.10.4                        keras/2.0.9                        
acml/5.2.0-gfortran                keras/2.1.1                        
agalma/1.0.0                       keras/2.1.3_py3                    
armadillo/9.200.4                  lemon/1.3.1                        
blast-legacy/2.2.26                leveldb/1.20                       
boost/1.44.0                       libint/2.5.0                       
boost/1.49.0                       libpng12/1.2.57                    
boost/1.55                         libtiff/4.0.10                     
boost/1.57                         libxc/4.3.4                        
boost/1.62.0-intel                 libzip/0.9-3.1.el6                 
boost/1.63.0                       lp_solve/5.5.2.5                   
boost/1.68                         metis/5.1.0                        
bzip2/1.0.2                        mpfr/3.1.5                         
c-blosc/1.16.3                     mpfr/4.0.2                         
cdhit/4.6.8                        mxnet/1.3.0                        
cuda/10.0.130                      node.js/6.10.3                     
cuda/7.5.18                        occa/1.2                           
cuda/8.0.61                        openblas/0.2.19                    
cuda/9.0.176                       openblas/0.2.8                     
cuda/9.1.85.1                      opencv/3.2.0                       
cuda/9.2.148                       opencv/3.4.1                       
ea-utils/1.04.807                  parmetis/4.0.3                     
fftw/2.1.5                         proj/4.9.3                         
fftw/3.3.6                         proj/5.2.0                         
fftw/3.3.8                         sparsehash/2.0.2                   
fftw/3.3.8a                        suiteparse/4.5.4                   
freeglut/3.0.0                     theano/1.0.1_py3                   
geos/3.4.2                         transdecoder/5.4.0                 
geos/3.7.1                         v8/3.14.5                          
global_arrays/5.6.1                voro++/0.4.6                       
global_arrays/5.6.1_i8             vrpn/7.33                          
global_arrays/5.6.1_openmpi_2.0.3  whatshap/Sep2018                   
gmp/6.1.2                          xz/5.2.4                           
gsl/1.15                           yaml-cpp/0.6.2                     
gsl/2.3                            yaml-cpp/0.6.2_intel2019.3         
gsl/2.5                            zlib/1.2.11                        
igraph/0.7.1                       
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: library ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
easydict/1.7         nccl/2.4.7           pstokes/1.0          
fastq_screen/0.13.0  openslide/3.4.1      statsmodels/0.9.0    
multinest/3.10       p7zip/16.02          
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: libraryg ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
matplotlib/2.2.4  
~~~~~~~~~~~~~~~~~~~~~~~~~~ category: machine learning ~~~~~~~~~~~~~~~~~~~~~~~~~~
1/1.01                            scikit-learn/0.21.2               
1/2.03                            tensorflow/1.1.0_cpu              
attend2u/20180216                 tensorflow/1.1.0_gpu              
cudnn/5.1                         tensorflow/1.13.1_cpu_py3         
cudnn/6.0                         tensorflow/1.13.1_gpu             
cudnn/7.0                         tensorflow/1.13.1_gpu_keras       
cudnn/7.4                         tensorflow/1.13.1_gpu_py3         
deeparg/Jan2019                   tensorflow/1.13.1_gpu_py36        
deeparg/Oct2018                   tensorflow/1.14.0_gpu_py36        
deeplabcut/1.01                   tensorflow/1.4.1_cpu              
deeplabcut/2.03                   tensorflow/1.4.1_cpu_py3          
dlib/19.17                        tensorflow/1.4.1_gpu              
flann/1.8.4                       tensorflow/1.4.1_gpu_py3          
hnn/1.0                           tensorflow/1.4.1_gpu_py3_cuda9.1  
horovod/0.16                      tensorflow/1.5.0_cpu_py3          
pcl/1.9.1                         tensorflow/1.5.0_gpu              
pcl/1.9.1_nurbs                   tensorflow/1.5.0_gpu_py3          
py-faster-rcnn/July2018           tensorflow/2.0.0_cpu_py37         
rapidjson/1.1.0                   tensorflow/2.0.0_gpu_py37         
scikit-learn/0.19.1               tf-horovod/1.0                    
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: math ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
atlas/3.10.3        gap/4.9.1           magma/V2.23-10      sage/8.7            
blas/3.7.0          gmsh/3.0.1          magma-gpu/2.4.0     scalapack/2.0.2     
cgal/3.14.1         lapack/3.6.0        nlopt/2.5.0         sympy/1.4           
fenics/2017.1       lapack/3.7.0        numpy/intel_1.15.1  trlan/2010.09       
fenics/2018.1.0     macaulay2/1.12-1    rss/1.0             
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: misc ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mark/Dec18              mysql/8.0.13            netcdf4-python/4.1.4.2  
~~~~~~~~~~~~~~~~~~~~~~~~~ category: molecular dynamics ~~~~~~~~~~~~~~~~~~~~~~~~~
mdanalysis/0.19.2  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: mpi ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mpi/5.6.1_openmpi_2.0.3          mpi/openmpi_1.8.3_gcc            
mpi/cave_mvapich2_2.3b_gcc       mpi/openmpi_2.0.3_gcc            
mpi/cave_mvapich2_2.3b_intel     mpi/openmpi_2.0.3_intel          
mpi/cave_mvapich2_2.3rc2_gcc     mpi/openmpi_2.0.3_pgi            
mpi/mvapich2-2.0rc1_gcc          mpi/openmpi_3.1.3_gcc            
mpi/mvapich2-2.3.1_gcc           mpi/openmpi_4.0.0_gcc            
mpi/mvapich2-2.3a_gcc            mpi/openmpi_4.0.0_gcc_i8         
mpi/mvapich2-2.3a_intel          mpi/openmpi_4.0.1_gcc            
mpi/mvapich2-2.3a_pgi            osu-mpi/5.3.2                    
mpi/mvapich2-2.3b_gcc            osu-mpi/5.6.2_mvapich2-2.3a_gcc  
mpi/openmpi_1.10.7_gcc           
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: mri ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
afni/17.1.00                      freesurfer/6.0.0                  
afni/18.2.06                      freesurfer/6.0.0_rh7              
afni/19.0.17                      freesurfer/6.0.0_rh7-30-Nov-2018  
afni/19.3.08                      fsl/5.0.10                        
afni/19.3.10                      fsl/6.0.0                         
ants/2.1.0                        mricron/05-2016                   
ants/2.3.1                        mricron/12-2012                   
dsi/april2019                     tortoise/3.1.0                    
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: other ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
sbt/1.2.3  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: package ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ffte/6.0      ffte/6.0/mpi  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: performance ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ior/2.10.3                       osu-mpi/5.3.2                    
ior/3.0.1                        osu-mpi/5.6.2_mvapich2-2.3a_gcc  
ipm/2.0.6                        papi/5.4.3                       
ipm/2.0.6_r                      
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: physics ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
casa/5.1.2                    gpaw/1.2.0_mvapich2-2.3a_gcc  
geant/4.10.04.p01             jdftx/1.4.2                   
geant/4.10.3                  lumericalfdtd/8.16.982        
geant/4.10.5                  mcx/20180525                  
geant/4.9.4.p04               mcxlab/2017.7                 
gpaw/0.10.0                   mujoco-py/1.50.1.23           
gpaw/1.2.0                    root/6.10                     
~~~~~~~~~~~~~~~~~~~~~~ category: profiling and debugging ~~~~~~~~~~~~~~~~~~~~~~~
cube/4.3.4                 scalasca/2.3.1_intel       
ddd/3.3.12                 scorep/3.0_intel_mvapich2  
gdb/7.12.1                 valgrind/3.12.0            
gperftools/2.5             
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: python ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
numpydoc/0.9.1       pytables/3.5.2       six/1.12.0           
plotly/3.9.0         python_igraph/0.7.1  
~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: python library ~~~~~~~~~~~~~~~~~~~~~~~~~~~
wx/1.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: software ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
annovar/2018Apr16  orthofinder/2.2.7  orthofinder/2.3.3  
~~~~~~~~~~~~~~~~~~~~~~~~ category: software management ~~~~~~~~~~~~~~~~~~~~~~~~~
maven/3.2.2  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: solvers ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
eigen/3.2.2       mumps/5.0.2-seq   petsc/3.7.5       suiteparse/4.5.4  
eigen/3.3.2       openfoam/4.1      petsc/3.7.7       trilinos/12.12.1  
mcl/12.135        pari/2.11.2       petsc/3.8.3       
mumps/5.0.2       pastix/5.2.3      scotch/6.0.4      
~~~~~~~~~~~~~~~~~~~~ category: statistical analysis package ~~~~~~~~~~~~~~~~~~~~
glmnet/1.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: statistics ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
R/3.3.2               R/3.6.0               rstudio/1.0.44        
R/3.4.0               SAS/9.4               rstudio/1.1.463       
R/3.4.3               caffe/1.0             stata/14              
R/3.4.3_mkl           caffe/1.0_CPU_ONLY    stata/15              
R/3.4.4               caffe/1.0_with_cudnn  
R/3.5.2               mallet/2.0.8rc3       
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: sys ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
dos2unix/7.4.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: system ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
xfce/4.10  xfce/4.12  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: text editing ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
texstudio/2.12.16  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: tool ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
dcm2niix/25.0  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: tool kit ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
subread/1.6.2  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: tools ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
idr/2.0.2  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: util ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
libevent/2.1.8  pdftk/2.02      
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: utilities ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
atom/1.19.3          cppunit/1.14.0       mercurial/5.1        
bamaddrg/20180928    curl/7.61.1          perf-tools/2.7       
binutils/2.29.1      cvs/1.11.23          sublime/2.0.2        
binutils/2.31        depot_tools/Jan2019  svn/1.8.17           
cadence/.            firefox/56.0.2       svn/1.9.5            
chrome/55.0          firefox/59.0.2       texinfo/4.13a        
chrome/73.0          firefox/66.0.3       texlive/2018         
cmake/3.10.1         firefox/68.0         vim/8.1              
cmake/3.15.4         ghostscript/9.21     vim/8.1_py3          
cmake/3.6.3          git/2.10.2           vnc-apps/7.2         
cmake/3.8.0          git/2.20.2           xxdiff/4.0.1         
colordiff/1.0.18     h4cf/1.2             
comsol/5.4           itstool/2.0.4        
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: utility ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
h5py/2.9.0  
~~~~~~~~~~~~~~~~~~~ category: version record for large files ~~~~~~~~~~~~~~~~~~~
gitlfs/2.7.1  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: vision ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
opencv/3.2.0         scikit-image/0.13.1  tesseract/3.05.00    
opencv/3.4.1         scikit-image/0.15.0  tesseract/4.00.00    
~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: visualization ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
atomeye/3.0                    ovito/2.8.2                    
basemap/1.2.0                  ovito/2.9.0                    
blender/2.78                   paraview/5.1.0                 
blender/2.79                   paraview/5.1.0_yurt            
cartopy/0.16.0                 paraview/5.4.1                 
cartopy/0.17.0                 paraview/5.6.0_no_scalable     
cave-demo/yurt                 paraview/5.6.0_yurt            
cave-utils/yurt                photoscan/1.3.0                
ferret/7.1                     pyshp/2.0.1                    
gdal/2.1.3                     shapely/1.6.4                  
gdal/2.4.0                     tecplot/2017                   
gephi/0.9.2                    tecplot/2017R3                 
gimp/2.8.22                    tecplot/2018R2                 
gimp/2.9.6                     unity/Unity-2017.3.0b1         
glm/0.9.9                      unity/unity-editor-2017.2.0f3  
grace/5.1.25                   visit/2.13.2                   
graphviz/2.40.1                visit/2.7.2                    
minvr/0.3master                vmd/1.9.3                      
minvr/0.4                      vrg3d/265                      
minvr/beta                     vrg3d/265_compat               
minvr/beta-bleeding            vrg3d/265_demos                
minvr/dev_ben                  vtk/5.6.1                      
ncview/2.1.7                   vtk/7.1.1                      
openscad/2015.03-3             vtk/7.1.1a                     
openscenegraph/3.4.0           vtk/8.1.0                      
osgearth/2.7                   xcrysden/1.5.60                
~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: vizualization ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
metashape/1.5.4  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: weather ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
wrf/3.6.1  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ category: workshop ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
workshop/1.0  workshop/3.0
Oscar High-Performance Computing (HPC)
Basic Use Intro to OscarAvailable Software
Logging In VNC LoginSSH Login
Software-Specific MATLABMathematicaSage
oscar/modules.txt · Last modified: 2019/11/06 15:29 by blavall