We want to thank everybody for being patient while we worked to resolved issues related to our software maintenance on the HPC and Spear.  Due to a number of unique circumstances, some items took longer to complete than we had originally anticipated.  Our team is cleaning up the last of the residual issues now, but we can confidently state that the cluster is back online and operating nomrally

Additionally, we are pleased to provide newer versions of over 400 software packages.  The full list is below.  If you would like us to install any software on the HPC, you can always let us know.

abinit    8.8.3
abyss    2.1.0
adobe-source-code-pro-fonts    2.030.1.050
adobe-source-sans-pro-fonts    2.020
apr    1.6.3
arpack    3.5.0
atsas    2.8.0
bbftp-client    3.2.1
bbreceiver    20161020
bcl2fastq2    2.20.0.422
beagle    2.1
beast    1.10.0
best    2.3.1
bigdft    1.6.0
blat    34
boost    1.66.0
boost-intel    1.66.0
bowtie    1.0.1
bowtie2    2.3.2
bwa    0.7.15
cairo    1.14.8
cdo    1.6.9
ceres-solver    1.13.0
CGAL-4.9    0.2.beta1
charmm    41
clang    6.0.0
clustalw    2.1
clustalx    2.1
cmake    3.11.1
cpuset-1.5.7    43.4
createrepo    0.10.3
ctags    5.8
cudnn    7.0.5
cufflinks    2.1.1
Cython    0.25.2
daq    2.0.6
dcraw    9.28.0
dyninst    9.3.2
eigen3    3.3.4
elpa    2017.05.003
elph    1.0.1
fasta    36.3.8e
fastqc    0.11.5
ffmpeg    3.1.7
fftw2    2.1.5
fftw2-intel    2.1.5
fftw2-pgi    2.1.5
fftw    3.3.5
fftw    3.3.8
fftw-intel    3.3.8
fftw-pgi    3.3.8
FIAT    1.6.0.dev0
fonttools    3.8.0
FPLO14.00    49
freefem++    0.3.1
freexl    1.0.2
futile    1.8
ga    5.6.5
GaIn    1.0
gcc    7.3.1
gcc731    7.3.1
gd    2.2.5
gdal    2.2.4
gerris    1.3.2
git    2.12.0
glimmer    3.02b
globus-cli    1.4.0
globus-cli    1.7.0
gmm    5.0
grads    2.0.2
grib_api    1.27.0
gromacs    2018.2
gtkglext    1.2.0
gts_gerris-0.7.6    48.1
gulp    4.4
h5py    2.8.0
hdf    4.2.13
hdf5    1.10.2
hdf5-intel    1.10.2
hdf5-pgi    1.10.2
hdf-intel    4.2.13
hdf-pgi    4.2.13
hdfview    2.11.0
hmmer    3.1b2
hpc-modules    2.14
HTSeq    0.6.1
hwloc    1.11.10
hypre    2.14.0
hypre    2.8.0b
hypre-intel    2.8.0b
i40e    2.4.6
iipsrv-1.0.0    6.0
intel-pgi-fakedeps    2
ipython    3.2.1
iqs-client    1.0
isl    0.16.1
jags    4.2.0
julia    0.6.3
lame    3.100
lammps    20180822
lammps-intel    20180822
lammps-pgi    20180822
lapack    3.8.0
last    833
lastfmlib    0.4.0
libbitmask    2.0
libctl    3.2.2
libctl    4.1.2
libebml    1.3.4
libffi    3.1
libgeotiff    1.4.0
libgit2    0.26.5
libmatheval    1.1.11
libmatroska    1.4.8
libmemcached    1.0.18
libpfm    4.10.1
libspatialite    4.3.0a
libsx    2.05
libtirpc-1.0.3    2.rc2
libtool    2.4.6
libunwind    1.2.1
libxc    3.0.0
libxcb    1.13
llvm3.9    3.9.1
llvm    6.0.0
Lmod    7.7.35
lustre-dkms    2.8.0
mafft    7.309
make    4.2.1
mauve-2.4.0    1HPC
MCT    2.10.0
MCT-intel    2.10.0
MCT-pgi    2.10.0
migrate-n    3.6.11
mira    4.0.2
mirage    0.9.5.2
mkvtoolnix    7.4.0
mmtsb    1
molden    5.8
motd    1.1
mpb    1.5
mpi4py    2.0.0
mpiblast    1.6.0
mpifasta    3.4
mpihmmer-0.92    2HPC_OPENMPI
mpimrbayes-new    3.2.1
mrbayes-new    3.2.1
mummer    3.23
mvapich2    2.3rc2
mvapich2_intel    2.3rc2
mvapich2_pgi    2.3rc2
namd    2.10
namd-intel    2.10
nasm    2.13.03
ncl    6.4.0
ncl-intel    6.4.0
ncl-pgi    6.4.0
nco    4.7.5
nco-intel    4.7.5
ncview    2.1.8
nedit    5.7
netcdf    4.6.1
netcdf-c    4.6.1
netcdf-cxx    4.2
netcdf-cxx    4.3.0
netcdf-cxx4    4.3.0
netcdf-cxx4-intel    4.3.0
netcdf-cxx-intel    4.2
netcdf-cxx-pgi    4.2
netcdf-fortran    4.4.4
netcdf-fortran-intel    4.4.4
netcdf-fortran-pgi    4.4.4
netcdf-intel    4.6.1
netcdf-pgi    4.6.1
newtonx    1.4.0.2
numpy    1.14.5
ocaml-sexplib    7.0.5
ocaml-type-conv    3.0.5
octave    4.2.2
ogdi    3.2.1
opa-fm    10.7.0.0
openblas    0.2.14
openblas    0.3.2
openblas-intel    0.2.14
openblas-intel    0.3.2
openblas-pgi    0.3.2
opencv    3.2.0
openlibm    0.5.3
openmpi    3.1.0
openmpi_intel    3.1.0
openmpi_llvm    3.1.0
openmpi-paultest    3.1.0
openmpi_pgi    3.1.0
orca    4.0.0.2
parallel-kmeans    1
paraview    5.5.2
parmetis    4.0.3
parmetis-intel    4.0.3
parmetis-pgi    4.0.3
pcsc-perl    1.4.14
pdtoolkit    3.25
perl-Array-Utils    0.5
perl-Set-IntSpan    1.19
pgplot    5.2.2
php    7.2.9
php-7.2.9    
php-pear    1.10.5
pjproject    2.7.2
pnetcdf    1.10.0
pnetcdf-intel    1.10.0
proj    4.9.3
psutil    2.2.1
pygtkglext    1.1.0
pyhdf    0.8.3
pyOpenSSL    18.0.0
python3    3.7.0
python-ase    3.16.2
python-biopython    1.72
python-packaging    16.8
python-pkgconfig    1.3.1
python-psutil    5.4.7
python-pygments    2.2.0
python-rpm-generators    5
python-shapely    1.6.4
python-ttfquery-1.0.4    5.8_
python-twisted-18.7.0    2.fc29
python-urllib3    1.23
python-virtualenv    16.0.0
R2spec    4.2.1
R-3.5.1    3.5.1
R-3.5.1-abind    1.4_5
R-3.5.1-acepack    1.4.1
R-3.5.1-ade4    1.7_11
R-3.5.1-affy    1.58.0
R-3.5.1-affyio    1.50.0
R-3.5.1-ald    1.2
R-3.5.1-annaffy    1.52.0
R-3.5.1-annotate    1.58.0
R-3.5.1-AnnotationDbi    1.42.1
R-3.5.1-assertthat    0.2.0
R-3.5.1-backports    1.1.2
R-3.5.1-base64enc    0.1_3
R-3.5.1-BH    1.66.0_1
R-3.5.1-bindr    0.1.1
R-3.5.1-bindrcpp    0.2.2
R-3.5.1-Biobase    2.40.0
R-3.5.1-BiocGenerics    0.22.1
R-3.5.1-BiocGenerics    0.26.0
R-3.5.1-BiocInstaller    1.26.1
R-3.5.1-BiocInstaller    1.30.0
R-3.5.1-BiocParallel    1.14.2
R-3.5.1-Biostrings    2.48.0
R-3.5.1-bit    1.1_14
R-3.5.1-bit64    0.9_7
R-3.5.1-bitops    1.0_6
R-3.5.1-blob    1.1.1
R-3.5.1-brew    1.0_6
R-3.5.1-broom    0.5.0
R-3.5.1-caret    6.0_80
R-3.5.1-caTools    1.17.1.1
R-3.5.1-cellranger    1.1.0
R-3.5.1-checkmate    1.8.5
R-3.5.1-cli    1.0.0
R-3.5.1-coda    0.19_1
R-3.5.1-colorspace    1.3_2
R-3.5.1-crayon    1.3.4
R-3.5.1-curl    3.2
R-3.5.1-CVST    0.2_2
R-3.5.1-data.table    1.11.4
R-3.5.1-DBI    1.0.0
R-3.5.1-ddalpha    1.3.4
R-3.5.1-DelayedArray    0.6.4
R-3.5.1-DEoptimR    1.0_8
R-3.5.1-DESeq    1.32.0
R-3.5.1-dichromat    2.0_0
R-3.5.1-digest    0.6.15
R-3.5.1-dimRed    0.1.0
R-3.5.1-doSNOW    1.0.16
R-3.5.1-dplyr    0.7.6
R-3.5.1-DRR    0.0.3
R-3.5.1-ergm    3.9.4
R-3.5.1-ergm.count    3.3.0
R-3.5.1-evaluate    0.11
R-3.5.1-fansi    0.2.3
R-3.5.1-flare    1.6.0
R-3.5.1-flsa    1.05
R-3.5.1-foreach    1.4.4
R-3.5.1-formatR    1.5
R-3.5.1-Formula    1.2_3
R-3.5.1-futile.logger    1.4.3
R-3.5.1-futile.options    1.0.1
R-3.5.1-gcrma    2.52.0
R-3.5.1-gdata    2.18.0
R-3.5.1-genefilter    1.62.0
R-3.5.1-geneplotter    1.58.0
R-3.5.1-GenomeInfoDb    1.16.0
R-3.5.1-GenomeInfoDbData    0.99.0
R-3.5.1-GenomeInfoDbData    1.1.0
R-3.5.1-GenomicAlignments    1.16.0
R-3.5.1-GenomicRanges    1.32.6
R-3.5.1-geometry    0.3_6
R-3.5.1-ggplot2    3.0.0
R-3.5.1-ghyp    1.5.7
R-3.5.1-glmnet    2.0_16
R-3.5.1-glue    1.3.0
R-3.5.1-GO.db    3.6.0
R-3.5.1-gower    0.1.2
R-3.5.1-gplots    3.0.1
R-3.5.1-graph    1.58.0
R-3.5.1-gridExtra    2.3
R-3.5.1-gtable    0.2.0
R-3.5.1-gtools    3.8.1
R-3.5.1-hexbin    1.27.2
R-3.5.1-HiDimDA    0.2_4
R-3.5.1-highr    0.7
R-3.5.1-Hmisc    4.1_1
R-3.5.1-hms    0.4.2
R-3.5.1-htmlTable    1.12
R-3.5.1-htmltools    0.3.6
R-3.5.1-htmlwidgets    1.2
R-3.5.1-httpuv    1.4.5
R-3.5.1-httr    1.3.1
R-3.5.1-hwriter    1.3.2
R-3.5.1-igraph    1.2.2
R-3.5.1-INLA    18.07.12
R-3.5.1-inline    0.3.15
R-3.5.1-ipred    0.9_6
R-3.5.1-IRanges    2.14.10
R-3.5.1-iterators    1.0.10
R-3.5.1-jsonlite    1.5
R-3.5.1-KEGG.db    3.2.3
R-3.5.1-KEGGgraph    1.40.0
R-3.5.1-kernlab    0.9_26
R-3.5.1-kernlab    0.9_27
R-3.5.1-knitr    1.20
R-3.5.1-labeling    0.3
R-3.5.1-lambda.r    1.2.3
R-3.5.1-later    0.7.3
R-3.5.1-latticeExtra    0.6_28
R-3.5.1-lava    1.6.3
R-3.5.1-lazyeval    0.2.1
R-3.5.1-limma    3.32.10
R-3.5.1-limma    3.36.2
R-3.5.1-locfit    1.5_9.1
R-3.5.1-lpSolve    5.6.13
R-3.5.1-lubridate    1.7.4
R-3.5.1-MADAM    1.2.2
R-3.5.1-made4    1.54.0
R-3.5.1-magic    1.5_8
R-3.5.1-magrittr    1.5
R-3.5.1-manipulate    1.0.1
R-3.5.1-markdown    0.8
R-3.5.1-matrixcalc    1.0_3
R-3.5.1-MatrixModels    0.4_1
R-3.5.1-matrixStats    0.54.0
R-3.5.1-memoise    1.1.0
R-3.5.1-mime    0.5
R-3.5.1-mnormt    1.5_5
R-3.5.1-ModelMetrics    1.2.0
R-3.5.1-multtest    2.36.0
R-3.5.1-munsell    0.5.0
R-3.5.1-mvtnorm    1.0_8
R-3.5.1-network    1.13.0.1
R-3.5.1-networkDynamic    0.9.0
R-3.5.1-numDeriv    2016.8_1
R-3.5.1-openintro    1.7.1
R-3.5.1-openssl    1.0.2
R-3.5.1-penalizedLDA    1.1
R-3.5.1-pillar    1.3.0
R-3.5.1-pkgconfig    2.0.1
R-3.5.1-plogr    0.2.0
R-3.5.1-plotrix    3.7_2
R-3.5.1-pls    2.6_0
R-3.5.1-plyr    1.8.4
R-3.5.1-praise    1.0.0
R-3.5.1-preprocessCore    1.38.1
R-3.5.1-preprocessCore    1.42.0
R-3.5.1-prettyunits    1.0.2
R-3.5.1-prodlim    2018.04.18
R-3.5.1-progress    1.2.0
R-3.5.1-promises    1.0.1
R-3.5.1-psych    1.8.4
R-3.5.1-purrr    0.2.5
R-3.5.1-qrLMM    1.3
R-3.5.1-quantreg    5.36
R-3.5.1-qvalue    2.12.0
R-3.5.1-R6    2.2.2
R-3.5.1-RColorBrewer    1.1_2
R-3.5.1-Rcpp    0.12.18
R-3.5.1-RcppRoll    0.3.0
R-3.5.1-RCurl    1.95_4.11
R-3.5.1-readxl    1.1.0
R-3.5.1-recipes    0.1.3
R-3.5.1-rematch    1.0.1
R-3.5.1-reshape2    1.4.3
R-3.5.1-rgdal    1.3_4
R-3.5.1-Rgraphviz    2.24.0
R-3.5.1-rlang    0.2.1
R-3.5.1-robustbase    0.93_2
R-3.5.1-Rsamtools    1.32.2
R-3.5.1-RSQLite    2.1.1
R-3.5.1-rstudioapi    0.7
R-3.5.1-rtracklayer    1.40.3
R-3.5.1-S4Vectors    0.18.3
R-3.5.1-scales    1.0.0
R-3.5.1-scatterplot3d    0.3_41
R-3.5.1-sendmailR    1.2_1
R-3.5.1-sfsmisc    1.1_2
R-3.5.1-shiny    1.1.0
R-3.5.1-sna    2.4
R-3.5.1-snow    0.4_2
R-3.5.1-sourcetools    0.1.7
R-3.5.1-sp    1.3_1
R-3.5.1-SparseM    1.77
R-3.5.1-SPIA    2.32.0
R-3.5.1-SQUAREM    2017.10_1
R-3.5.1-StanHeaders    2.17.2
R-3.5.1-statmod    1.4.30
R-3.5.1-statnet    2016.9
R-3.5.1-statnet.common    4.1.4
R-3.5.1-stringi    1.2.4
R-3.5.1-stringr    1.3.1
R-3.5.1-SummarizedExperiment    1.10.1
R-3.5.1-swirl    2.4.3
R-3.5.1-tergm    3.5.2
R-3.5.1-testthat    2.0.0
R-3.5.1-tibble    1.4.2
R-3.5.1-tidyr    0.8.1
R-3.5.1-tidyselect    0.2.4
R-3.5.1-timeDate    3043.102
R-3.5.1-timereg    1.9.2
R-3.5.1-trust    0.1_7
R-3.5.1-utf8    1.1.4
R-3.5.1-viridis    0.5.1
R-3.5.1-viridisLite    0.3.0
R-3.5.1-vsn    3.48.1
R-3.5.1-webbioc    1.52.0
R-3.5.1-withr    2.1.2
R-3.5.1-XML    3.98_1.13
R-3.5.1-XML    3.98_1.15
R-3.5.1-xtable    1.8_2
R-3.5.1-XVector    0.20.0
R-3.5.1-yaml    2.2.0
R-3.5.1-zlibbioc    1.22.0
R-3.5.1-zlibbioc    1.26.0
rhash    1.3.5
rssh    2.3.4
samtools    0.1.19
scalapack    2.0.2
scalapack-intel    2.0.2
scalapack-pgi    2.0.2
scipy    1.1.0
scotch    6.0.6
scotch-intel    6.0.6
scotch-pgi    6.0.6
SFML    2.4.2
siesta    4.1_b3
singularity    2.5.999
slurm    17.11.7
snort    2.9.11.1
source-highlight    3.1.8
sparsehash    2.0.2
squashfs-tools    4.3
sra_sdk    2.3.5
STAR    2.5.3a
stress-ng    0.07.29
suitesparse    4.4.6
SuperLU    5.2.1
superlu_dist    5.4.0
superlu_dist-intel    5.4.0
superlu_dist-pgi    5.4.0
SuperLU-intel    5.2.1
SuperLU-pgi    5.2.1
svgalib    1.9.25
systemtap    3.3
szip    2.1.1
szip-intel    2.1.1
szip-pgi    2.1.1
tcl-tktreectrl    2.4.1
tophat    2.1.1
trans-ABySS    2.0.1
tre-0.8.0    16.20140228gitc2f5d13
trimmomatic    0.38
trlan-201009    2.2
utf8proc    2.2.0
vmd    1.9.3
vtk    7.1.1
wgrib    1.8.1.2c
wombat    1
xcb-proto    1.13
xmgrace    5.1.25
xorg-x11-util-macros    1.19.2
yasm    1.3.0