Installed Applications: 2021b and EL8-icelake

Applications available on the BEAR systems (BlueBEAR and BEAR Cloud VMs). All 2021b or EL8-icelake applications. In any one job, or session, you should use applications from only one BEAR Apps Version.

Some of the nodes of this architecture have GPUs. The applications that run on the GPU nodes will usually have CUDA or fosscuda as part of the version. Please see the GPU information page for details about the available GPUs and targetting jobs to specific GPU types. The available GPU types are:

  • NVIDIA A100
  • NVIDIA A30
Application Version
adehabitatHR 0.4.21-foss-2021b-R-4.2.0
adjustText 0.7.3-foss-2021b
ads 1.5-9-foss-2021b-R-4.2.0
aicsimageio 4.9.4-foss-2021b
aiohttp 3.8.1-GCCcore-11.2.0
alsa-lib 1.2.7.2
Amber 22.0-foss-2021b-AmberTools-22.3-CUDA-11.4.1
Amber 22.0-foss-2021b-AmberTools-22.3
ant 1.10.11-Java-11
archspec 0.1.3-GCCcore-11.2.0
arpack-ng 3.8.0-foss-2021b
Arrow 6.0.0-foss-2021b
arrow-R 6.0.0.2-foss-2021b-R-4.2.0
arrow-R 6.0.0.2-foss-2021b-R-4.1.2
ArviZ 0.11.4-foss-2021b
astropy 5.0.4-foss-2021b
ATK 2.36.0-GCCcore-11.2.0
at-spi2-atk 2.38.0-GCCcore-11.2.0
at-spi2-core 2.40.3-GCCcore-11.2.0
attrdict3 2.0.2-GCCcore-11.2.0
Autoconf 2.71-GCCcore-11.2.0
autograd 1.5-foss-2021b
Automake 1.16.4-GCCcore-11.2.0
Autotools 20210726-GCCcore-11.2.0
awscli 2.9.4-foss-2021b
BamTools 2.5.2-GCC-11.2.0
barrnap 0.9-gompi-2021b
BAT 2.9.2-foss-2021b-R-4.2.0
Bazel 4.2.2-GCCcore-11.2.0
Bazel 3.7.2-GCCcore-11.2.0
bcbio-gff 0.6.9-foss-2021b
BEAR-Python-MSc-Bioinformatics 2021b-foss-2021b
BEAR-R-bio 2021b-MSc-foss-2021b-R-4.2.0
BEAR-R-bio 2021b-foss-2021b-R-4.2.0
BeautifulSoup 4.10.0-GCCcore-11.2.0
BEDOPS 2.4.41-foss-2021b
BEDTools 2.30.0-GCC-11.2.0
bertini 1.6-gompi-2021b
betapart 1.5.6-foss-2021b-R-4.2.0
binutils 2.37-GCCcore-11.2.0
binutils 2.37
BIOMASS 2.1.8-foss-2021b-R-4.2.0
biom-format 2.1.12-foss-2021b
BioPerl 1.7.8-GCCcore-11.2.0
Biopython 1.79-foss-2021b
Bio-SearchIO-hmmer 1.7.3-GCC-11.2.0
BioServices 1.10.1-foss-2021b
Bisbee 20210108-foss-2021b-R-4.2.0
Bismark 0.24.2-foss-2021b
Bison 3.8.2
Bison 3.7.6-GCCcore-11.2.0
BLAST+ 2.12.0-gompi-2021b
Blender 3.2.0-linux-x64
BLIS 0.8.1-GCC-11.2.0
Blosc 1.21.1-GCCcore-11.2.0
bokeh 2.4.2-foss-2021b
Boost 1.79.0-GCC-11.2.0
Boost 1.77.0-GCC-11.2.0
boto3 1.20.13-GCCcore-11.2.0
Bowtie2 2.4.4-GCC-11.2.0
Brotli 1.0.9-GCCcore-11.2.0
BWA 0.7.17-GCCcore-11.2.0
bx-python 0.8.13-foss-2021b
bzip2 1.0.8-GCCcore-11.2.0
cairo 1.16.0-GCCcore-11.2.0
canopus_treemap 0.0.1-foss-2021b
c-ares 1.18.1-GCCcore-11.2.0
Cartopy 0.20.3-foss-2021b
CASTEP 22.11-foss-2021b
ccache 4.6.1-GCCcore-11.2.0
CD-HIT 4.8.1-GCC-11.2.0
CellChat 1.6.0-foss-2021b-R-4.2.0
celldex 1.6.0-foss-2021b-R-4.2.0
CGAL 4.14.3-gompi-2021b
ChimeraX 1.5-linux-x86_64
CIRI-long 1.1.0-foss-2021b
Clang 12.0.1-GCCcore-11.2.0
clusterProfiler 4.4.4-foss-2021b-R-4.2.0
cma 3.2.2-foss-2021b
CMake 3.22.1-GCCcore-11.2.0
CMake 3.21.1-GCCcore-11.2.0
CMSeq 1.0.4-foss-2021b
ConcurrentQueue 1.0.3-GCCcore-11.2.0
corner 2.2.1-foss-2021b
CP2K 2023.1-foss-2021b-CUDA-11.4.1
CP2K 2023.1-foss-2021b
cppy 1.1.0-GCCcore-11.2.0
CRYSTAL 23-iomkl-2021b
cuCIM 23.2.0-foss-2021b-CUDA-11.4.1
CUDA 11.4.1
cuDNN 8.2.2.26-CUDA-11.4.1
CUnit 2.1-3-GCCcore-11.2.0
CuPy 11.4.0-foss-2021b-CUDA-11.4.1
cURL 7.78.0-GCCcore-11.2.0
cutadapt 4.1-GCCcore-11.2.0
cuTENSOR 1.6.1.5-CUDA-11.4.1
cyCombine 0.2.15-foss-2021b-R-4.2.0
czifile 2019.7.2-foss-2021b
dask 2022.1.0-foss-2021b
DB 18.1.40-GCCcore-11.2.0
DB_File 1.857-GCCcore-11.2.0
DBus 1.13.18-GCCcore-11.2.0
dbus-glib 0.112-GCCcore-11.2.0
DCC 0.5.0-foss-2021b
DeepCell 0.11.1-foss-2021b-CUDA-11.4.1
delft3d 69179-iimpi-2021b
DendroPy 4.5.2-GCCcore-11.2.0
DIAMOND 2.0.13-GCC-11.2.0
dill 0.3.4-GCCcore-11.2.0
dm-tree 0.1.6-GCCcore-11.2.0
dotNET-SDK 3.1.424-linux-x64
double-conversion 3.1.5-GCCcore-11.2.0
Doxygen 1.9.1-GCCcore-11.2.0
DRAM 1.3.6-foss-2021b
ecc_finder 1.0.0_20221007_67d06f3-foss-2021b
edlib 1.3.9-GCC-11.2.0
Eigen 3.4.0-GCCcore-11.2.0
Eigen 3.3.9-GCCcore-11.2.0
elfutils 0.185-GCCcore-11.2.0
ELPA 2021.05.001-foss-2021b
embarcadero 1.2.0.1003-foss-2021b-R-4.2.0
emcee 3.1.3-foss-2021b
EMD 0.6.2-foss-2021b
enchant-2 2.3.3-GCCcore-11.2.0
epiAneufinder 1.0.1-foss-2021b-R-4.2.0
exiv2 0.27.5-GCCcore-11.2.0
expat 2.4.1-GCCcore-11.2.0
faahKO 1.36.0-foss-2021b-R-4.2.0
FastME 2.1.6.4-GCC-11.2.0
fastp 0.23.2-GCC-11.2.0
FastPG 0.0.8-foss-2021b-R-4.2.0
FastTree 2.1.11-GCCcore-11.2.0
fauxcurrence 1.2.0-foss-2021b-R-4.2.0
FFmpeg 4.3.2-GCCcore-11.2.0
FFTW 3.3.10-gompi-2021b
Fiona 1.8.21-foss-2021b
FLAC 1.3.3-GCCcore-11.2.0
flatbuffers 2.0.0-GCCcore-11.2.0
flatbuffers-python 2.0-GCCcore-11.2.0
flex 2.6.4-GCCcore-11.2.0
flex 2.6.4
FlexiBLAS 3.0.4-GCC-11.2.0
flowVS 1.28.0-foss-2021b-R-4.2.0
fontconfig 2.13.94-GCCcore-11.2.0
foss 2021b
freeglut 3.2.1-GCCcore-11.2.0
freetype 2.11.0-GCCcore-11.2.0
FreeXL 1.0.6-GCCcore-11.2.0
FriBidi 1.0.10-GCCcore-11.2.0
fsm-lite 1.0-GCCcore-11.2.0
fuzzySim 4.9.2-foss-2021b-R-4.2.0
gc 8.2.0-GCCcore-11.2.0
GCC 11.2.0
GCCcore 11.2.0
GConf 3.2.6-GCCcore-11.2.0
GDAL 3.3.2-foss-2021b
Gdk-Pixbuf 2.42.6-GCCcore-11.2.0
gdm 1.5.0-3-foss-2021b-R-4.2.0
GDRCopy 2.3-GCCcore-11.2.0
Gdspy 1.6.12-foss-2021b
GenMap 1.3.0-GCCcore-11.2.0
Genrich 0.6.1-GCC-11.2.0
GeoMxNGSPipeline 2.3.3.10
GEOS 3.9.1-GCC-11.2.0
gettext 0.21-GCCcore-11.2.0
gettext 0.21
GffCompare 0.12.6-GCC-11.2.0
gffread 0.12.7-GCCcore-11.2.0
gflags 2.2.2-GCCcore-11.2.0
ggfortify 0.4.14-foss-2021b-R-4.2.0
Ghostscript 9.54.0-GCCcore-11.2.0
giflib 5.2.1-GCCcore-11.2.0
git 2.33.1-GCCcore-11.2.0-nodocs
glew 2.2.0-GCCcore-11.2.0-egl
GLib 2.69.1-GCCcore-11.2.0
glib-networking 2.72.1-GCCcore-11.2.0
GLPK 5.0-GCCcore-11.2.0
GMP 6.2.1-GCCcore-11.2.0
gnuplot 5.4.2-GCCcore-11.2.0
GnuTLS 3.7.3-GCCcore-11.2.0
GObject-Introspection 1.68.0-GCCcore-11.2.0
gompi 2021b
gperf 3.1-GCCcore-11.2.0
gprofiler-official 1.0.0-foss-2021b
Grace 5.1.25-foss-2021b
graphite2 1.3.14-GCCcore-11.2.0
Graphviz 2.50.0-GCCcore-11.2.0
graphviz 0.20.1-foss-2021b
GRASS 8.2.0-foss-2021b
groff 1.22.4-GCCcore-11.2.0
Groovy 4.0.3-Java-11
GSL 2.7-GCC-11.2.0
GST-plugins-base 1.18.5-GCC-11.2.0
GStreamer 1.18.5-GCC-11.2.0
GTK3 3.24.31-GCCcore-11.2.0
GTS 0.7.6-GCCcore-11.2.0
Guile 3.0.7-GCCcore-11.2.0
gzip 1.10-GCCcore-11.2.0
h5netcdf 1.1.0-foss-2021b
h5py 3.6.0-foss-2021b
HarfBuzz 2.8.2-GCCcore-11.2.0
Harminv 1.4.1-foss-2021b
HDBSCAN 0.8.29-foss-2021b
HDF 4.2.15-GCCcore-11.2.0
HDF5 1.12.1-iimpi-2021b
HDF5 1.12.1-gompi-2021b
help2man 1.48.3-GCCcore-11.2.0
hiredis 1.0.2-GCCcore-11.2.0
HMMER 3.3.2-gompi-2021b
HPL 2.3-iomkl-2021b
HPL 2.3-foss-2021b
HTSeq 0.11.3-foss-2021b
HTSlib 1.14-GCC-11.2.0
hunspell 1.7.1-GCCcore-11.2.0
hwloc 2.5.0-GCCcore-11.2.0
hypervolume 3.1.0-foss-2021b-R-4.2.0
hypothesis 6.14.6-GCCcore-11.2.0
icellnet 1.0-foss-2021b-R-4.2.0
ICU 69.1-GCCcore-11.2.0
igraph 0.9.5-foss-2021b
iimpi 2021b
IJulia 1.23.3-Julia-1.8.2
imageio 2.13.5-foss-2021b
ImageMagick 7.1.0-4-GCCcore-11.2.0
imkl 2021.4.0-iompi-2021b
impi 2021.4.0-intel-compilers-2021.4.0
inferCNV 1.12.0-foss-2021b-R-4.2.0
intel-compilers 2021.4.0
intermine 1.13.0-GCCcore-11.2.0
intltool 0.51.0-GCCcore-11.2.0
ioh 0.3.2.8.3-foss-2021b
iomkl 2021b
iompi 2021b
IPython 7.26.0-GCCcore-11.2.0
IQ-TREE 2.2.1-gompi-2021b
iRF 3.0.0-foss-2021b-R-4.2.0
IRkernel 1.3-foss-2021b-R-4.2.0
ISA-L 2.30.0-GCCcore-11.2.0
JAGS 4.3.0-foss-2021b
Jansson 2.13.1-GCC-11.2.0
JasPer 2.0.33-GCCcore-11.2.0
Java 11.0.2
Java 11
jax 0.3.13-foss-2021b-CUDA-11.4.1
jax 0.3.13-foss-2021b
jbigkit 2.1-GCCcore-11.2.0
Jellyfish 2.3.0-GCC-11.2.0
jemalloc 5.2.1-GCCcore-11.2.0
JsonCpp 1.9.4-GCCcore-11.2.0
Julia 1.8.2-linux-x86_64
JupyterLab 3.1.6-GCCcore-11.2.0
kim-api 2.3.0-GCCcore-11.2.0
Kraken2 2.1.2-gompi-2021b
kseq 20221202
LAME 3.100-GCCcore-11.2.0
LAMMPS 23Jun2022-foss-2021b-kokkos-CUDA-11.4.1
LAMMPS 23Jun2022-foss-2021b-kokkos
leidenalg 0.8.8-foss-2021b
lftp 4.9.2-GCCcore-11.2.0
libarchive 3.5.1-GCCcore-11.2.0
libcerf 1.17-GCCcore-11.2.0
libctl 4.5.1-GCCcore-11.2.0
libdeflate 1.8-GCCcore-11.2.0
libdrm 2.4.107-GCCcore-11.2.0
libepoxy 1.5.8-GCCcore-11.2.0
libev 4.33-GCC-11.2.0
libevent 2.1.12-GCCcore-11.2.0
libfabric 1.13.2-GCCcore-11.2.0
libffi 3.4.2-GCCcore-11.2.0
libgcrypt 1.9.3-GCCcore-11.2.0
libgd 2.3.3-GCCcore-11.2.0
libGDSII 0.21-GCCcore-11.2.0
libgeotiff 1.7.0-GCCcore-11.2.0
libgit2 1.1.1-GCCcore-11.2.0
libGLU 9.0.2-GCCcore-11.2.0
libglvnd 1.3.3-GCCcore-11.2.0
libgpg-error 1.42-GCCcore-11.2.0
libiconv 1.16-GCCcore-11.2.0
libidn 1.38-GCCcore-11.2.0
libidn2 2.3.2-GCCcore-11.2.0
Libint 2.6.0-GCC-11.2.0-lmax-6-cp2k
libjpeg-turbo 2.0.6-GCCcore-11.2.0
libogg 1.3.5-GCCcore-11.2.0
libpciaccess 0.16-GCCcore-11.2.0
libpng 1.6.37-GCCcore-11.2.0
libpsl 0.21.1-GCCcore-11.2.0
libreadline 8.1-GCCcore-11.2.0
librttopo 1.1.0-GCC-11.2.0
libsndfile 1.0.31-GCCcore-11.2.0
libsodium 1.0.18-GCCcore-11.2.0
LibSoup 3.0.7-GCC-11.2.0
libspatialindex 1.9.3-GCCcore-11.2.0
libspatialite 5.0.1-GCC-11.2.0
libtasn1 4.18.0-GCCcore-11.2.0
LibTIFF 4.3.0-GCCcore-11.2.0
libtirpc 1.3.2-GCCcore-11.2.0
libtool 2.4.6-GCCcore-11.2.0
libunistring 1.0-GCCcore-11.2.0
libunwind 1.5.0-GCCcore-11.2.0
liburing 2.3-GCCcore-11.2.0
libvorbis 1.3.7-GCCcore-11.2.0
libwebp 1.2.0-GCCcore-11.2.0
libwpe 1.13.3-GCCcore-11.2.0
libxc 5.1.6-GCC-11.2.0
libxml2 2.9.10-GCCcore-11.2.0
libxslt 1.1.34-GCCcore-11.2.0
libxsmm 1.17-GCC-11.2.0
libyaml 0.2.5-GCCcore-11.2.0
libzip 1.7.3-GCCcore-11.2.0
lightkurve 2.3.0-foss-2021b
LittleCMS 2.12-GCCcore-11.2.0
LLVM 12.0.1-GCCcore-11.2.0
LMDB 0.9.29-GCCcore-11.2.0
LSD2 2.3-GCCcore-11.2.0
Lua 5.4.3-GCCcore-11.2.0
lxml 4.6.3-GCCcore-11.2.0
lz4 1.9.3-GCCcore-11.2.0
LZO 2.10-GCCcore-11.2.0
M4 1.4.19-GCCcore-11.2.0
M4 1.4.19
MAFFT 7.490-gompi-2021b-with-extensions
MAFFT 7.490-GCC-11.2.0-with-extensions
maftools 2.12.0-foss-2021b-R-4.2.0
make 4.3-GCCcore-11.2.0
Mako 1.1.4-GCCcore-11.2.0
MAnorm2_utils 1.0.0-foss-2021b
MATLAB 2022a
matplotlib 3.4.3-foss-2021b
Maven 3.6.3
MCL 14.137-GCCcore-11.2.0
Meep 1.25.0-foss-2021b
Mesa 21.1.7-GCCcore-11.2.0
Meson 0.58.2-GCCcore-11.2.0
MetaboLabPy 0.8.4-foss-2021b
MetaPhlAn 3.0.14-foss-2021b
methylartist 1.2.6-foss-2021b
METIS 5.1.0-GCCcore-11.2.0
Micro-Manager 1.4.24-foss-2021b
Miniconda3 4.12.0
minimap2 2.24-GCCcore-11.2.0
minizip 1.1-GCCcore-11.2.0
mlxtend 0.19.0-foss-2021b
MMseqs2 13-45111-gompi-2021b
mne-connectivity 0.5.0-foss-2021b
MNE-Python 1.1.1-foss-2021b
modbam2bed 0.7.0-GCC-11.2.0
ModelTest-NG 0.1.7-gompi-2021b
MOFA2 1.8.0-foss-2021b-R-4.2.0
mofapy2 0.7.0-foss-2021b
mofapy2 0.6.7-foss-2021b
monocle 2.24.1-foss-2021b-R-4.2.0
motif 2.3.8-GCCcore-11.2.0
MPB 1.11.1-foss-2021b
MPFR 4.1.0-GCCcore-11.2.0
msPurity 1.22.0-foss-2021b-R-4.2.0
MSstats 4.4.1-foss-2021b-R-4.2.0
MUSCLE 5.1-GCCcore-11.2.0
mvlearn 0.5.0-foss-2021b
NanoFilt 2.8.0-foss-2021b
nanopolish 0.14.0-foss-2021b
NASM 2.15.05-GCCcore-11.2.0
NCCL 2.10.3-GCCcore-11.2.0-CUDA-11.4.1
ncurses 6.2-GCCcore-11.2.0
ncurses 6.2
netCDF 4.8.1-iimpi-2021b
netCDF 4.8.1-gompi-2021b
netcdf4-python 1.5.7-foss-2021b
netCDF-Fortran 4.5.3-iimpi-2021b
netCDF-Fortran 4.5.3-gompi-2021b
nettle 3.7.3-GCCcore-11.2.0
networkx 2.6.3-foss-2021b
Nextflow 22.04.0
nghttp2 1.48.0-GCC-11.2.0
nghttp3 0.6.0-GCCcore-11.2.0
ngtcp2 0.7.0-GCC-11.2.0
NiBabel 3.2.2-foss-2021b
nichenetr 20220911-foss-2021b-R-4.2.0
Ninja 1.10.2-GCCcore-11.2.0
NLopt 2.7.0-GCCcore-11.2.0
NLTK 3.7-foss-2021b
nodejs 14.17.6-GCCcore-11.2.0
NSPR 4.32-GCCcore-11.2.0
NSS 3.69-GCCcore-11.2.0
nsync 1.24.0-GCCcore-11.2.0
numactl 2.0.14-GCCcore-11.2.0
numba 0.54.1-foss-2021b
numpyro 0.9.2-foss-2021b-CUDA-11.4.1
numpyro 0.9.2-foss-2021b
OpenBLAS 0.3.18-GCC-11.2.0
OpenCV 4.5.5-foss-2021b-contrib
OpenEXR 3.1.1-GCCcore-11.2.0
OpenFOAM (OpenCFD Ltd) v2206-foss-2021b
OpenJPEG 2.4.0-GCCcore-11.2.0
OpenMPI 4.1.1-intel-compilers-2021.4.0
OpenMPI 4.1.1-GCC-11.2.0
OpenPGM 5.2.122-GCCcore-11.2.0
OpenSSL 1.1
Optuna 2.10.0-foss-2021b
ORCA 5.0.3-gompi-2021b
OrthoFinder 2.5.4-foss-2021b
OSU-Micro-Benchmarks 5.8-iimpi-2021b
OSU-Micro-Benchmarks 5.7.1-iompi-2021b
OSU-Micro-Benchmarks 5.7.1-iimpi-2021b
OSU-Micro-Benchmarks 5.7.1-gompi-2021b
ottr 1.2.0-foss-2021b-R-4.2.0
p11-kit 0.24.1-GCCcore-11.2.0
panaroo 1.3.2-foss-2021b
pandaR 1.28.0-foss-2021b-R-4.2.0
Pandoc 2.13
Pango 1.48.8-GCCcore-11.2.0
parallel 20210722-GCCcore-11.2.0
ParaView 5.9.1-foss-2021b-mpi
pbjam 1.0.0-foss-2021b
pcgr 1.0.3
pcgrr 1.0.3
PCRE 8.45-GCCcore-11.2.0
PCRE2 10.37-GCCcore-11.2.0
Perl 5.34.0-GCCcore-11.2.0-minimal
Perl 5.34.0-GCCcore-11.2.0
PHATE 1.0.10-foss-2021b
phateR 1.0.7-foss-2021b-R-4.2.0
PhitestR 0.2.0-foss-2021b-R-4.2.0
PhyloPhlAn 3.0.2-foss-2021b
picante 1.8.2-foss-2021b-R-4.2.0
picard 2.25.1-Java-11
Pillow 8.3.2-GCCcore-11.2.0
pingouin 0.5.3-foss-2021b
pixman 0.40.0-GCCcore-11.2.0
pkgconf 1.8.0-GCCcore-11.2.0
pkg-config 0.29.2-GCCcore-11.2.0
pkg-config 0.29.2
pkgconfig 1.5.5-GCCcore-11.2.0-python
plotly.py 5.4.0-GCCcore-11.2.0
PLUMED 2.8.0-foss-2021b
PLUMED 2.7.3-foss-2021b
PMIx 4.1.0-GCCcore-11.2.0
PnetCDF 1.12.3-gompi-2021b
poppler 22.01.0-GCC-11.2.0
PostgreSQL 13.4-GCCcore-11.2.0
PRANK 170427-GCC-11.2.0
prodigal 2.6.3-GCCcore-11.2.0
PROJ 8.1.0-GCCcore-11.2.0
prokka 1.14.5-gompi-2021b
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Python 3.9.6-GCCcore-11.2.0-bare
Python 3.9.6-GCCcore-11.2.0
Python 2.7.18-GCCcore-11.2.0-bare
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