Software Modules
4 minute read
The following packages are available on the cluster as modules.
To load the default version of a module, use:
module load [package]
To load a specific version of a module, use:
module load [package]/[version]
To view this list at the command line, use:
module avail
Package Name | Versions |
---|---|
AAFTF | 0.3.0 |
abyss | 2.3.4 |
alphafold | 2.1.2 |
amptk | 1.5 |
anaconda | 2021.11-py39_0 |
angsd | 0.937 |
ant | 1.10.12 |
antismash | 5.1.2 |
antismash | 6.0.0 |
arcs | 1.2.3 |
aspera | 3.6.0 |
ASTRAL-Pro | 1.1.3 |
ASTRAL | 4.7.8 |
ASTRAL | 4.7.12 |
ASTRAL | 4.10.7 |
ASTRAL | 4.10.12 |
ASTRAL | 5.5.6 |
ASTRAL | 5.6.1 |
ASTRAL | 5.6.3 |
ASTRAL | 5.7.1 |
ASTRAL | 5.14.3 |
ASTRAL | 5.15.4 |
augustus | 3.3.3 |
augustus | 3.4.0 |
autometa | 1.0.3 |
autometa | 2.0.2 |
bamtools | 2.5.2 |
bat | 0.18.3 |
BBMap | 38.95 |
bcftools | 1.15 |
bcl2fastq | 2.20.0.422 |
beagle-lib | 3.1.2 |
beast | 1.10.4 |
beast | 2.6.6 |
bedops | 2.4.40 |
bedtools | 2.29.1 |
bioperl | 1.7 |
bioperl | 1.7.8 |
blobtools | 1.1.1 |
blobtools2 | 3.1.0 |
boost | 1.78.0 |
bowtie | 1.3.1 |
bowtie2 | 2.4.5 |
busco | 5.3.0 |
busco | 5.3.2 |
bwa | 0.7.17 |
canu | 2.2 |
cap3 | 2005.06.07.amd64 |
cap3 | 2005.06.07.intel |
cap3 | 2015-02-10 |
cblaster | 1.3.12 |
cd-hit | 4.8.1 |
centos | 7.9 |
cgal | 0.9.6 |
clinker | 1.3.12 |
clipkit | 1.3.0 |
CodingQuarry | 2.0 |
cp2k | 7.1_oneapi-2022.1.2.146 |
cuda | 10.2 |
cuda | 11.4 |
cufflinks | 2.2.1 |
cutadapt | 3.7 |
db-cazy | 3.0 |
db-cazy | 4.0 |
db-cazy | 5.0 |
db-cazy | 9.0(default) |
db-checkv | 0.6 |
db-diamond | 20161103 |
db-diamond | 20190125 |
db-diamond | 20210403(default) |
db-kaiju | 20170113-e |
db-merops | 110 |
db-merops | 120(default) |
db-merops | 2017-02-02 |
db-ncbi | 20140623 |
db-ncbi | 20150112 |
db-ncbi | 20160708 |
db-ncbi | 20170707 |
db-ncbi | 20171212 |
db-ncbi | 20190121 |
db-ncbi | 20190709 |
db-ncbi | 20190805(default) |
db-ncbi | 20220131 |
db-ncbi | v5.20190517 |
db-panther | 10.0(default) |
db-panther | 13.1 |
db-pfam | 27.0 |
db-pfam | 28.0 |
db-pfam | 30.0 |
db-pfam | 31.0 |
db-pfam | 32.0 |
db-pfam | 33.0 |
db-pfam | 33.1 |
db-pfam | 34.0 |
db-pfam | 35.0(default) |
db-pfam | 2013-03-14 |
db-pfam | 2015-07-27 |
db-pfam | 2016-09-15 |
db-pfam | 2017-06-11 |
db-pfam | 2018-10-18 |
db-pfam | 2020-03-19 |
db-pfam | 2020-05-05 |
db-pfam | 2021-03-19 |
db-pfam | 2021-11-25 |
db-priam | mar15(default) |
db-rfam | 11.0 |
db-rfam | 14.5 |
db-rfam | 14.7 |
db-swissprot | 2021_01 |
db-trinotate | r20150720(default) |
db-uniprot | 2014_12 |
db-uniprot | 2015_01 |
db-uniprot | 2015_02 |
db-uniprot | 2015_03 |
db-uniprot | 2015_04 |
db-uniprot | 2015_05 |
db-uniprot | 2016_11 |
db-uniprot | 2018_03(default) |
deeptools | 3.5.1 |
diamond | 2.0.13 |
diamond | 2.0.14 |
du-dust | 0.7.5 |
eggnog-mapper | 2.1.7 |
elpa | 2020.11.001_oneapi-2022.1.2.146 |
emboss | 6.6.0 |
espresso | 7.0_oneapi-2022.1.2.146 |
ete3 | 3.1.2 |
exonerate | 2.2.0 |
exonerate | 2.4.0 |
extra | 1 |
fasta | 36.3.8h |
fastani | 1.33 |
fastme | 2.1.6.3 |
fastqc | 0.11.9 |
fasttree | 2.1.11 |
fastx_toolkit | 0.0.13 |
ffmpeg | 5.0 |
fftw | 2.1.5 |
Flye | 2.9 |
freefem | 4.10 |
funannotate | 1.8 |
fzf | 0.28.0 |
gadget2 | 2.0.7 |
gadgetviewer | 1.1.2 |
gap | 4.11.1 |
gatk | 3 |
gatk | 3.3-0 |
gatk | 3.3.0 |
gatk | 3.4-0 |
gatk | 3.4-46 |
gatk | 3.4.0 |
gatk | 3.4.46 |
gatk | 3.5 |
gatk | 3.6 |
gatk | 3.7 |
gatk | 3.8 |
gatk | 4 |
gatk | 4.0.1.2 |
gatk | 4.0.4.0 |
gatk | 4.0.8.1 |
gatk | 4.0.12.0 |
gatk | 4.1.1.0 |
gatk | 4.1.4.1 |
gatk | 4.1.8.1 |
gatk | 4.2.0.0 |
gatk | 4.2.5.0 |
gaussian | 16 |
gaussian | 16_AVX2 |
gaussian | 16_SSE4 |
gcc | 9.2.1 |
genemarkESET | 4.69_lic |
genometools | 1.6.2 |
gmap | 2021-12-17 |
gocryptfs | 2.2.1 |
golang | 1.17.6 |
gtdbtk | 2.0.0 |
hdf5 | 1.12.1 |
hdf5 | 1.12.1_oneapi-2022.1.2.146 |
hic-pro | 3.1.0 |
hisat2 | 2.1.0 |
hisat2 | 2.2.0 |
hisat2 | 2.2.1 |
hmmer | 1.8.5 |
hmmer | 2 |
hmmer | 2.3.2 |
hmmer | 3 |
hmmer | 3.3.2 |
hmmer | 3.3.2-mpi |
hpcc_user_utils | current |
htslib | 1.14 |
htslib | 1.15 |
hub | 2.14.2 |
igv | 2.12.3 |
infernal | 1.1.4 |
interproscan | 5.54-87.0 |
iprscan | 5.54-87.0 |
IQ-TREE | 1.6.12 |
IQ-TREE | 2.1.1 |
IQ-TREE | 2.1.1_mpi |
IQ-TREE | 2.1.3 |
IQ-TREE | 2.2.0 |
iqtree | 1.6.12 |
iqtree | 2.1.1 |
iqtree | 2.1.1_mpi |
iqtree | 2.1.3 |
iqtree | 2.2.0 |
jags | 4.3.0 |
java | 17.0.2 |
jbrowse | 1.16.8 |
jbrowse2 | 1.6.7 |
jellyfish | 2.3.0 |
jemalloc | 5.2.1 |
julia | 1.7.2 |
jupyterlab | 3.3.1 |
kallisto | 0.46.1 |
kallisto | 0.48.0 |
kent-tools | 427 |
libdeflate | 1.10 |
LINKS | 1.8.4 |
longranger | 2.2.2 |
macs2 | 2.2.6 |
macs2 | 2.2.7 |
macs3 | 3.0.0a7 |
mafft | 7.490 |
mathematica | 12.3.1 |
matlab | R2021b |
mcl | 14-137 |
medaka | 1.6 |
medaka | 1.6-gpu |
meme | 5.4.1 |
miniconda3 | py39_4.10.3 |
miniconda3 | py39_4.12.0 |
minimap2 | 2.24 |
MMseqs2 | 13-45111 |
mmseqs2 | 13-45111 |
mosdepth | 0.3.3 |
mothur | 1.47.0 |
mpich | 4.0.1 |
mpich | 4.0.1_gcc-9.2.1 |
mummer | 3.23 |
mummer | 4.0.0 |
muscle | 3.8.31 |
muscle | 5.1 |
mutt | 2.1.5 |
ncbi-asn_tools | 2022-04-25 |
ncbi-blast | 2.2.22+ |
ncbi-blast | 2.2.25+ |
ncbi-blast | 2.2.26 |
ncbi-blast | 2.2.26+ |
ncbi-blast | 2.2.29+ |
ncbi-blast | 2.2.30+ |
ncbi-blast | 2.2.31+ |
ncbi-blast | 2.3.0+ |
ncbi-blast | 2.4.0+ |
ncbi-blast | 2.5.0+ |
ncbi-blast | 2.6.0+ |
ncbi-blast | 2.7.1+ |
ncbi-blast | 2.8.0+ |
ncbi-blast | 2.8.1+ |
ncbi-blast | 2.9.0+ |
ncbi-blast | 2.11.0+ |
ncbi-blast | 2.12.0+ |
ncbi-blast | 2.13.0+ |
ncbi-ngs-tools | 2.11.2 |
ncbi-rmblast | 2.11.0 |
ncbi_datasets | 13.4.0 |
ncbi_edirect | 16.8.20220329 |
NECAT | 0.0.1 |
neovim | 0.6.0 |
netcdf-c | 4.8.1_oneapi-2022.1.2.146 |
netcdf-fortran | 4.5.4_onaapi-2022.1.2.146 |
NextDenovo | 2.5.0 |
NextPolish | 1.4.0 |
oneapi | 2022.1.2.146 |
openbabel | 3.1.1 |
openmpi | 4.1.2 |
openmpi | 4.1.2-slurm-19.05.0 |
openmpi | 4.1.2_slurm-21.08.5 |
orthofinder | 2.5.4 |
pandoc | 2.17.1.1 |
parallel-fastq-dump | 0.6.7 |
parallel | 20220122 |
PASA | 2.5.2 |
pbzip2 | 1.1.13 |
phred-phrap-consed | 0.990329 |
phykit | 1.11 |
picard | 2.26.11 |
pilon | 1.24 |
plink | 1.90b6.25 |
pmix | 3.1.3rc2 |
polypolish | 0.5.0 |
primer3 | 2.6.1 |
prodigal | 2.6.3 |
prymetime | 0.2 |
pyvcf | 0.6.8 |
qiime2 | 2022.2 |
quast | 5.1.0rc1 |
quickmerge | 0.3 |
R | 4.1.2(default) |
R | 4.1.3 |
ragtag | 2.1.0 |
raxml-ng | 1.1.0 |
raxml-ng | 1.1.0-mpi |
RAxML | 8.2.12 |
raxml | 8.2.12 |
RAxML_NG | 1.1.0 |
RAxML_NG | 1.1.0-mpi |
rclone | 1.58.0 |
REDUCE_suite | 2.2 |
reduce_suite | 2.2 |
RepeatMasker | 4-1-2 |
RepeatModeler | 2.0.3 |
rmate | 1.5.10 |
rstudio-server | 2022.02.0-443 |
ruby | 2.7.5 |
ruby | 3.1.1 |
salmon | 1.7.0 |
samtools | 1.14 |
seqtk | 1.3 |
shovill | 1.1.0 |
signalp | 3.0 |
signalp | 4.1c |
signalp | 5.0b |
signalp | 6.0g |
singularity-ce | 3.9.3 |
singularity | 3.9.3 |
slurm | 19.05.0 |
slurm | 21.08.5 |
snpEff | 4.1G |
snpEff | 4.1K |
snpEff | 4.3m |
snpEff | 4.3P |
snpEff | 4.3r |
snpEff | 4.3t |
snpEff | 5.0e |
snpEff | 5.1 |
spades | 3.15.4 |
sparsehash | 2.0.4 |
sratoolkit | 3.0.0 |
stacks | 2.60 |
star | 2.7.10a |
stringtie | 2.2.1 |
subread | 2.0.3 |
tbb | 2020.3 |
tbb | 2021.5.0 |
texlive | 20210325 |
texlive | 20220403 |
tmhmm | 2.0c |
tmux | 3.3 |
tophat | 2.1.1 |
transdecoder | 5.5.0 |
trf | 4.09 |
trim_galore | 0.6.7 |
trimal | 1.4.1 |
trimmomatic | 0.39 |
trinity-rnaseq | 2.13.2 |
trinity-rnaseq | 2.13.2_sing |
trnascan-se | 2.0.9 |
unimap | 0.1 |
usearch | 8 |
usearch | 8.0.1623_32bit |
usearch | 8.1.1861_32bit |
usearch | 9 |
usearch | 9.0.2132_i86linux32 |
usearch | 9.1.13_i86linux32 |
usearch | 9.2.64_i86linux32 |
usearch | 10 |
usearch | 10.0.240_i86linux32 |
usearch | 11 |
usearch | 11.0.667_i86linux32 |
valgrind | 3.18.1 |
vasp | 5.4.1_oneapi-2022.1.2.146 |
vcftools | 0.1.16-18 |
viennarna | 2.4.17 |
viennarna | 2.5.0 |
vsearch | 2.21.1 |
wannier90 | 3.1.0_oneapi-2022.1.2.146 |
workspace | scratch |
xpdf | 4.03 |
yq | 4.23.1 |
zoem | 21-341 |
Last modified April 28, 2022: Updated list for Rocky (daaacf67)