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)