# Module Changes The table below lists old Oscar modules and their corresponding LMOD modules. If a cell * is blank, that module will be installed later * says "(system RPM)", that software is installed on the nodes. Users don't need to load this module. * says "N/A", that module will NOT be installed * lists one or more modules , users can load a listed module using the command `module load ` | Old Oscar Module | LMOD Module | | --------------------- | -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- | | abaqus | abaqus/2021.1 | | abinit | abinit-mpi/9.8.3 | | admixture | admixture/1.3.0 | | afni | afni/23.3.07s | | ambertools | | | anaconda | miniconda3/22.11.1 | | angsd | angsd/0.935 | | ants | ants/2.4.3 | | apache-ant | ant/1.10.13 | | argweaver | N/A - Users install in their python/conda environments | | aria2 | aria2/1.36.0 | | ase | N/A - Users install in their python/conda environments | | aspera | | | assura | | | atlas | openblas/0.3.23 | | atom | atom/1.19.3 | | awscli | awscli/1.27.84 | | bamtools | bamtools/2.5.2 | | basilisk | basilisk/2023.11.11s | | bazel | bazel/6.1.1 | | bbmap | bbmap/39.01 | | bbtools | bbmap/39.01 | | bcftools | bcftools/1.16 | | bcl2fastq | bcl2fastq2/2.20.0.422 | | beagle | beagle/5.4 | | bedGraphToBigWig | | | bedops | bedops/2.4.40 | | bedtools | bedtools2/2.31.0 | | binutils | (system RPM) | | biopython | N/A - User install in their python/conda environments | | bismark | bismark/0.23.0 | | blas | netlib-lapack/3.11.0 | | blast | blast-plus/2.2.30 | | blat | blat/37 | | blender | blender/4.0.0 | | boost | | | bowtie | bowtie/1.3.1 | | bowtie2 | bowtie2/2.4.2 | | brotli | brotli/1.0.9 | | busco | N/A - Users install in their python/conda environments | | bwa | bwa/0.7.17 | | bxh\_xcede\_tools | | | bzip2 | (system RPM) | | cadence | cadence/IC06.18.090 | | caffe | | | cantera | N/A - deprecated | | cartopy | N/A - Users install in their python/conda environments | | casa | casa/6.6.0-20-py3.8.el7 | | cave-utils | N/A | | cdhit | cdhit/4.8.1 | | cdo | cdo-mpi/2.1.1 | | cellranger | | | cesm | N/A | | cfitsio | cfitsio/4.2.0 | | cgal | cgal/5.4.1 | | CharMM | | | chrome | chrome/119.0.6045.159s | | circlator | N/A - User install in their python/conda environments | | clang | llvm/16.0.2 | | CloudCompare | | | clustal\_omega | clustal-omega/1.2.4 | | cmake | cmake/3.26.3 | | colordiff | olordiff/1.0.21 | | comsol | | | conn | conn/22a | | connectome\_workbench | connectome-workbench/1.5.0 | | cp2k | | | cppunit | cppunit\@1.14.0 | | crossrate | | | cuda | cuda/12.1.1 | | cudnn | cudnn/8.7.0.84-11.8 | | cufflinks | cufflinks/2.2.1 | | curl | (system RPM) | | cutadapt | N/A - User install in their python/conda environments | | dada2 | N/A - User install in their python/conda environments | | datamash | datamash/1.8 | | dcm2bids | N/A - User install in their python/conda environments | | dcm2niix | dcm2niix/1.0.20220720 | | dedalus | | | deeparg | N/A - User install in their python/conda environments | | deeplabcut | N/A - User install in their python/conda environments | | deeptools | N/A - User install in their python/conda environments | | deeptoolsintervals | N/A - User install in their python/conda environments | | diamond | diamond/2.0.15 | | dicombrowser | dicombrowser/20181217 | | dlib | dlib/19.22 | | dmtcp | dmtcp/3.0.0 | | dos2unix | dos2unix/7.4.2 | | dotnet | dotnet/8.0.100 | | dropest | dropest/0.8.6 | | ds9 | ds/9.8.5s | | dsi | dsi-studio/chen-2023-sif | | dtitk | dtitk/2.3.1s | | eigen | eigen/3.4.0 | | eigensoft | eigensoft/7.2.1 | | elbencho | N/A | | emacs | (system RPM) | | emboss | | | engineering | | | fastme | fastme/2.1.5.1 | | fastq\_screen | | | fastqc | fastqc/0.11.9 | | fasttree | fasttree/2.1.11 | | fastx-toolkit | fastx-toolkit/0.0.14 | | ferret | ferret/7.6.0 | | ffmpeg | ffmpeg/6.0 | | fftw | fftw/3.3.10 | | fiji | fiji/20231107-1617 | | fileZilla | filezilla/3.49.1 | | firefox | firefox-102.9.0 | | flashpca | flashpca/2.0 | | freebayes | freebayes/1.3.6 | | freeglut | freeglut/3.2.2 | | freesurfer | freesurfer/7.3.2 | | freetype | freetype/2.11.1 | | fsl | fsl/6.0.7.7s | | fv | fv/5.5.2 | | gatk | gatk/4.3.0.0 | | gaussian | gaussian/09\_v1 | | gaussview | gaussview/v05 | | gcc | (system RPM) | | gdal | gdal/3.7.0 | | gdb | (system RPM) | | geos | geos/3.11.2 | | ghostscript | ghostscript/10.0.0 | | gimp | gimp/2.10.32 | | git | (system RPM) | | gitlfs | git-lfs/3.3.0 | | glew | glew/2.2.0 | | glm | glm/0.9.9.8 | | glmnet | N/A - User install in their python/conda environments | | global\_arrays | globalarrays-mpi/5.8. | | globus | N/A - User install in their python/conda environments | | gmp | gmp/6.2.1 | | gnuplot | gnuplot/5.4.3 | | golang | go/1.20.3 | | gpaw | | | grace | grace/5.1.25 | | graphviz | graphviz/8.0.1 | | gromacs | | | gsl | gsl/2.7.1 | | gsutil | google-cloud-cli/456.0.0 | | guppy | | | gurobi | gurobi/10.0.1 | | h5py | N/A - User install in their python/conda environments | | haplostrips | | | hdf5 | hdf5/1.14.1-2 | | hdfview | | | hisat2 | hisat2/2.2.1 | | hmmer | hmmer-mpi/3.3.2 | | homer | homer/4.11.1 | | htop | htop/3.2.2 | | htseq | N/A - User install in their python/conda environments | | htslib | htslib/1.17 | | idba | idba/1.1.3 | | idemp | idemp/201706 | | idl | idl/8.8.2 | | idl\_DEEPS | N/A | | igraph | igraph/0.7.1 | | imagej | imagej/154-linux64-java8 | | imagemagick | imagemagick/7.1.1-3 | | incisive | | | inkscape | inkscape/1.3s | | intel | intel-oneapi-compilers/2023.1.0 | | intltool | intltool/0.51.0 | | ior | ior-mpi/3.3.0 | | iq-tree | iq-tree/2.1.3 | | iraf | iraf/2.17.1s | | isis | N/A - User install in their python/conda environments | | JAGS | jags/4.3.1 | | java | openjdk/11.0.17\_8 | | jellyfish | jellyfish/2.2.7 | | jo | jo/1.9 | | json\_cpp | jsoncpp/1.9.5 | | json\_fortran | json-fortran\@8.3.0 | | julia | julia/1.9.0 | | keras | N/A - User install in their python/conda environments | | kneaddata | N/A - User install in their python/conda environments | | kraken | kraken/1.1.1 | | lammps | lammps-mpi/20220623.3 | | lapack | netlib-lapack/3.11.0 | | leveldb | leveldb/1.23 | | lftp | lftp/4.9.2 | | libarchive | libarchive/3.6.2 | | libbeef | libbeef/Nov2020 | | libcutensor | cutensor/1.5.0.3 | | libgd | libgd/2.3.3 | | libgeotiff | libgeotiff/1.6.0 | | libgit | libgit2/1.6.4 | | libjpeg | libjpeg/9e | | libjpeg-turbo | libjpeg-turbo/2.1.5 | | libpng12 | libpng/1.6.39 | | libreoffice | libreoffice/7.2.2.sif | | libtiff | libtiff/4.5.0 | | libvdwxc | libvdwxc-mpi/0.4.0 | | libwnck | libwnck/3.24.1 | | libxc | libxc/5.2.3 | | libzip | libzip/1.3.2 | | llvm | llvm/16.0.2 | | macs | N/A - User install in their python/conda environments | | mafft | mafft/7.505 | | magma-gpu | magma/2.7.1 | | maple | maple/22 | | mark | mark/2018.07.08 | | materialstudio | materialstudio/2020s | | mathematica | mathematica/13.2.0 | | matlab | matlab/R2023a | | matplotlib | N/A - User install in their python/conda environments | | maven | maven/3.8.4 | | mayavi | N/A - User install in their python/conda environments | | meme | meme-mpi/5.3.0 | | mentor-calibre | | | mercurial | mercurial/5.8 | | meshlab | | | metaphlan | N/A - User install in their python/conda environments | | metis | metis/5.1.0 | | miniconda | miniconda3/23.11.0 | | minimap2 | minimap2/2.14 | | minvr | | | mne | N/A - User install in their python/conda environments | | molden | molden/6.7 | | Molpro | | | mpfr | mpfr/4.2.0 | | mpi | | | mpi4py | N/A - User install in their python/conda environments | | mrcc | | | mriconvert | mriconvert/2.1.0 | | mricrogl | mricrogl/2022.07.20 | | mricron | mricron/201909 | | msmc | msmc2/2.1.4 | | msprime | N/A - User install in their python/conda environments | | mujoco-py | N/A - User install in their python/conda environments | | MultiQC | N/A - User install in their python/conda environments | | multiwfn | multiwfn/3.8\_1208 | | mummer | mummer4/4.0.0rc1 | | muscle | muscle/3.8.1551 | | mysql | mysql/8.0.29 | | n2p2 | n2p2-mpi/2.2.0 | | nbo | nbo/7.0 | | nccl | nccl/2.16.2-1 | | ncdu | ncdu/1.18.1 | | ncl | ncl-mpi/6.6.2 | | nco | nco/5.1.5 | | ncview | ncview/2.1.8 | | neovim | neovim/0.9.4 | | netcdf | netcdf-c/4.7.4 | | netpbm | netpbm/10.73.43 | | neuron | N/A - User install in their python/conda environments | | ninja | ninja/1.11.1 | | nipype | N/A - User install in their python/conda environments | | nlopt | nlopt/2.7.1 | | node.js | node-js/18.12.1 | | numpy | N/A - User install in their python/conda environments | | numpydoc | N/A - User install in their python/conda environments | | nvhpc-sdk | nvhpc/23.3 | | nvtop | nvtop/3.0.1 | | nwchem | nwchem-mpi/7.2.0 | | obitools | N/A - User install in their python/conda environments | | octopus | octopus-lunter/0.7.4 | | openbabel | openbabel/3.1.1 | | openblas | openblas/0.3.23 | | opencv | opencv/4.6.0s | | opencv-python | N/A - User install in their python/conda environments | | openexr | openexr/3.1.5 | | openfoam | | | opengl | mesa/22.1.6 | | openjpeg | openjpeg/2.5.0 | | openmolcas | | | openscenegraph | N/A | | openslide | openslide/3.4.1 | | openslide-python | N/A - User install in their python/conda environments | | openssl | | | orca | orca-mpi/5.0.7 | | osgearth | N/A | | ovito | ovito/3.6.0 | | p7zip | p7zip/17.05 | | pandas | N/A - User install in their python/conda environments | | pandoc | pandoc/2.19.2 | | paraview | | | patchelf | patchelf/0.17.2 | | paup | paup/4.0a168 | | pcre2 | pcre2/10.42 | | pdftk | pdftk/2.02 | | pdsh | pdsh-chaos/22.12 | | perl | perl/5.36.0 | | petsc | | | photoscan | | | picard-tools | picard/2.26.2 | | pigz | pigz/2.7 | | planetaryviewer | N/A - User install in their python/conda environments | | plink | plink/2.00 | | plotly | N/A - User install in their python/conda environments | | plumed | | | pnetcdf | parallel-netcdf-mpi/1.12.3 | | popoolation2 | popoolation2/1.205s | | prodigal | prodigal/2.6.3 | | proj | proj/9.2.0 | | protobuf | protobuf/3.22.2 | | py2bit | N/A - User install in their python/conda environments | | pybigwig | N/A - User install in their python/conda environments | | pycharm | pycharm-community/2021.3.3 | | pymol | N/A - User install in their python/conda environments | | pypy | pypy/7.3.13 | | pysam | N/A - User install in their python/conda environments | | pyscf | N/A - User install in their python/conda environments | | python | (system RPM - python/3.9.16) | | pytorch | N/A - User install in their python/conda environments | | qchem | | | qgis | qgis/3.22 | | qiime | N/A - User install in their python/conda environments | | qit | qit/2023-04-04 | | qmcpack | qmcpack-mpi/3.16.0s | | qt | qt/5.15.9 | | qualimap | qualimap/2.2.1 | | quantumespresso | quantum-espresso/7.1 | | quast | N/A - User install in their python/conda environments | | R | r/4.2.2 | | RAiSD | raisd/2.9 | | raxml | | | raxml-ng | raxml-ng-mpi/1.1.0 | | rclone | rclone/1.62.2 | | repeatmasker | repeatmasker-mpi/4.1.2-p1 | | root | root/6.28.04 | | rsem | rsem/1.3.3 | | rstudio | rstudio/2023.09.1 | | rsync | (system RPM) | | ruby | ruby/3.1.0 | | rust | rust/1.74.0s | | sage | sage/9.5 | | salmon | salmon/1.9.0 | | samtools | samtools/1.16.1 | | SAS | | | scalable | N/A | | scalapack | netlib-scalapack | | schrodinger | schrodinger/2023-4 | | scikit-image | N/A - Users install in their python/conda environments | | scikit-learn | N/A - Users install in their python/conda environments | | scons | scons/4.5.2 | | scotch | scotch-mpi/7.0.3 | | seaborn | N/A - Users install in their python/conda environments | | selscan | selscan/2.0.0 | | seqkit | seqkit/0.10.1 | | seqtk | seqtk/1.3 | | sextractor | sextractor/2.25.0 | | sga | N/A | | sharc | sharc-mpi/3.0.1 | | singularity2 | (system RPM) | | six | N/A - Users install in their python/conda environments | | skewer | skewer/0.2.2 | | slicer | slicer/5.4.0 | | slim | slim/4.0.1 | | snakemake | N/A - Users install in their python/conda environments | | SNAP | N/A | | spectre | | | splash | splash/2.1.4 | | spm | spm/12\_r7606 | | spyder | N/A - Users install in their python/conda environments | | sqlite | (system RPM) | | sratoolkit | sratoolkit/3.0.0 | | stacks | stacks/2.65 | | star | star/2.7.10b | | stata | stata/mp17 | | statsmodels | N/A - Users install in their python/conda environments | | stringtie | stringtie/2.2.1 | | sublime | sublime-text/4.4143 | | subread | subread/2.0.2 | | svn | subversion/1.14.1 | | swarp | swarp/2.41.5 | | sympy | N/A - Users install in their python/conda environments | | synopsys | | | sysstat | sysstat/12.5.4 | | tabix | tabix/2013-12-16 | | tecplot | tecplot/2022r1 | | tensorflow | N/A - Users install in their python/conda environments | | tesseract | tesseract/4.1.1 | | texlive | texlive/20220321 | | texstudio | texstudio/3.0.1 | | tmux | tmux/3.3a | | tn93 | tn93/1.0.12- | | tophat | | | tortoise | N/A | | tree | tree/2.1.0-7 | | trimal | trimal/1.4.1 | | trimgalore | trimgalore/0.6.6 | | trimmomatic | trimmomatic/0.39 | | trinity | | | udunits | udunits/2.2.28 | | usearch | usearch/11.0.667 | | v8 | v8/3.14.5 | | vasp | | | vcftools | vcftools/0.1.14 | | vep | | | vim | (system RPM) | | virtualgl | virtualgl/3.1 | | visit | N/A | | vmd | vmd/1.9.3 | | vrg3d | N/A | | vrpn | N/A | | vscode | vscode/1.84.2 | | vtk | vtk-mpi/9.2.6 | | wcstools | wcstools/3.9.7 | | weblogo | N/A - Users install in their python/conda environments | | workshop | N/A | | xcrysden | xcrysden/1.5.60 | | xeyes | xeyes/1.2.0 | | xfce | | | xgboost | xgboost/1.6.2 | | Xvfb | (system RPM) | | yaml-cpp | yaml-cpp/0.7.0 | | zlib | zlib/1.2.13 | | zsh | (system RPM) |