Title: Legacy Software Stack  
Owner: glenn-johnson
Creator: glenn-johnson Mar 27, 2022
Last Changed by: Genevieve Johnson Jan 09, 2024
Tiny Link: (useful for email) https://uiowa.atlassian.net/wiki/x/x4aPB
Export As: Word · PDF  
HPC Documentation (1)
    Page: Argon Software List
Labels
There are no labels assigned to this page.
Time Editor  
Jan 09, 2024 18:09 Genevieve Johnson View Changes
Jan 09, 2024 18:05 Genevieve Johnson View Changes
Version published after converting to the new editor
Jan 09, 2024 18:05 Genevieve Johnson View Changes
Jan 09, 2024 18:03 Genevieve Johnson View Changes
Jan 09, 2024 17:44 Genevieve Johnson  
Outgoing Links
External Links (235)
    www.nasm.us/
    www.simpleitk.org/
    software.intel.com/en-us/intel-composer-xe
    ambermd.org/
    https://github.com/Z3Prover/z3
    users.wfu.edu/natalie/papers/pwpaw/man.html
    www.multiprecision.org/
    cortexassembler.sourceforge.net/index_cortex_var.html
    https://sourceforge.net/projects/opencore-amr/
    www.oracle.com/technetwork/java/javase/overview/index.html
    https://github.com/zeromq/cppzmq
    google.github.io/snappy/
    https://software.intel.com/en-us/mkl
    www.tecplot.com/products/tecplot-360/
    https://rocksdb.org/
    bioinf.uni-greifswald.de/augustus/
    https://root.cern.ch/
    https://openjdk.java.net/
    opencv.org/
    www.nco.ncep.noaa.gov/pmb/codes/GRIB2/
    cusplibrary.github.io/
    zzz.bwh.harvard.edu/plink/index.shtml
    https://www.vasp.at/
    https://xiph.org/ao/
    https://www.gnu.org/software/gsl/
    elastix.isi.uu.nl/
    https://sourceforge.net/projects/foam-extend/
    https://github.com/lowerquality/gentle
    mpg123.de/index.shtml
    llvm.org/
    https://icl.cs.utk.edu/magma/
    https://github.com/pytorch/vision
    https://ral.ucar.edu/projects/wrf_hydro/overview
    https://www.sas.com/en_us/software/foundation.html
    https://fenicsproject.org/
    www.graphviz.org/
    https://github.com/google/googletest
    geant4.web.cern.ch/
    cortexassembler.sourceforge.net/index.html
    https://vcftools.github.io/
    https://git-scm.com/
    https://www.gnu.org/software/libunistring/
    https://github.com/samtools/samtools/releases/
    www.mega-nerd.com/libsndfile/
    xrootd.org/
    www.twolame.org/
    www.gnuplot.info/
    glaros.dtc.umn.edu/gkhome/metis/parmetis/overview
    https://www.postgresql.org/
    bedtools.readthedocs.io/en/latest/index.html
    opus-codec.org/
    www.xcrysden.org/
    czmq.zeromq.org/
    https://github.com/pezmaster31/bamtools
    https://trilinos.org/packages/mesquite/
    https://github.com/cern-it-sdc-id/davix
    https://gforge.inria.fr/projects/gf2x/
    www.wavpack.com/index.html
    https://software.ecmwf.int/wiki/display/GRIB/Home
    facebook.github.io/zstd/
    https://bioinformatics.cs.vt.edu/zhanglab/software/transps/…
    https://www.libarchive.org/
    www.unidata.ucar.edu/software/netcdf/
    www.abinit.org/
    cole-trapnell-lab.github.io/cufflinks/
    https://www.dyne.org/software/frei0r/
    https://liblas.org/
    www.openrtk.org/
    www.quantum-espresso.org/
    esbtl.sourceforge.net/index.html
    https://pytorch.org/
    llnl.github.io/mpiP/
    www.fon.hum.uva.nl/praat/
    subread.sourceforge.net
    www.mpfr.org/
    www.wannier.org/
    https://github.com/samtools/bcftools/releases/
    infozip.sourceforge.net/
    https://github.com/agordon/libgtextutils
    bio-bwa.sourceforge.net/
    https://www.gnu.org/software/libtool/
    https://itk.org/itkindex.html
    colibread.inria.fr/software/mapsembler2/
    https://www.3ds.com/products-services/simulia/products/abaq…
    www.ncl.ucar.edu/overview.shtml
    https://www.sqlite.org/index.html
    simpleelastix.github.io/
    https://github.com/pybind/pybind11
    https://github.com/opencollab/arpack-ng
    arma.sourceforge.net/
    https://trac.osgeo.org/geotiff/
    https://github.com/westes/flex
    https://www.mmm.ucar.edu/weather-research-and-forecasting-m…
    elpa.mpcdf.mpg.de/about
    www.hdfgroup.org/HDF5/
    octopus-code.org/wiki/Libxc
    https://github.com/LMDB/lmdb
    https://github.com/alexdobin/STAR
    https://ffmpeg.org/about.html
    lame.sourceforge.net/
    https://bitbucket.org/MDukhan/yeppp/overview
    www.r-project.org/
    apps.jcns.fz-juelich.de/doku/sc/lmfit
    caffe.berkeleyvision.org/
    https://github.com/NVIDIA/nccl
    https://www.pgroup.com/products/community.htm
    www.hboehm.info/gc/
    www.open-mpi.org/
    www.cmake.org/
    statmath.wu-wien.ac.at/software/RngStreams/
    www.pesthomepage.org/Home.php
    www.oracle.com/technetwork/database/database-technologies/i…
    https://developer.nvidia.com/cudnn
    https://github.com/Cyan4973/xxHash/tree/v0.6.4
    www.mcs.anl.gov/research/projects/darshan/
    https://github.com/agordon/fastx_toolkit
    https://github.com/ncbi/sra-tools
    https://support.hdfgroup.org/products/hdf4/
    https://github.com/rhash/RHash
    https://github.com/gmarcais/Jellyfish
    heasarc.gsfc.nasa.gov/fitsio/fitsio.html
    www.opus-codec.org/
    www.turbomole.com/
    https://github.com/abyzovlab/CNVnator
    giflib.sourceforge.net/
    https://github.com/tensorflow/tensorboard
    www.geuz.org/gl2ps/
    https://github.com/google/leveldb
    https://gflags.github.io/gflags/
    thrysoee.dk/editline/
    https://xiph.org/vorbis/
    https://github.com/google/glog
    https://www.xiph.org/vorbis/
    www.portaudio.com/
    https://www.bazel.build/
    gcc.gnu.org/
    sox.sourceforge.net/
    caml.inria.fr/ocaml/index.en.html
    www.gromacs.org/
    hdfeos.org/index.php
    https://openfoam.org/
    crd-legacy.lbl.gov/~xiaoye/SuperLU/
    https://its.uiowa.edu/campus-software-program/sas
    https://logging.apache.org/log4j/2.x/
    https://www.epa.gov/air-research/community-multi-scale-air-…
    https://wiki.uiowa.edu/Page http:/www.blosc.org/
    https://www.gnu.org/software/glpk/
    https://blast.ncbi.nlm.nih.gov/Blast.cgi
    conifer.sourceforge.net/index.html
    bowtie-bio.sourceforge.net/bowtie2/index.shtml
    https://github.com/ncbi/ngs
    zeromq.org/
    https://libctl.readthedocs.io/en/latest/
    www.nvidia.com/object/cuda_home_new.html
    www.mathworks.com/products/matlab/
    www.openbugs.net/w/FrontPage
    home.thep.lu.se/~torbjorn/Pythia.html
    https://scons.org/
    www.cgal.org/
    snap.cs.berkeley.edu/
    https://www.ibm.com/products/ilog-cplex-optimization-studio
    https://software.broadinstitute.org/gatk/
    glaros.dtc.umn.edu/gkhome/metis/metis/overview
    https://xiph.org/flac/index.html
    mcmc-jags.sourceforge.net/
    https://icl.utk.edu/papi/index.html
    https://www.tensorflow.org/
    www.oberhumer.com/opensource/lzo/
    https://code.zmaw.de/projects/cdo
    nco.sourceforge.net/
    https://mesa.freedesktop.org/
    www.ansys.com
    nbo6.chem.wisc.edu/
    trmm-fc.gsfc.nasa.gov/trmm_gv/software/rsl/index.html
    www.netlib.org/benchmark/hpl/
    https://github.com/tesseract-ocr/tesseract
    https://www.mono-project.com/
    beast.bio.ed.ac.uk/
    nvlabs.github.io/cub/
    vina.scripps.edu/index.html
    yasm.tortall.net/
    www.gurobi.com/products/gurobi-optimizer/gurobi-overview
    meteora.ucsd.edu/~pierce/ncview_home_page.html
    bowtie-bio.sourceforge.net/index.shtml
    https://laszip.org/
    julialang.org/
    www.nongnu.org/libunwind/index.html
    openbabel.org/wiki/Main_Page
    https://developers.google.com/protocol-buffers/
    https://www.gnu.org/software/guile/
    deeplearning.net/software/libgpuarray/
    https://www.mcs.anl.gov/petsc/index.html
    https://www.labri.fr/perso/pelegrin/scotch/
    apps.jcns.fz-juelich.de/doku/sc/libcerf
    susi.theochem.tuwien.ac.at/
    https://www.paraview.org/
    ccb.jhu.edu/software/tophat/index.shtml
    www.shoup.net/ntl/
    mdtraj.org/
    lz4.github.io/lz4/
    www.cd-adapco.com/products/star-ccm
    https://github.com/samtools/htslib/releases/
    https://github.com/ncbi/ncbi-vdb
    https://github.com/GenericMappingTools/gmt
    https://www.ruby-lang.org/en/
    https://projects.coin-or.org/SYMPHONY
    gmerlin.sourceforge.net/gavl.html
    https://gmplib.org/
    https://github.com/beagle-dev/beagle-lib
    https://github.com/intel/mkl-dnn
    statmath.wu-wien.ac.at/unuran/index.html
    https://www.lysator.liu.se/~nisse/nettle/
    https://github.com/isce-framework/isce2
    https://www.underbit.com/products/mad
    https://genome.ucsc.edu/cgi-bin/hgBlat?command=start
    eigen.tuxfamily.org/index.php?title=Main_Page
    www.opengatecollaboration.org/
    https://developers.google.com/speed/webp/
    https://www.perl.org/
    gaussian.com/
    www.python.org/
    https://github.com/ivmai/libatomic_ops
    https://www.mosek.com/products/mosek
    https://trac.mcs.anl.gov/projects/parallel-netcdf
    audeering.com/technology/opensmile/#installation
    https://www.cmascenter.org/ioapi/
    https://github.com/andyrimmer/Platypus
    https://gforge.inria.fr/projects/mpfi/
    trac.osgeo.org/geos/
    www.leptonica.org/
    valgrind.org/
    https://www.tug.org/texlive/
    www.fftw.org/
    https://sourceforge.net/projects/libuuid/
    https://uiowa.atlassian.net/wiki/display/hpcdocs/CMAQ
HPC Documentation (3)     Page: Legacy Software Stack
    Page: Paraview Visualization
    Page: Julia