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HPC Software - Interpreters

Perl
"Perl 5 is a highly capable, feature-rich programming language with over 25 years of development." [Perl Website 21 May 2013]

Available versions and module name

5.10.1 (perl-5.10.1 or perl)

5.10.0

(This version comes with the 
operating System, simply unload
the perl module to begin using
this version.)

Default version available

5.10.1

Website

http://www.perl.org

Python 2

Available versions and module name

2.7.3 (python-2.7.3 or python2 or python)

2.7.14 (python-2.7.14)

2.7.9 (python-2.7.9)

2.7.3 (python-2.7.3)

2.6.2 (python-2.6.2 or python)

anaconda 2.3.0 (anaconda-2.3.0)

anaconda 2.3.0 (built for qiime) (anaconda-2.3.0-qiime)

anaconda 2.3.0 (built for qiime2) (anaconda-2.3.0-qiime2)

anaconda 4.2.0 (anaconda-4.2.0)

anaconda 5.0.1 (anaconda-python2-5.0.1)

Default version available

2.7.3

Website

http://www.python.org/

Python 3

Available versions and module name

3.8.0 (python-3.8.0 or python3)

3.4.3 (python-2.7.14)

anaconda 5.0.1 (anaconda-5.0.1)

Default version available

3.8.0

Website

http://www.python.org/

If, for whatever reason, you would like to use the older versions of the compilers, or other available software, you can simply "unload" the current module and load the older version. See Software Module Information webpage.

Software list

Bioinformatics
  • AmpliconNoise
  • ARB
  • BLAST (Legacy BLAST- Not BLAST+)
  • BLAST+
  • Bowtie2
  • CD-HIT
  • cdbtools
  • ChimeraSlayer
  • clearcut
  • Cufflinks
  • Cytoscape
  • FastQC
  • FastTree
  • Fastx-Toolkit
  • Gepard
  • HMMER
  • IGV
  • infernal
  • Kraken
  • metavelvet
  • mothur
  • MUSCLE
  • Ngopt
  • ParsInsert
  • Pear
  • Pplacer
  • QIIME
  • RAxML
  • rRNASelector
  • RSEM
  • RTAX
  • SAM Tools
  • SAMStat
  • SourceTracker
  • TopHat
  • Trimmomatic
  • Trinityrnaseq
  • UCLUST
  • UProC
  • USEARCH
  • Velvet
  • Velvet Optmiser
Compilers
  • Glasgow Haskell Compiler
  • GNU Bison
  • GNU Compiler
  • GNU Fortran Compiler
  • Go Compiler
  • Intel C and C++ Compiler
  • Intel Fortran Compiler
  • Mono C# Compiler and associated libraries
Data Mining and Analysis Applications
  • NCL (NCAR Command Language)
  • Ncview
  • NetCDF
  • NetCDF-Fortran
  • RapidMiner
  • STIR (Tomographic Imaging)
  • Weka
Development tools
  • Apache Maven
  • GNU Emacs
  • IntelliJ IDEA
  • RStudio
Documentation Tools
  • Tex Live
  • Tex Info
Engineering Applications
  • ANSYS (Fluent and Mechanical)
  • ABAQUS
  • AVL Fire
  • Comsol Multiphysics
Geospatial Tools
  • GDAL
  • GEOS
  • Panoply
Graphics Applications
  • Circos
  • ImageJ
  • ImageMagick
  • PLPlot
  • Xfig
Interpreters
  • Perl
  • Python (with many Modules Installed)
Mathematics and Statics
  • Mathematica
  • Grid Mathematica
  • Matlab
  • Matlab-Simulink
  • Octave
  • OpenBUGS
  • R
  • SPSS (by IBM)
Run Time Environments
  • Java
Simulation Software
  • APSIM
Software Libraries
  • Boost C++ Libraries
  • Expat XML Parser
  • FFTW
  • GMP (GNU Multiple Precision Arithmetic Library)
  • GNU Scientific Library (GSL)
  • HDF5
  • HDF-EOS5
  • Intel Math Kernel Libraries (Intel® MKL)
  • libbz2
  • libcurl
  • libjpeg
  • libpng
  • MPI
  • OpenBLAS
  • PCRE (Perl Compatible Regular Expressions)
  • szip
  • tcl
  • tk
  • UDUNITS
Text Tools and Software
  • Flex