Installed Application Software and Libraries

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Revision as of 08:56, 27 March 2019 by Schwietzer (talk | contribs) (+ Mesa + ALE + LLVM + MyTables)
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Introduction

This page was created to give you an overview of the installed software on the cluster (name/version). The list will be updated at least once per week.

If you find a program in this list, but cant find it on the cluster (for example when looking at the output of the command module avail) it has most likely been hidden. Its also possible that a module isnt listed here because it is hidden. You can find every hidden module here: /cm/shared/uniol/modules/.hidden. If you want to access a hidden module, you have to add a "." in front of the version number, e.g.: 

[abcd1234@hpcl001 ~]$ module load PCRE/8.39-intel-2016b
Lmod has detected the following error:  The following module(s) are unknown: "PCRE/8.39-intel-2016b"

Please check the spelling or version number. Also try "module spider ..."

[abcd1234@hpcl001 ~]$ module load PCRE/.8.39-intel-2016b
[abcd1234@hpcl001 ~]$ ml 

Currently Loaded Modules:
 1) hpc-uniol-env   3) icc/2016.3.210   5) binutils/.2.26-GCCcore-5.4.0   7) impi/5.1.3.210   9) imkl/11.3.3.210  11) PCRE/.8.39-intel-2016b
 2) slurm/current   4) GCCcore/.5.4.0   6) ifort/2016.3.210               8) iimpi/2016b     10) intel/2016b

Latest installed programs and version updates

To keep you up to date, all newly installed programs and version updates within the last two to three months (ca.) are listed in this section. Every new program will be installed in the new environment hpc-env/6.4 from now on.


Software Version Toolchain Date of Installation
ALE (Arcade Learning Environment) 0.6.0 GCCcore/6.4.0 26/03/2019
PyTables foss-2017b 3.5.1 25/03/2019
Mesa 18.1.1 GCCcore/6.4.0 13/03/2019
LLVM 7.0 GCCcore/6.4.0 13/03/2019
R 3.5.2 intel-2018a 04/03/2019
Qt 5.12.1 foss-2017b 15/02/2019
MaSuRCA 3.3.0 foss-2017b 12/02/2019
Salmon 0.11.3 foss-2017b 07/02/2019
Go 1.11.5 none 07/02/2019
Pychopper 0.4.0 intel-2018a 04/02/2019
g4py 10.05 foss-2017b 28/01/2019
GffCompare 0.10.6 foss-2017b 22/01/2019
gffread 0.9.12 foss-2017b 17/01/2019
Singularity 2.5.2 GCCcore/6.4.0 17/01/2019
STAR 2.6.1 d foss-2017b 15/01/2019
StringTie 1.3.5 GCCcore/6.4.0 15/01/2019
MATLAB 2018b none 21/12/2018
Singularity 2.4.2 GCCcore/6.4.0 20/12/2018
ANTs 2.2.0 foss-2017b 19/12/2018
FSL 6.0.0 foss-2017b 18/12/2018
HISAT2 2.1.0 intel-2018a 03/12/2018
TopHat 2.1.1 intel-2018a 03/12/2018

Installed Software

/cm/local/modulefiles

  • cluster-tools/7.3
  • cmd
  • dot
  • freeipmi/1.5.2
  • gcc/6.1.0
  • ipmitool/1.8.17
  • module-git
  • module-info
  • openldap
  • shared

/cm/shared/uniol/modules/core

  • hpc-uniol-env (L)
  • slurm/current (L)

/cm/shared/uniol/modules/bio

/cm/shared/uniol/modules/cfd

/cm/shared/uniol/modules/chem

/cm/shared/uniol/modules/compiler

  • CUDA-Toolkit/8.0.44
  • CUDA-Toolkit/recent
  • GCC/4.9.4-2.25
  • GCC/5.4.0-2.26
  • GCC/6.2.0-2.27 (D)
  • Go/1.11.5
  • LLVM/3.8.1-goolf-5.2.01
  • LLVM/3.8.1-intel-2016b
  • LLVM/3.8.1-gimpi-6.2016
  • LLVM/3.9.0-intel-2016b (D)
  • NAG_Fortran/5.2
  • PGI/12.10
  • PGI/15.10
  • PGI/16.10 (D)
  • icc/2016.3.210
  • ifort/2016.3.210

/cm/shared/uniol/modules/data

  • ANTs/2.2.0-foss-2017b-Python-2.7.14
  • CDO/1.7.2-intel-2016b
  • HDF/4.2.11-intel-2016b
  • HDF/4.2.12-gimkl-7.2017.3
  • HDF/4.2.12-goolf-7.2.11
  • HDF5/1.8.17-intel-2016b
  • merra2wrf/2.0
  • NCL/6.3.0-intel-2016b
  • g2clib/1.4.0-intel-2016b
  • g2lib/1.4.0-intel-2016b
  • grib_api/1.16.0-intel-2016b
  • netCDF/4.4.1-intel-2016b
  • netCDF/4.4.1-intel-2016b-with-HDF4
  • netCDF-Fortran/4.4.4-intel-2016b
  • netCDF-Fortran/4.4.4-intel-2016b-with-HDF4
  • ROOT/v5.34.36
  • ROOT/v6.08.02

/cm/shared/uniol/modules/devel

  • Autoconf/2.69-gimpi-6.2016
  • Autoconf/2.69-gimpi-6.2016
  • Automake/1.16.1-GCCcore-6.4.0
  • Autotools/20150215
  • Autotools/20150215-gimpi-6.2016
  • Autotools/20170619-GCCcore-6.4.0
  • Autotools/20180311-GCCcore-6.4.0
  • ant/1.10.1-Java-1.8.0_172
  • Boost/1.61.0-gimpi-6.2016
  • Boost/1.61.0-goolf-5.2.01
  • Boost/1.61.0-intel-2016b
  • Boost/1.64.0-intel-2017a
  • Boost/1.65.1-foss-2017b-Python-3.6.3
  • Boost/1.66.0-intel-2018a
  • Boost/1.67.0-foss-2017b-Python-2.7.14
  • catkin/0.7.14-foss-2017b-Python-2.7.14
  • catkin-dep/1.0-foss-2017b-Python-2.7.14
  • CMake/2.8.12
  • CMake/3.6.2 (D)
  • CMake/3.5.2-gimpi-6.2016
  • CMake/3.6.1-gimpi-6.2016
  • CMake/3.9.1-GCCcore-6.4.0
  • CMake/3.9.5-GCCcore-6.4.0
  • CUDA-Profiler/8.0.44
  • CUDA-Visual-Profiler/8.0.44
  • Cube/4.3.4
  • GObject-Introspection/1.52.0-intel-2016b
  • gtest/1.8.0-GCCcore-6.4.0
  • libXmu/1.1.2-goolf-5.2.01
  • M4/1.4.17
  • M4/1.4.17-gimpi-6.2016
  • Mako/1.0.4-gimpi-6.2016-Python-2.7.12
  • ncurses/6.0
  • ncurses/6.0-gimpi-6.2016
  • Nvidia-Tesla-GDK/352.79
  • OTF2/2.0
  • PCRE/8.40
  • pkg-config/0.29.1-gimpi-6.2016
  • Qt/4.8.7-goolf-5.2.01
  • Qt/4.8.7-intel-2016b
  • Qt/5.8.0-GCCcore-6.4.0
  • Qt/5.12.1-foss-2017b
  • ROS/1.14.4-foss-2017b-Python-2.7.14
  • SQLite/3.9.2-intel-2016b
  • SQLite/3.13.0-goolf-5.2.01
  • SQLite/3.13.0-intel-2016b
  • SQLite/3.19.3
  • SQLite/3.20.1-GCCcore-6.4.0
  • SQLite/3.23.0-intel-2018a
  • Spark/2.4.0-intel-2018a-Hadoop-2.7
  • SWIG/3.0.8-intel-2016b-Python-2.7.12
  • SWIG/3.0.12-Python-3.6.1
  • Scalasca/2.3
  • Valgrind/3.12.0
  • xbitmaps/1.1.1
  • xcb-proto/1.7-goolf-5.2.01-Python-2.7.3
  • xextproto/7.2.1-goolf-5.2.01
  • xproto/7.0.23-goolf-5.2.01
  • xtrans/1.2-goolf-5.2.01
  • xorg-macros/1.19.0

/cm/shared/uniol/modules/lang

  • Anaconda3/4.3.0
  • Bison/3.0.4
  • Bison/3.0.4-gimpi-6.2016
  • Gurobi/7.0.2
  • flex/2.6.0-gimpi-6.2016
  • flex/2.6.4-GCCcore-6.4.0
  • Java/8.112
  • Julia/1.0.1-intel-2018a-Perl-5.28.0
  • nodejs/4.4.7-intel-2016b
  • Perl/5.20.3
  • Perl/5.26.0-foss-2017b
  • Perl/5.26.0-GCCcore-6.4.0
  • Perl/5.28.0-GCCcore-6.4.0
  • Python/2.7.3-goolf-5.2.01
  • Python/2.7.11-intel-2016b
  • Python/2.7.12
  • Python/3.5.2 (D)
  • Python/3.6.1-goolf-5.2.01
  • R/3.3.1
  • R/3.4.3
  • R/3.5.2
  • ScientificPython/2.9.4-Python-2.7.12 (D)
  • TCL/8.6.4-intel-2016b
  • TCL/8.6.5
  • TCL/Tcl/8.6.7-GCCcore-6.4.0
  • TCL/Tcl/8.6.8-GCCcore-6.4.0
  • Yasm/1.3.0

/cm/shared/uniol/modules/lib

  • CFITSIO/3.410
  • CUDA-Blas/8.0.44
  • CUDA-FFT/8.0.44
  • GlobalArrays/5.4b-intel-2016b
  • libdrm/2.4.70-gimpi-6.2016
  • libffi/3.2.1-gimpi-6.2016
  • libglade/2.6.4-intel-2016b
  • libharu/2.3.0-intel-2016b
  • libtool/2.4.6
  • libtool/2.4.6-gimpi-6.2016
  • libpng/1.6.24
  • libpng/1.6.24-gimpi-6.2016
  • libreadline/6.3-gimpi-6.2016
  • libreadline/6.2-goolf-5.2.01
  • libxcb/1.8-goolf-5.2.01-Python-2.7.3
  • libXft/2.3.2-intel-2016b
  • libxml2/2.9.4
  • libxml2/2.9.4-gimpi-6.2016
  • libXpm/3.5.11-goolf-5.2.01
  • libXpm/3.5.11-intel-2016b
  • nettle/3.2-gimpi-6.2016
  • path.py/8.2.1-intel-2016b-Python-3.5.2
  • SIONlib/1.6.1
  • testpath/0.3-intel-2016b-Python-3.5.2
  • Xerces-C++/3.1.3
  • xforms/1.2.4
  • zlib/1.2.7-goolf-5.2.01
  • zlib/1.2.8
  • zlib/1.2.8-gimpi-6.2016
  • zlib/1.2.11
  • zlib/1.2.11-GCCcore-6.4.0
  • zoltan/3.83

/cm/shared/uniol/modules/math

  • Eigen/3.2.9-gimpi-6.2016
  • bgc/1.03-intel-2018a
  • GMP/6.1.0-intel-2016b
  • GMP/6.1.1
  • METIS/5.1.0-gimpi-6.2016 (D)
  • NEURON/7.5-intel-2016b
  • NEURON/7.6.2-intel-2018a
  • MPFR/3.1.4
  • SCOTCH/6.0.4-gimpi-6.2016 (D)
  • Theano/1.0.1-foss-2017b-Python-3.6.3

/cm/shared/uniol/modules/mpi

  • OpenMPI/1.10.4-GCC-4.9.4
  • OpenMPI/2.0.1-GCC-5.4.0
  • OpenMPI/2.0.1-GCC-6.2.0
  • OpenMPI/2.0.2-GCC-5.4.0-2.26 (D)
  • impi/5.1.3.210

/cm/shared/uniol/modules/numlib

  • ATLAS/3.10.2
  • Armadillo/7.500.1
  • CGAL/4.8.1-gimpi-6.2016
  • CLHEP/2.1.3.1
  • CLHEP/2.2.0.4
  • CLHEP/2.3.1.1
  • CLHEP/2.3.4.3
  • cuDNN/5.1-CUDA-8.0.44
  • cvx/2.1
  • Eigen/3.2.9
  • Eigen/3.2.9-gimpi-6.2016
  • FFTW/3.3.5-gompi-5.2.01
  • FIAT/1.6.0-intel-2016b-Python-2.7.12
  • GMP/6.1.1 (D)
  • GSL/2.1-intel-2016b
  • GSL/2.3-goolf-6.2.01
  • GSL/2.3-intel-2016b
  • GSL/2.4-GCCcore-6.4.0
  • GSL/2.4-goolf-7.2.11
  • Hypre/2.11.1
  • imkl/11.3.3.210
  • leda/6.3
  • LinBox/1.4.0
  • maple/18
  • maple/2016 (D)
  • MATLAB/2016b
  • MATLAB/2017b
  • MATLAB/2018b
  • MPFR/3.1.4
  • NTL/9.8.1
  • Octave/4.0.3
  • OpenBLAS/0.2.19
  • Qhull/2015.2
  • ScaLAPACK/2.0.2
  • SuiteSparse/4.5.3
  • SuiteSparse/4.5.3-intel-2018a-METIS-5.1.0
  • SuiteSparse/5.2.0-intel-2016b-METIS-5.1.0
  • SuiteSparse/5.2.0-intel-2018a-METIS-5.1.0
  • stata/13

/cm/shared/uniol/modules/phys

/cm/shared/uniol/modules/toolchain

/cm/shared/uniol/modules/tools

  • ansys/18.0
  • bzip2/1.0.6-gimpi-6.2016
  • configurable-http-proxy/1.3.0-intel-2016b-nodejs-4.4.7
  • EasyBuild/3.0.0
  • expat/2.2.0-gimpi-6.2016
  • Ghostscript/9.19-intel-2016b
  • NCO/4.6.0-intel-2016b
  • parallel/20160622-GCC-5.4.0-2.26
  • parallel/20180422-intel-2018a
  • tree/1.7.0
  • Singularity/2.4.2-GCCcore-6.4.0
  • Singularity/2.5.2-GCCcore-6.4.0
  • util-linux/2.29-intel-2016b
  • XZ/5.2.2-gimpi-6.2016
  • XZ/5.2.2-intel-2016b

/cm/shared/uniol/modules/vis

  • ATK/2.24.0-intel-2016b
  • FFmpeg/3.1.3-intel-2016b
  • fontconfig/2.12.1-gimpi-6.2016
  • freetype/2.7.1
  • freetype/2.6.5-gimpi-6.2016
  • gettext/0.18.2-goolf-5.2.01
  • gettext/0.19.8-gimpi-6.2016
  • Glade/3.8.5-intel-2016b-Python-2.7.12
  • GLib/2.49.5
  • GLib/2.52.0-intel-2016b
  • GraphicsMagick/1.3.25-intel-2016b
  • GTK+/2.24.3-intel-2016b
  • gv/3.7.4
  • inputproto/2.3-goolf-5.2.01
  • kbproto/1.0.6-goolf-5.2.01
  • Mesa/17.2.5-foss-2017b
  • Mesa/17.2.5-GCCcore-6.4.0
  • Mesa/17.3.6-intel-2018a
  • OpenCV/3.1.0-intel-2016b
  • p4vasp/0.3.29-intel-2016b-Python-2.7.12
  • ParaView/5.1.2-goolf-5.2.01-mpi
  • ParaView/5.1.2-intel-2016b-mpi (D)
  • Tk/8.6.4-intel-2016b-no-X11
  • Tk/8.6.5-gimpi-6.2016
  • UDUNITS/2.2.20-intel-2016b
  • gettext/0.19.8
  • gnuplot/5.0.5-intel-2016b
  • grace/5.1.25
  • libICE/1.0.8-goolf-5.2.01
  • libSM/1.2.1-goolf-5.2.01
  • libX11/1.6.1-goolf-5.2.01
  • libX11/1.6.3-intel-2016b
  • libXaw/1.0.12-goolf-5.2.01
  • libXpm/3.5.11-goolf-5.2.01
  • libXt/1.1.4-goolf-5.2.01
  • motif/2.3.6
  • ncview/2.1.7-intel-2016b
  • PyCairo/1.10.0-intel-2016b-Python-2.7.12
  • PyGObject/2.28.6-intel-2016b-Python-2.7.12
  • PyGTK/2.24.0-intel-2016b-Python-2.7.12
  • PyOpenGL/3.1.1a1-intel-2016b
  • X11/20160819-goolf-5.2.01
  • X11/20171023-GCCcore-6.4.0
  • X11/20180604-GCCcore-6.4.0
  • X11/all

The list above is based on the information gathered by the command 

module avail

If you want to create a list of every available software on the cluster, on your own, you can do this by simply using the command: 

module spider

The available software will be listed in the format: name, version

Retrieved from "https://wiki.hpcuser.uni-oldenburg.de/index.php?title=Installed_Application_Software_and_Libraries&oldid=4679"