Difference between revisions of "Installed Application Software and Libraries"

From HPC users
Jump to navigationJump to search
Line 2: Line 2:


This page was created to give you an overview of the installed software on the cluster. The list will be updated once per week.  
This page was created to give you an overview of the installed software on the cluster. The list will be updated once per week.  
<pre>
 
---------------------------------------------------------------------------------------------- /cm/local/modulefiles -----------------------------------------------------------------------------------------------
/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    null    openldap    shared
   cluster-tools/7.3    cmd    dot    freeipmi/1.5.2    gcc/6.1.0    ipmitool/1.8.17    module-git    module-info    null    openldap    shared


------------------------------------------------------------------------------------------ /cm/shared/uniol/modules/core -------------------------------------------------------------------------------------------
/cm/shared/uniol/modules/core
   hpc-uniol-env (L)    slurm/current (L)
   hpc-uniol-env (L)    slurm/current (L)


------------------------------------------------------------------------------------------- /cm/shared/uniol/modules/bio -------------------------------------------------------------------------------------------
/cm/shared/uniol/modules/bio
   BCFtools/1.3.1    BLAST/2.6.0    (D)    Beast/2.4.5      Bowtie/1.1.2    FASTX-Toolkit/0.0.14    IGVTools/2.3.75    NextGenMap/0.5.2    Stacks/1.42        ViennaRNA/2.3.1        cutadapt/1.9.1
   BCFtools/1.3.1    BLAST/2.6.0    (D)    Beast/2.4.5      Bowtie/1.1.2    FASTX-Toolkit/0.0.14    IGVTools/2.3.75    NextGenMap/0.5.2    Stacks/1.42        ViennaRNA/2.3.1        cutadapt/1.9.1
   BEDTools/2.26.0    BLAT/3.5              BioPerl/1.7.0    Bowtie2/2.2.9    FastQC/0.11.5          Lighter/1.0        SAMtools/1.3.1      Trinity/2.2.0      bcl2fastq2/2.18.0.12
   BEDTools/2.26.0    BLAT/3.5              BioPerl/1.7.0    Bowtie2/2.2.9    FastQC/0.11.5          Lighter/1.0        SAMtools/1.3.1      Trinity/2.2.0      bcl2fastq2/2.18.0.12
   BLAST/2.2.26      BamTools/2.4.0        Biopython/1.68    CD-HIT/4.6.4    IGV/2.3.80              Lumpy/0.1          SOAPdenovo2/r240    VCFtools/0.1.14    bwa.kit/0.7.12
   BLAST/2.2.26      BamTools/2.4.0        Biopython/1.68    CD-HIT/4.6.4    IGV/2.3.80              Lumpy/0.1          SOAPdenovo2/r240    VCFtools/0.1.14    bwa.kit/0.7.12


------------------------------------------------------------------------------------------- /cm/shared/uniol/modules/cfd -------------------------------------------------------------------------------------------
/cm/shared/uniol/modules/cfd
   ESMF/7.0.0        OpenFOAM/2.1.1    OpenFOAM/3.0.1      OpenFOAM/4.1-se            PALMDependencies/all    WPS/3.7.1        WRF/3.6.1    WRF/3.8.1      (D)
   ESMF/7.0.0        OpenFOAM/2.1.1    OpenFOAM/3.0.1      OpenFOAM/4.1-se            PALMDependencies/all    WPS/3.7.1        WRF/3.6.1    WRF/3.8.1      (D)
   GMT/5.3.1        OpenFOAM/2.3.1    OpenFOAM/4.0        OpenFOAM/4.1        (D)    ThetaDependencies/all    WPS/3.8.0        WRF/3.7.1    WRFGeodata/all
   GMT/5.3.1        OpenFOAM/2.3.1    OpenFOAM/4.0        OpenFOAM/4.1        (D)    ThetaDependencies/all    WPS/3.8.0        WRF/3.7.1    WRFGeodata/all
   OpenFOAM/1.7.1    OpenFOAM/2.4.0    OpenFOAM/4.1-gcc    OpenFOAM-Extend/3.2        WPS/3.6.1                WPS/3.8.1 (D)    WRF/3.8.0    WRFGeodata/3.8 (D)
   OpenFOAM/1.7.1    OpenFOAM/2.4.0    OpenFOAM/4.1-gcc    OpenFOAM-Extend/3.2        WPS/3.6.1                WPS/3.8.1 (D)    WRF/3.8.0    WRFGeodata/3.8 (D)


------------------------------------------------------------------------------------------ /cm/shared/uniol/modules/chem -------------------------------------------------------------------------------------------
/cm/shared/uniol/modules/chem
   CP2K/3.0    ORCA/3.0.3    ORCA/4.0.0 (D)    PLUMED/2.2.3    gaussian/g09.b01    gaussian/g09.d01 (D)
   CP2K/3.0    ORCA/3.0.3    ORCA/4.0.0 (D)    PLUMED/2.2.3    gaussian/g09.b01    gaussian/g09.d01 (D)


---------------------------------------------------------------------------------------- /cm/shared/uniol/modules/compiler -----------------------------------------------------------------------------------------
/cm/shared/uniol/modules/compiler
   CUDA-Toolkit/8.0.44    GCC/5.4.0-2.26        LLVM/3.8.1-goolf-5.2.01    LLVM/3.9.0-intel-2016b (D)    PGI/12.10    PGI/16.10      (D)    ifort/2016.3.210
   CUDA-Toolkit/8.0.44    GCC/5.4.0-2.26        LLVM/3.8.1-goolf-5.2.01    LLVM/3.9.0-intel-2016b (D)    PGI/12.10    PGI/16.10      (D)    ifort/2016.3.210
   GCC/4.9.4-2.25        GCC/6.2.0-2.27 (D)    LLVM/3.8.1-intel-2016b    NAG_Fortran/5.2              PGI/15.10    icc/2016.3.210
   GCC/4.9.4-2.25        GCC/6.2.0-2.27 (D)    LLVM/3.8.1-intel-2016b    NAG_Fortran/5.2              PGI/15.10    icc/2016.3.210


------------------------------------------------------------------------------------------ /cm/shared/uniol/modules/data -------------------------------------------------------------------------------------------
/cm/shared/uniol/modules/data
   CDO/1.7.2-intel-2016b    HDF5/1.8.17-intel-2016b    g2clib/1.4.0-intel-2016b    grib_api/1.16.0-intel-2016b    netCDF-Fortran/4.4.4-intel-2016b
   CDO/1.7.2-intel-2016b    HDF5/1.8.17-intel-2016b    g2clib/1.4.0-intel-2016b    grib_api/1.16.0-intel-2016b    netCDF-Fortran/4.4.4-intel-2016b
   HDF/4.2.11-intel-2016b    NCL/6.3.0-intel-2016b      g2lib/1.4.0-intel-2016b    netCDF/4.4.1-intel-2016b
   HDF/4.2.11-intel-2016b    NCL/6.3.0-intel-2016b      g2lib/1.4.0-intel-2016b    netCDF/4.4.1-intel-2016b


------------------------------------------------------------------------------------------ /cm/shared/uniol/modules/devel ------------------------------------------------------------------------------------------
/cm/shared/uniol/modules/devel
   Autotools/20150215              CMake/2.8.12                CUDA-Visual-Profiler/8.0.44    Nvidia-Tesla-GDK/352.79    SQLite/3.9.2-intel-2016b          Scalasca/2.3      xbitmaps/1.1.1
   Autotools/20150215              CMake/2.8.12                CUDA-Visual-Profiler/8.0.44    Nvidia-Tesla-GDK/352.79    SQLite/3.9.2-intel-2016b          Scalasca/2.3      xbitmaps/1.1.1
   Boost/1.61.0-goolf-5.2.01        CMake/3.6.2          (D)    Cube/4.3.4                    OTF2/2.0                  SQLite/3.13.0-goolf-5.2.01        Valgrind/3.12.0    xorg-macros/1.19.0
   Boost/1.61.0-goolf-5.2.01        CMake/3.6.2          (D)    Cube/4.3.4                    OTF2/2.0                  SQLite/3.13.0-goolf-5.2.01        Valgrind/3.12.0    xorg-macros/1.19.0
   Boost/1.61.0-intel-2016b  (D)    CUDA-Profiler/8.0.44        M4/1.4.17                      Qt/4.8.7-goolf-5.2.01      SQLite/3.13.0-intel-2016b  (D)    ncurses/6.0
   Boost/1.61.0-intel-2016b  (D)    CUDA-Profiler/8.0.44        M4/1.4.17                      Qt/4.8.7-goolf-5.2.01      SQLite/3.13.0-intel-2016b  (D)    ncurses/6.0


------------------------------------------------------------------------------------------ /cm/shared/uniol/modules/lang -------------------------------------------------------------------------------------------
/cm/shared/uniol/modules/lang
   Anaconda3/4.3.0    Gurobi/7.0.2    Perl/5.20.3                  Python/2.7.12        R/3.3.1                                    Tcl/8.6.4-intel-2016b    nodejs/4.4.7-intel-2016b
   Anaconda3/4.3.0    Gurobi/7.0.2    Perl/5.20.3                  Python/2.7.12        R/3.3.1                                    Tcl/8.6.4-intel-2016b    nodejs/4.4.7-intel-2016b
   Bison/3.0.4        Java/8.112      Python/2.7.11-intel-2016b    Python/3.5.2  (D)    ScientificPython/2.9.4-Python-2.7.12 (D)    Yasm/1.3.0
   Bison/3.0.4        Java/8.112      Python/2.7.11-intel-2016b    Python/3.5.2  (D)    ScientificPython/2.9.4-Python-2.7.12 (D)    Yasm/1.3.0


------------------------------------------------------------------------------------------- /cm/shared/uniol/modules/lib -------------------------------------------------------------------------------------------
cm/shared/uniol/modules/lib
   CFITSIO/3.410      CUDA-FFT/8.0.44    Xerces-C++/3.1.3    libtool/2.4.6    path.py/8.2.1-intel-2016b-Python-3.5.2    xforms/1.2.4    zoltan/3.83
   CFITSIO/3.410      CUDA-FFT/8.0.44    Xerces-C++/3.1.3    libtool/2.4.6    path.py/8.2.1-intel-2016b-Python-3.5.2    xforms/1.2.4    zoltan/3.83
   CUDA-Blas/8.0.44    SIONlib/1.6.1      libpng/1.6.24      libxml2/2.9.4    testpath/0.3-intel-2016b-Python-3.5.2    zlib/1.2.8
   CUDA-Blas/8.0.44    SIONlib/1.6.1      libpng/1.6.24      libxml2/2.9.4    testpath/0.3-intel-2016b-Python-3.5.2    zlib/1.2.8


------------------------------------------------------------------------------------------ /cm/shared/uniol/modules/math -------------------------------------------------------------------------------------------
/cm/shared/uniol/modules/math
   GMP/6.1.0-intel-2016b
   GMP/6.1.0-intel-2016b


------------------------------------------------------------------------------------------- /cm/shared/uniol/modules/mpi -------------------------------------------------------------------------------------------
/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
   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
----------------------------------------------------------------------------------------- /cm/shared/uniol/modules/numlib ------------------------------------------------------------------------------------------
   ATLAS/3.10.2        FFTW/3.3.5-gompi-5.2.01                    GSL/2.1        MATLAB/2016b    Octave/4.0.3      ScaLAPACK/2.0.2          imkl/11.3.3.210    maple/2016 (D)
   ATLAS/3.10.2        FFTW/3.3.5-gompi-5.2.01                    GSL/2.1        MATLAB/2016b    Octave/4.0.3      ScaLAPACK/2.0.2          imkl/11.3.3.210    maple/2016 (D)
   Armadillo/7.500.1    FIAT/1.6.0-intel-2016b-Python-2.7.12        Hypre/2.11.1    MPFR/3.1.4      OpenBLAS/0.2.19    SuiteSparse/4.5.3        leda/6.3          stata/13
   Armadillo/7.500.1    FIAT/1.6.0-intel-2016b-Python-2.7.12        Hypre/2.11.1    MPFR/3.1.4      OpenBLAS/0.2.19    SuiteSparse/4.5.3        leda/6.3          stata/13
   Eigen/3.2.9          GMP/6.1.1                            (D)    LinBox/1.4.0    NTL/9.8.1      Qhull/2015.2      cuDNN/5.1-CUDA-8.0.44    maple/18
   Eigen/3.2.9          GMP/6.1.1                            (D)    LinBox/1.4.0    NTL/9.8.1      Qhull/2015.2      cuDNN/5.1-CUDA-8.0.44    maple/18


------------------------------------------------------------------------------------------ /cm/shared/uniol/modules/phys -------------------------------------------------------------------------------------------
/cm/shared/uniol/modules/phys
   EGSnrc/2017    Geant4/9.6.p04-intel-2016b    Geant4/9.6.p04    Geant4/10.02.p01 (D)    fluka/2011.2c
   EGSnrc/2017    Geant4/9.6.p04-intel-2016b    Geant4/9.6.p04    Geant4/10.02.p01 (D)    fluka/2011.2c


---------------------------------------------------------------------------------------- /cm/shared/uniol/modules/toolchain ----------------------------------------------------------------------------------------
/cm/shared/uniol/modules/toolchain
   foss/2016b    gompi/4.1.10    gompi/5.2.01    gompi/6.2.01 (D)    goolf/5.2.01    iimpi/2013b    iimpi/2016b (D)    intel/2013b    intel/2016b (D)
   foss/2016b    gompi/4.1.10    gompi/5.2.01    gompi/6.2.01 (D)    goolf/5.2.01    iimpi/2013b    iimpi/2016b (D)    intel/2013b    intel/2016b (D)


------------------------------------------------------------------------------------------ /cm/shared/uniol/modules/tools ------------------------------------------------------------------------------------------
/cm/shared/uniol/modules/tools
   EasyBuild/3.0.0    Ghostscript/9.19-intel-2016b    NCO/4.6.0-intel-2016b    XZ/5.2.2-intel-2016b    configurable-http-proxy/1.3.0-intel-2016b-nodejs-4.4.7    tree/1.7.0    util-linux/2.29-intel-2016b
   EasyBuild/3.0.0    Ghostscript/9.19-intel-2016b    NCO/4.6.0-intel-2016b    XZ/5.2.2-intel-2016b    configurable-http-proxy/1.3.0-intel-2016b-nodejs-4.4.7    tree/1.7.0    util-linux/2.29-intel-2016b


------------------------------------------------------------------------------------------- /cm/shared/uniol/modules/vis -------------------------------------------------------------------------------------------
/cm/shared/uniol/modules/vis  
   FFmpeg/3.1.3-intel-2016b            ParaView/5.1.2-goolf-5.2.01-mpi        UDUNITS/2.2.20-intel-2016b    grace/5.1.25                ncview/2.1.7-intel-2016b
   FFmpeg/3.1.3-intel-2016b            ParaView/5.1.2-goolf-5.2.01-mpi        UDUNITS/2.2.20-intel-2016b    grace/5.1.25                ncview/2.1.7-intel-2016b
   GraphicsMagick/1.3.25-intel-2016b    ParaView/5.1.2-intel-2016b-mpi  (D)    gettext/0.19.8                libX11/1.6.3-intel-2016b
   GraphicsMagick/1.3.25-intel-2016b    ParaView/5.1.2-intel-2016b-mpi  (D)    gettext/0.19.8                libX11/1.6.3-intel-2016b
   OpenCV/3.1.0-intel-2016b            Tk/8.6.4-intel-2016b-no-X11            gnuplot/5.0.5-intel-2016b    motif/2.3.6
   OpenCV/3.1.0-intel-2016b            Tk/8.6.4-intel-2016b-no-X11            gnuplot/5.0.5-intel-2016b    motif/2.3.6
</pre>
 
This is the output of the command  
This list was created with the command:
  module avail
  module avail
and will is not showing the hidden modules.


If you want to create a list of every available software on the cluster (even the hidden ones), on your own, you can do this by simply using the command:
If you want to create a list of every available software on the cluster (even the hidden ones), on your own, you can do this by simply using the command:
  module spider
  module spider
The available software is listed in the format: '''name, version'''
The available software is listed in the format: '''name, version'''

Revision as of 15:05, 27 March 2017

Introduction

This page was created to give you an overview of the installed software on the cluster. The list will be updated once per week.

/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    null    openldap    shared

/cm/shared/uniol/modules/core 

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

/cm/shared/uniol/modules/bio 

  BCFtools/1.3.1     BLAST/2.6.0    (D)    Beast/2.4.5       Bowtie/1.1.2     FASTX-Toolkit/0.0.14    IGVTools/2.3.75    NextGenMap/0.5.2    Stacks/1.42        ViennaRNA/2.3.1         cutadapt/1.9.1
  BEDTools/2.26.0    BLAT/3.5              BioPerl/1.7.0     Bowtie2/2.2.9    FastQC/0.11.5           Lighter/1.0        SAMtools/1.3.1      Trinity/2.2.0      bcl2fastq2/2.18.0.12
  BLAST/2.2.26       BamTools/2.4.0        Biopython/1.68    CD-HIT/4.6.4     IGV/2.3.80              Lumpy/0.1          SOAPdenovo2/r240    VCFtools/0.1.14    bwa.kit/0.7.12

/cm/shared/uniol/modules/cfd 

  ESMF/7.0.0        OpenFOAM/2.1.1    OpenFOAM/3.0.1      OpenFOAM/4.1-se            PALMDependencies/all     WPS/3.7.1        WRF/3.6.1    WRF/3.8.1      (D)
  GMT/5.3.1         OpenFOAM/2.3.1    OpenFOAM/4.0        OpenFOAM/4.1        (D)    ThetaDependencies/all    WPS/3.8.0        WRF/3.7.1    WRFGeodata/all
  OpenFOAM/1.7.1    OpenFOAM/2.4.0    OpenFOAM/4.1-gcc    OpenFOAM-Extend/3.2        WPS/3.6.1                WPS/3.8.1 (D)    WRF/3.8.0    WRFGeodata/3.8 (D)

/cm/shared/uniol/modules/chem 

  CP2K/3.0    ORCA/3.0.3    ORCA/4.0.0 (D)    PLUMED/2.2.3    gaussian/g09.b01    gaussian/g09.d01 (D)

/cm/shared/uniol/modules/compiler 

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

/cm/shared/uniol/modules/data 

  CDO/1.7.2-intel-2016b     HDF5/1.8.17-intel-2016b    g2clib/1.4.0-intel-2016b    grib_api/1.16.0-intel-2016b    netCDF-Fortran/4.4.4-intel-2016b
  HDF/4.2.11-intel-2016b    NCL/6.3.0-intel-2016b      g2lib/1.4.0-intel-2016b     netCDF/4.4.1-intel-2016b

/cm/shared/uniol/modules/devel 

  Autotools/20150215               CMake/2.8.12                CUDA-Visual-Profiler/8.0.44    Nvidia-Tesla-GDK/352.79    SQLite/3.9.2-intel-2016b          Scalasca/2.3       xbitmaps/1.1.1
  Boost/1.61.0-goolf-5.2.01        CMake/3.6.2          (D)    Cube/4.3.4                     OTF2/2.0                   SQLite/3.13.0-goolf-5.2.01        Valgrind/3.12.0    xorg-macros/1.19.0
  Boost/1.61.0-intel-2016b  (D)    CUDA-Profiler/8.0.44        M4/1.4.17                      Qt/4.8.7-goolf-5.2.01      SQLite/3.13.0-intel-2016b  (D)    ncurses/6.0

/cm/shared/uniol/modules/lang 

  Anaconda3/4.3.0    Gurobi/7.0.2    Perl/5.20.3                  Python/2.7.12        R/3.3.1                                     Tcl/8.6.4-intel-2016b    nodejs/4.4.7-intel-2016b
  Bison/3.0.4        Java/8.112      Python/2.7.11-intel-2016b    Python/3.5.2  (D)    ScientificPython/2.9.4-Python-2.7.12 (D)    Yasm/1.3.0

cm/shared/uniol/modules/lib 

  CFITSIO/3.410       CUDA-FFT/8.0.44    Xerces-C++/3.1.3    libtool/2.4.6    path.py/8.2.1-intel-2016b-Python-3.5.2    xforms/1.2.4    zoltan/3.83
  CUDA-Blas/8.0.44    SIONlib/1.6.1      libpng/1.6.24       libxml2/2.9.4    testpath/0.3-intel-2016b-Python-3.5.2     zlib/1.2.8

/cm/shared/uniol/modules/math 

  GMP/6.1.0-intel-2016b

/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         FFTW/3.3.5-gompi-5.2.01                     GSL/2.1         MATLAB/2016b    Octave/4.0.3       ScaLAPACK/2.0.2          imkl/11.3.3.210    maple/2016 (D)
  Armadillo/7.500.1    FIAT/1.6.0-intel-2016b-Python-2.7.12        Hypre/2.11.1    MPFR/3.1.4      OpenBLAS/0.2.19    SuiteSparse/4.5.3        leda/6.3           stata/13
  Eigen/3.2.9          GMP/6.1.1                            (D)    LinBox/1.4.0    NTL/9.8.1       Qhull/2015.2       cuDNN/5.1-CUDA-8.0.44    maple/18

/cm/shared/uniol/modules/phys 

  EGSnrc/2017    Geant4/9.6.p04-intel-2016b    Geant4/9.6.p04    Geant4/10.02.p01 (D)    fluka/2011.2c

/cm/shared/uniol/modules/toolchain 

  foss/2016b    gompi/4.1.10    gompi/5.2.01    gompi/6.2.01 (D)    goolf/5.2.01    iimpi/2013b    iimpi/2016b (D)    intel/2013b    intel/2016b (D)

/cm/shared/uniol/modules/tools 

  EasyBuild/3.0.0    Ghostscript/9.19-intel-2016b    NCO/4.6.0-intel-2016b    XZ/5.2.2-intel-2016b    configurable-http-proxy/1.3.0-intel-2016b-nodejs-4.4.7    tree/1.7.0    util-linux/2.29-intel-2016b

/cm/shared/uniol/modules/vis 

  FFmpeg/3.1.3-intel-2016b             ParaView/5.1.2-goolf-5.2.01-mpi        UDUNITS/2.2.20-intel-2016b    grace/5.1.25                ncview/2.1.7-intel-2016b
  GraphicsMagick/1.3.25-intel-2016b    ParaView/5.1.2-intel-2016b-mpi  (D)    gettext/0.19.8                libX11/1.6.3-intel-2016b
  OpenCV/3.1.0-intel-2016b             Tk/8.6.4-intel-2016b-no-X11            gnuplot/5.0.5-intel-2016b     motif/2.3.6

This list was created with the command: 

module avail

and will is not showing the hidden modules.

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

module spider

The available software is listed in the format: name, version

Retrieved from "https://wiki.hpcuser.uni-oldenburg.de/index.php?title=Installed_Application_Software_and_Libraries&oldid=3319"