Installed Application Software and Libraries
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 of 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 |
---|---|---|---|
MariaDB | 10.3.10 | foss/2017b | 21/06/2019 |
mysqlclient | 1.4.2 | foss/2017b | 21/06/2019 |
REPET | 2.5 | foss/2017b | 20/06/2019 |
RECON | 1.08 | foss/2017b | 19/06/2019 |
HMMER | 3.2.1 | foss/2017b | 19/06/2019 |
gnuplot | 5.2.6 | foss/2017b | 04/06/2019 |
canu | 1.8 | foss/2017b | 04/06/2019 |
parallel | 20190222 | GCCcore/6.4.0 | 21/05/2019 |
BayeScan | 2.1 | intel-2018a | 14/05/2019 |
FDTD Solutions | 8.21.1933 | GCCcore/6.4.0 | 08/05/2019 |
Mesa | 19.0.1 | GCCcore/6.4.0 | 08/05/2019 |
X11 | 20190311 | GCCcore/6.4.0 | 07/05/2019 |
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
- hpc-uniol-env (L)
- slurm/current (L)
- AUGUSTUS/3.2.3-intel-2016b-Python-2.7.12
- AUGUSTUS/3.2.3-intel-2018a-Python-2.7.14
- AUGUSTUS/3.3-intel-2018a
- AUGUSTUS/3.3.2-intel-2018a
- bam_to_mate_hist/2018.09-intel-2018a-Python-2.7.14
- bam_to_mate_hist/2018.11-intel-2018a-Python-2.7.14
- BayeScan/2.1-intel-2018a
- bcl2fastq2/2.18.0.12
- bcl2fastq2/2.19.0
- BEDTools/2.26.0
- BLAST/2.2.26
- BLAST/2.6.0 (D)
- BLAST+/2.7.1-foss-2017b-Python-2.7.14
- BLAST+/2.7.1-intel-2018a
- BLAT/3.5
- BamTools/2.4.0
- BamTools/2.4.1-intel-2018a
- BamTools/2.5.1-intel-2018a
- BCFtools/1.3.1
- BCFtools/1.6
- Beast/2.4.5
- BioPerl/1.7.0
- BioPerl/1.7.2-foss-2017b-Perl-5.26.0
- Biopython/1.68
- Biopython/1.71-intel-2018a-Python-3.7.0
- Biopython/1.71-intel-2018a-Python-2.7.14
- Bowtie/1.1.2
- Bowtie/1.2.2-intel-2018a
- Bowtie2/2.2.9
- Bowtie2/2.3.2-intel-2017a
- Bowtie2/2.3.4.1-intel-2018a
- Bowtie2/2.3.4.3-foss-2017b
- Bowtie2/2.3.5.1-GCC-6.4.0-2.28
- BRAKER2/2.1.2
- bwa.kit/0.7.12
- bwa.kit/0.7.17
- canu/canu/1.7-intel-2016b
- canu/canu/1.8-foss-2017b-Perl-5.28.0
- CD-HIT/4.6.4
- cutadapt/1.9.1
- Exonerate/2.4.0-foss-2017b
- Exonerate/2.4.0-intel-2018a
- FASTX-Toolkit/0.0.14
- FastQC/0.11.5
- FreeSurfer/6.0.1
- FSL/6.0.0-foss-2017b
- GATK/3.7-Java-8.112
- GeneMark-EX/4.33
- genometools/1.5.10-foss-2017b
- GffCompare/0.10.1-foss-2017b
- GffCompare/0.10.6-foss-2017b
- gffread/0.9.12-foss-2017b
- GROMACS/5.1.4-intel-2016b-mt
- HTSlib/1.8
- HISAT2//2.1.0-intel-2018a
- HMMER/3.2.1-foss-2017b
- IGV/2.3.80
- IGVTools/2.3.75
- KNIME
- Lighter/1.0
- lpsolve/5.5.2.5-intel-2016b
- lpsolve/5.5.2.5-intel-2018a
- Lumpy/0.1
- MaSuRCA/3.2.4-GCCcore-6.4.0
- MaSuRCA/3.3.0-foss-2017b-Perl-5.26.0
- MCL/14.137-foss-2017b
- MrBayes/3.2.6-foss-2017b
- NextGenMap/0.5.2
- Picard/2.9.0
- Pychopper/0.4.0-intel-2018a-Python-3.7.0
- RECON/1.08-foss-2017b
- REPET/2.5-foss-2017b-Python-2.7.14
- RSEM/1.3.1-intel-2018a
- Salmon/0.11.2-intel-2018a-Python-2.7.14
- Salmon/0.11.3-foss-2017b-Python-2.7.14
- SAMtools/1.3.1
- SAMtools/1.7
- SAMtools/1.8
- SNAP/1.0beta.23-foss-2017b
- SNAP-HMM/2013-11-29-GCCcore-6.4.0
- SOAPdenovo2/r240
- Stacks/1.42
- STAR/2.6.1 d-foss-2017b
- StringTie/1.3.5-GCCcore-6.4.0
- tabix/0.2.6
- TopHat/2.1.1
- Trimmomatic/0.36
- Trinity/2.2.0
- Trinity/2.4.0
- Trinity/2.6.6
- Trinity/2.8.4
- VCFTools/0.1.14
- ViennaRNA/2.3.1
- ESMF/7.0.0
- ESMF/7.1.0r
- GMT/5.3.1
- OpenFOAM/1.7.1
- OpenFOAM/2.1.1
- OpenFOAM/2.3.1
- OpenFOAM/2.4.0
- OpenFOAM/3.0.1
- OpenFOAM/4.0
- OpenFOAM/4.1-gcc
- OpenFOAM/4.1-se
- OpenFOAM/4.1 (D)
- OpenFOAM-Extend/3.2
- PALMDependencies/all
- ThetaDependencies/all
- WPS/3.6.1
- WPS/3.7.1
- WPS/3.8.0
- WPS/3.8.1
- WPS/3.9 (D)
- WPSGeodata/3.8 (D)
- WRF/3.6.1
- WRF/3.7.1
- WRF/3.8.0
- WRF/3.8.1
- WRF/3.9 (D)
- WRFGeodata/all
- CP2K/3.0
- CP2K/5.1
- gaussian/g09.b01
- gaussian/g09.d01
- gaussian/g16.a03
- NAMD/2.12
- NBO 2016/6.0
- ORCA/3.0.3
- ORCA/4.0.0
- ORCA/4.0.1.2
- pDynamo/1.9.0
- PLUMED/2.2.3
- 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
- LLVM/5.0.0-foss-2017b
- LLVM/5.0.0-GCCcore-6.4.0
- LLVM/6.0.0-GCCcore-6.4.0
- LLVM/7.0.0-GCCcore-6.4.0 (D)
- NAG_Fortran/5.2
- PGI/12.10
- PGI/15.10
- PGI/16.10 (D)
- icc/2016.3.210
- ifort/2016.3.210
- 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
- MariaDB/10.3.10-foss-2017b
- 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
- PyTables/3.5.1-foss-2017b-Python-2.7.14
- PyTables/3.5.1-foss-2017b-Python-3.6.3
- ROOT/v5.34.36
- ROOT/v6.08.02
- ALE/0.6.0-GCCcore-6.4.0
- 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
- intltool/0.51.0-foss-2017b-Perl-5.26.0
- intltool/0.51.0-GCCcore-6.4.0-Perl-5.26.0
- intltool/0.51.0-intel-2018a-Perl-5.26.0
- intltool/0.51.0-intel-2018a-Perl-5.28.0
- intltool/0.51.0-intel-2018a
- libXmu/1.1.2-goolf-5.2.01
- LZO/2.10-foss-2017b
- M4/1.4.17
- M4/1.4.17-gimpi-6.2016
- Mako/1.0.4-gimpi-6.2016-Python-2.7.12
- Mako/1.0.7-foss-2017b-Python-3.6.3
- Mako/1.0.7-intel-2018a-Python-2.7.14
- Mako/1.0.8-intel-2018a-Python-2.7.14
- Mako/1.0.8-intel-2018a-Python-3.7.0
- 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
- 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
- Java/1.8
- 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
- Blosc/1.14.4-GCCcore-6.4.0
- CFITSIO/3.410
- CUDA-Blas/8.0.44
- CUDA-FFT/8.0.44
- GlobalArrays/5.4b-intel-2016b
- jemalloc/5.1.0-GCCcore-6.4.0
- 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
- libjpeg-turbo/1.5.2-GCCcore-6.4.0
- libjpeg-turbo/2.0.2-GCCcore-6.4.0
- 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
- libunwind/1.2.1-GCCcore-6.4.0
- 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
- libyaml/0.1.7-GCCcore-6.4.0
- libyaml/0.2.2-GCCcore-6.4.0
- mysqlclient/1.4.2-foss-2017b-Python-2.7.14
- nettle/3.2-gimpi-6.2016
- nettle/3.3-GCCcore-6.4.0
- nettle/3.4.1-GCCcore-6.4.0
- path.py/8.2.1-intel-2016b-Python-3.5.2
- pyYAML//3.12-intel-2018a-Python-3.6.3
- PyYAML/3.13-foss-2017b-Python-3.6.3
- PyYAML/5.1-foss-2017b-Python-2.7.14
- SDL2/2.0.8-GCCcore-6.4.0
- SDL2/2.0.8-intel-2018a
- 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
- 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
- numexpr/2.6.5-foss-2017b-Python-3.6.3
- MPFR/3.1.4
- SCOTCH/6.0.4-gimpi-6.2016 (D)
- Theano/1.0.1-foss-2017b-Python-3.6.3
- 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
- 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
- EGSnrc/2017
- EGSnrc/2018
- FDTD Solutions/8.20.1634
- FDTD Solutions/8.20.1731
- FDTD Solutions/8.21.1933 (D)
- Geant4/9.6.p04
- Geant4/10.01.p01
- Geant4/10.01.p03
- Geant4/10.02.p01 (D)
- Geant4/10.03.p01
- Geant4/10.05-foss-2017b
- Geant4/10.05-foss-2017b-noMT
- g4py/10.05
- fluka/2011.2c
- PVMOS/0.48
- foss/2016b
- gimpi/6.2016
- gompi/4.1.10
- gompi/5.2.01
- gompi/6.2.01 (D)
- goolf/4.1.10
- goolf/5.2.01
- goolf/6.2.01
- iimpi/2013b
- iimpi/2016b (D)
- intel/2013b
- intel/2016b (D)
- 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
- EasyBuild/3.6.1
- EasyBuild/3.8.1
- EasyBuild/3.9.0
- EasyBuild/3.9.2
- expat/2.2.0-gimpi-6.2016
- Ghostscript/9.19-intel-2016b
- NCO/4.6.0-intel-2016b
- Meson/0.50.0-intel-2018a-Python-3.7.0
- parallel/20160622-GCC-5.4.0-2.26
- parallel/20180422-intel-2018a
- parallel/20190222-GCCcore-6.4.
- 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
- 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
- Mesa/18.1.1-GCCcore-6.4.0
- Mesa/10.0.1-GCCcore-6.4.0
- 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
- Tk/8.6.8-GCCcore-6.4.0
- UDUNITS/2.2.20-intel-2016b
- gettext/0.19.8
- gnuplot/5.0.5-intel-2016b
- gnuplot/5.2.2-foss-2017b
- gnuplot/5.2.6-foss-2017b
- 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
- VTK/8.1.0-intel-2018a-Python-2.7.14
- VTK/8.1.1-foss-2017b-Python-2.7.14
- X11/20160819-goolf-5.2.01
- X11/20171023-GCCcore-6.4.0
- X11/20180604-GCCcore-6.4.0
- X11/20190311-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