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===== List of software installed on IBISCO ======

The software list is varying and updated as other software packages are installed
==== General utilities for the use of the system ==== 

^Package^Ver, position, note^
| Midnight Commander (mc) | Simple file manager working in semigraphic form in characters in a terminal window|


==== General software for development (compilers, libraries, etc) ====

^Package^Ver, position, note^
|Intel OneAPI (compiler suites, libraries, etc provided by Intel)| |
|NVIDIA HPC SDK (compiler suites, libraries, etc provided by NVIDIA| //**Ver 20.10**// - available in the directory '' /nfsexports/SOFTWARE/nvidia/hpc_sdk/ ''|
| OpenMPI| //**Ver 4.1.orc5**// - configured to have CUDA-AWARE, available in the directory ''/usr/mpi/gcc/openmpi-4.1.0rc5/ ''|
|Julia language| //**Ver 1.6.1**// - interpreter available in the directory '' /nfsexports/SOFTWARE/julia-1.6.1 ''|
| FFTW libraries | //**ver 3.3.10**// - compiled with Intel compiler available in the directory '' /nfsexports/SOFTWARE/fftw-3.3.10 ''|
| Anaconda 3 environment| available in the directory '' /nfsexports/SOFTWARE/anaconda3.OK/ ''|
| Gestore containers Singularity| |
| Graphviz| |
| Red Hat Developer Toolset | devtoolset-9, devtoolset-10, devtoolset-11 |
| gmsh | //**Ver 4.10.1**// - available in the directory ''  /nfsexports/SOFTWARE/gmsh-4.10.1-source/install/bin '' |
| java | //**Ver 8** // |
| java | //**Ver 11.0.13** // available in the bioconda environment of conda |


==== Complete software packages for specific applications ====

^Package^Ver, posizione, note^
| Matlab | //**Ver R2020b**// - available in the directory '' /nfsexports/SOFTWARE/MATLAB/R2020b/bin '' |
| Matlab | //**Ver R2022a**// - available in the directory '' /nfsexports/SOFTWARE/MATLAB/R2022a/bin '' |
| Quantum ESPRESSO | //**Ver 7.0**// - available in the directory '' /nfsexports/SOFTWARE/qe-7.0 '' | 
| OpenFOAM | //**Ver 7.0**// - available in the directory '' /nfsexports/SOFTWARE/OpenFOAM-7.0/ '' |
| OpenFOAM | //**Ver 9.0**// - available in the directory '' /nfsexports/SOFTWARE/OpenFOAM-9.0/ '' |
| Rheotool | //**Ver 5.0**// - available in the same directory as  OpenFOAM |
| R | available in the directory '' /nfsexports/SOFTWARE/R-4.1.3 '' |


==== Tools in a conda environment ====

About the tools available in the conda environment that are accessible in the directory
 /nfsexports/SOFTWARE/anaconda3.OK/, see following list (which contains: python version 3, pytorch, tensorflow, nextflow)\\
( command to list: # /nfsexports/SOFTWARE/anaconda3.OK/bin/conda list )\\

# packages in environment at /nfsexports/SOFTWARE/anaconda3.OK:


^Name^Version^
|_anaconda_depends|2020.07|
|_ipyw_jlab_nb_ext_conf|0.1.0|
|_libgcc_mutex|0.1|
|absl-py|1.0.0|
|alabaster|0.7.12|
|anaconda|custom|
|anaconda-client|1.7.2|
|anaconda-navigator|1.10.0|
|anaconda-project|0.8.4|
|argh|0.26.2|
|argon2-cffi|20.1.0|
|asn1crypto|1.4.0|
|astroid|2.4.2|
|astropy|4.0.2|
|astunparse|1.6.3|
|async_generator|1.10|
|atomicwrites|1.4.0|
|attrs|20.3.0|
|autopep8|1.5.4|
|babel|2.8.1|
|backcall|0.2.0|
|backports|1.0|
|backports.functools_lru_cache|1.6.1|
|backports.shutil_get_terminal_size|1.0.0|
|backports.tempfile|1.0|
|backports.weakref|1.0.post1|
|beautifulsoup4|4.9.3|
|bitarray|1.6.1|
|bkcharts|0.2|
|blas|1.0|
|bleach|3.2.1|
|blosc|1.20.1|
|bokeh|2.2.3|
|boto|2.49.0|
|bottleneck|1.3.2|
|brotlipy|0.7.0|
|bzip2|1.0.8|
|ca-certificates|2022.3.29|
|cachetools|5.0.0|
|cairo|1.14.12|
|certifi|2021.10.8|
|cffi|1.14.3|
|chardet|3.0.4|
|click|7.1.2|
|cloudpickle|1.6.0|
|clyent|1.2.2|
|colorama|0.4.4|
|conda|4.12.0|
|conda-build|3.20.5|
|conda-env|2.6.0|
|conda-package-handling|1.7.2|
|conda-verify|3.4.2|
|contextlib2|0.6.0.post1|
|cryptography|3.1.1|
|curl|7.71.1|
|cycler|0.10.0|
|cython|0.29.21|
|cytoolz|0.11.0|
|dask|2.30.0|
|dask-core|2.30.0|
|dbus|1.13.18|
|deap|1.3.1|
|decorator|4.4.2|
|defusedxml|0.6.0|
|diff-match-patch|20200713|
|distributed|2.30.1|
|docutils|0.16|
|entrypoints|0.3|
|et_xmlfile|1.0.1|
|expat|2.2.10|
|fastcache|1.1.0|
|filelock|3.0.12|
|flake8|3.8.4|
|flask|1.1.2|
|flatbuffers|2.0|
|fontconfig|2.13.0|
|freetype|2.10.4|
|fribidi|1.0.10|
|fsspec|0.8.3|
|future|0.18.2|
|gast|0.5.3|
|get_terminal_size|1.0.0|
|gevent|20.9.0|
|glib|2.66.1|
|glob2|0.7|
|gmp|6.1.2|
|gmpy2|2.0.8|
|google-auth|2.6.3|
|google-auth-oauthlib|0.4.6|
|google-pasta|0.2.0|
|graphite2|1.3.14|
|greenlet|0.4.17|
|grpcio|1.44.0|
|gst-plugins-base|1.14.0|
|gstreamer|1.14.0|
|h5py|2.10.0|
|harfbuzz|2.4.0|
|hdf5|1.10.4|
|heapdict|1.0.1|
|html5lib|1.1|
|icu|58.2|
|idna|2.10|
|imageio|2.9.0|
|imagesize|1.2.0|
|importlib-metadata|4.11.3|
|importlib_metadata|2.0.0|
|iniconfig|1.1.1|
|intel-openmp|2020.2|
|intervaltree|3.1.0|
|ipykernel|5.3.4|
|ipython|7.19.0|
|ipython_genutils|0.2.0|
|ipywidgets|7.5.1|
|isort|5.6.4|
|itsdangerous|1.1.0|
|jbig|2.1|
|jdcal|1.4.1|
|jedi|0.17.1|
|jeepney|0.5.0|
|jinja2|2.11.2|
|joblib|0.17.0|
|jpeg|9b|
|json5|0.9.5|
|jsonschema|3.2.0|
|jupyter|1.0.0|
|jupyter_client|6.1.7|
|jupyter_console|6.2.0|
|jupyter_core|4.6.3|
|jupyterlab|2.2.6|
|jupyterlab_pygments|0.1.2|
|jupyterlab_server|1.2.0|
|keras|2.8.0|
|keras-preprocessing|1.1.2|
|keyring|21.4.0|
|kiwisolver|1.3.0|
|krb5|1.18.2|
|lazy-object-proxy|1.4.3|
|lcms2|2.11|
|ld_impl_linux-64|2.33.1|
|libarchive|3.4.2|
|libclang|13.0.0|
|libcurl|7.71.1|
|libedit|3.1.20191231|
|libffi|3.3|
|libgcc-ng|9.1.0|
|libgfortran-ng|7.3.0|
|liblief|0.10.1|
|libllvm10|10.0.1|
|libllvm9|9.0.1|
|libpng|1.6.37|
|libsodium|1.0.18|
|libspatialindex|1.9.3|
|libssh2|1.9.0|
|libstdcxx-ng|9.1.0|
|libtiff|4.1.0|
|libtool|2.4.6|
|libuuid|1.0.3|
|libxcb|1.14|
|libxml2|2.9.10|
|libxslt|1.1.34|
|llvmlite|0.34.0|
|locket|0.2.0|
|lxml|4.6.1|
|lz4-c|1.9.2|
|lzo|2.10|
|markdown|3.3.6|
|markupsafe|1.1.1|
|matplotlib|3.3.2|
|matplotlib-base|3.3.2|
|mccabe|0.6.1|
|mistune|0.8.4|
|mkl|2020.2|
|mkl-service|2.3.0|
|mkl_fft|1.2.0|
|mkl_random|1.1.1|
|mock|4.0.2|
|more-itertools|8.6.0|
|mpc|1.1.0|
|mpfr|4.0.2|
|mpmath|1.1.0|
|msgpack-python|1.0.0|
|multipledispatch|0.6.0|
|navigator-updater|0.2.1|
|nbclient|0.5.1|
|nbconvert|6.0.7|
|nbformat|5.0.8|
|ncurses|6.2|
|nest-asyncio|1.4.2|
|networkx|2.5|
|nextflow|0.2.2|
|nltk|3.5|
|nose|1.3.7|
|notebook|6.1.4|
|numba|0.51.2|
|numexpr|2.7.1|
|numpy|1.22.3|
|numpy-base|1.19.2|
|numpydoc|1.1.0|
|oauthlib|3.2.0|
|olefile|0.46|
|openpyxl|3.0.5|
|openssl|1.1.1n|
|opt-einsum|3.3.0|
|packaging|20.4|
|pandas|1.1.3|
|pandoc|2.11|
|pandocfilters|1.4.3|
|pango|1.45.3|
|parso|0.7.0|
|partd|1.1.0|
|patchelf|0.12|
|path|15.0.0|
|path.py|12.5.0|
|pathlib2|2.3.5|
|pathtools|0.1.2|
|patsy|0.5.1|
|pcre|8.44|
|pep8|1.7.1|
|pexpect|4.8.0|
|phonopy|2.8.1|
|pickleshare|0.7.5|
|pillow|8.0.1|
|pip|21.2.4|
|pixman|0.40.0|
|pkginfo|1.6.1|
|pluggy|0.13.1|
|ply|3.11|
|prometheus_client|0.8.0|
|prompt-toolkit|3.0.8|
|prompt_toolkit|3.0.8|
|protobuf|3.20.0|
|psutil|5.7.2|
|ptyprocess|0.6.0|
|py|1.9.0|
|py-lief|0.10.1|
|pyasn1|0.4.8|
|pyasn1-modules|0.2.8|
|pycodestyle|2.6.0|
|pycosat|0.6.3|
|pycparser|2.20|
|pycurl|7.43.0.6|
|pydocstyle|5.1.1|
|pyflakes|2.2.0|
|pygments|2.7.2|
|pylint|2.6.0|
|pyodbc|4.0.30|
|pyopenssl|19.1.0|
|pyparsing|2.4.7|
|pyqt|5.9.2|
|pyrsistent|0.17.3|
|pysocks|1.7.1|
|pytables|3.6.1|
|pytest|6.1.1|
|python|3.8.5|
|python-dateutil|2.8.1|
|python-jsonrpc-server|0.4.0|
|python-language-server|0.35.1|
|python-libarchive-c|2.9|
|python_abi|3.8|
|pytz|2020.1|
|pywavelets|1.1.1|
|pyxdg|0.27|
|pyyaml|5.3.1|
|pyzmq|19.0.2|
|qdarkstyle|2.8.1|
|qt|5.9.7|
|qtawesome|1.0.1|
|qtconsole|4.7.7|
|qtpy|1.9.0|
|qutip|4.5.2|
|readline|8.0|
|regex|2020.10.15|
|requests|2.24.0|
|requests-oauthlib|1.3.1|
|ripgrep|12.1.1|
|rope|0.18.0|
|rsa|4.8|
|rtree|0.9.4|
|ruamel_yaml|0.15.87|
|scikit-image|0.17.2|
|scikit-learn|0.23.2|
|scipy|1.5.2|
|seaborn|0.11.0|
|secretstorage|3.1.2|
|send2trash|1.5.0|
|setuptools|50.3.1|
|simplegeneric|0.8.1|
|singledispatch|3.4.0.3|
|sip|4.19.13|
|six|1.15.0|
|snappy|1.1.8|
|snowballstemmer|2.0.0|
|sortedcollections|1.2.1|
|sortedcontainers|2.2.2|
|soupsieve|2.0.1|
|sphinx|3.2.1|
|sphinxcontrib|1.0|
|sphinxcontrib-applehelp|1.0.2|
|sphinxcontrib-devhelp|1.0.2|
|sphinxcontrib-htmlhelp|1.0.3|
|sphinxcontrib-jsmath|1.0.1|
|sphinxcontrib-qthelp|1.0.3|
|sphinxcontrib-serializinghtml|1.1.4|
|sphinxcontrib-websupport|1.2.4|
|spyder|4.1.5|
|spyder-kernels|1.9.4|
|sqlalchemy|1.3.20|
|sqlite|3.33.0|
|statsmodels|0.12.0|
|sympy|1.6.2|
|tbb|2020.3|
|tblib|1.7.0|
|tensorboard|2.8.0|
|tensorboard-data-server|0.6.1|
|tensorboard-plugin-wit|1.8.1|
|tensorflow|2.8.0|
|tensorflow-io-gcs-filesystem|0.24.0|
|termcolor|1.1.0|
|terminado|0.9.1|
|testpath|0.4.4|
|tf-estimator-nightly|2.8.0.dev2021122109|
|threadpoolctl|2.1.0|
|tifffile|2020.10.1|
|tk|8.6.10|
|toml|0.10.1|
|toolz|0.11.1|
|torch|1.11.0|
|tornado|6.0.4|
|tqdm|4.50.2|
|traitlets|5.0.5|
|typing_extensions|3.7.4.3|
|ujson|4.0.1|
|unicodecsv|0.14.1|
|unixodbc|2.3.9|
|urllib3|1.25.11|
|watchdog|0.10.3|
|wcwidth|0.2.5|
|webencodings|0.5.1|
|werkzeug|1.0.1|
|wheel|0.35.1|
|widgetsnbextension|3.5.1|
|wrapt|1.11.2|
|wurlitzer|2.0.1|
|xlrd|1.2.0|
|xlsxwriter|1.3.7|
|xlwt|1.3.0|
|xmltodict|0.12.0|
|xz|5.2.5|
|yaml|0.2.5|
|yapf|0.30.0|
|zeromq|4.3.3|
|zict|2.0.0|
|zipp|3.4.0|
|zlib|1.2.11|
|zope|1.0|
|zope.event|4.5.0|
|zope.interface|5.1.2|
|zstd|1.4.5|



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