Installing OGGM =============== .. important:: Did you know that you can try OGGM in your browser before installing it on your computer? Visit :doc:`cloud` for more information. Did you know that we provide standard projections for all glaciers in the world, and that you may not have to run OGGM for your use case? Visit :doc:`download-projections` for more information. OGGM itself is a pure python package, but it has several dependencies which are not trivial to install. The instructions below provide all the required details and should work on Linux and Mac OS. See :ref:`install-troubleshooting` if something goes wrong. OGGM is fully `tested`_ with Python versions 3.9 to 3.11 on Linux. We do not test OGGM automatically on Mac OSX, but it should probably run fine there as well. .. warning:: **OGGM does not work on Windows. However there is a workaround available**. If you are using Windows 10, we recommend to install the free `Windows subsystem for Linux `_ (WSL) and install and run OGGM from there. Though we don't offer support for installation, documentation of a succesfull installation can be found here: .. toctree:: :maxdepth: 1 installing-oggm-windows.rst For most users we recommend to install Python and the package dependencies with the :ref:`conda package manager `, in particular with ``mamba`` and ``conda-forge``. .. _tested: https://github.com/OGGM/oggm/actions/workflows/run-tests.yml .. _conda: https://conda.io/projects/conda/en/latest/user-guide/index.html .. _pip: https://docs.python.org/3/installing/ .. _mamba: https://mamba.readthedocs.io Dependencies ------------ Here is a list of *all* dependencies of the OGGM model. If you want to use OGGM's numerical models only (i.e. no GIS or preprocessing tools), refer to `Install a minimal OGGM environment`_ below. Standard SciPy stack: - numpy - scipy - scikit-image - pillow - matplotlib - pandas - xarray - dask - joblib Configuration file parsing tool: - configobj I/O: - netcdf4 - pytables GIS tools: - shapely - pyproj - rasterio - rioxarray - geopandas Testing: - pytest - pytest-mpl (for image tests only: `OGGM fork `_ required) Other libraries: - `salem `_ - `motionless `_ Optional: - progressbar2 (displays the download progress) - bottleneck (might speed up some xarray operations) .. _conda-install: Install with conda (all platforms) ---------------------------------- This is the recommended way to install OGGM for most users. .. note:: If you are not familiar with Python and its `way too many package management systems `_, you might find all of this quite confusing and overwhelming. Be patient, `read the docs `_ and stay hydrated. Prerequisites ~~~~~~~~~~~~~ You should have a recent version of the `conda`_ package manager. Our recommendation is to install `mambaforge`_. If you are completely new to these things, check out `this page `_ which explains how to install ``mambaforge`` and `this one `_ for installing packages. We recommend to use `mamba`_ over conda as an installation command. Mamba is a drop-in replacement for all conda commands. If you feel like it, install mamba in your conda environment (``conda install -c conda-forge mamba``) and replace all occurrences of ``conda`` with ``mamba`` in the instructions below. .. warning:: Do not install mambaforge on top of an existing conda installation! See `this issue `_ for context. If you have conda installed and want to switch to mamba + conda-forge, follow the instructions on the respective platforms. .. _miniconda: http://conda.pydata.org/miniconda.html .. _mambaforge: https://github.com/conda-forge/miniforge#mambaforge The simplest way: with an environment file ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Copy the content of the file below into a file called ``environment.yml`` on your system (alternatively, right-click -> "save as" on `this link `_). .. include:: recommended_env.yml :literal: From the folder where you saved the file, run ``mamba env create -f environment.yml``. This will create a new environment called ``oggm_env`` in your conda installation. For more information about conda environments, visit the `conda documentation on the topic `_. Similarly, visit `conda documentation on environment files `_ for more information about how to create an environment from a ``yml`` file. Don't forget to :ref:`test-oggm` before using it! Install OGGM itself ~~~~~~~~~~~~~~~~~~~ First, choose which version of OGGM you would like to install: - **stable**: this is the latest version officially released and has a fixed version number (e.g. v1.5.3). - **dev**: this is the development version. It might contain new features and bug fixes, but is also likely to continue to change until a new release is made. This is the recommended way if you want to use the latest changes to the code. - **dev+code**: this is the recommended way if you plan to contribute to the model, and/or if you want to use the most recent model updates. **‣ install the stable version:** .. note:: If you installed OGGM with the environment file above, OGGM will be installed already in the latest **stable** version. In your conda environment, use pip:: pip install oggm **‣ install the dev version:** For this to work you'll need to have the `git`_ software installed on your system. In your conda environment, simply do:: pip install --upgrade git+https://github.com/OGGM/oggm.git With this command you can also update an already installed OGGM version to the latest version. **‣ install the dev version + get access to the OGGM code:** For this to work you'll need to have the `git`_ software installed on your system. Then, clone the latest repository version:: git clone https://github.com/OGGM/oggm.git .. _git: https://git-scm.com/book/en/v2/Getting-Started-Installing-Git Then go to the project root directory:: cd oggm And install OGGM in development mode (this is valid for both **pip** and **conda** environments):: pip install -e . .. note:: Installing OGGM in development mode means that subsequent changes to this code repository will be taken into account the next time you will ``import oggm``. You can also update OGGM with a simple `git pull`_ from the root of the cloned repository. .. _git pull: https://git-scm.com/docs/git-pull Don't forget to :ref:`test-oggm` before using it! .. _test-oggm: Test OGGM ~~~~~~~~~ You can test your OGGM installation by running the following command from anywhere (don't forget to activate your environment first):: pytest.oggm --disable-warnings The tests should run for 5 to 10 minutes. If everything worked fine, you should see something like:: =================================== test session starts ==================================== platform linux -- Python 3.10.6, pytest-7.1.3, pluggy-1.0.0 Matplotlib: 3.5.3 Freetype: 2.12.1 rootdir: /home/mowglie/disk/Dropbox/HomeDocs/git/oggm-fork, configfile: pytest.ini plugins: anyio-3.6.1, mpl-0.150.0 collected 373 items disk/Dropbox/HomeDocs/git/oggm-fork/oggm/tests/test_benchmarks.py ...s.ss [ 1%] disk/Dropbox/HomeDocs/git/oggm-fork/oggm/tests/test_graphics.py ..........s...s....s [ 7%] ss [ 7%] disk/Dropbox/HomeDocs/git/oggm-fork/oggm/tests/test_minimal.py ... [ 8%] disk/Dropbox/HomeDocs/git/oggm-fork/oggm/tests/test_models.py ...................... [ 14%] .........ssss.......ssss.ss.ss..ssssssssss..ssssssssssssssssssssssssssssssss.s [ 35%] disk/Dropbox/HomeDocs/git/oggm-fork/oggm/tests/test_numerics.py sssss.ss.sssss.s.sss [ 40%] ss.sss.sss.s [ 43%] disk/Dropbox/HomeDocs/git/oggm-fork/oggm/tests/test_prepro.py ..................s... [ 49%] ...........s....ss...ss..s.....ss.....sssssss..sssss....s....... [ 67%] disk/Dropbox/HomeDocs/git/oggm-fork/oggm/tests/test_shop.py ss..........s. [ 70%] disk/Dropbox/HomeDocs/git/oggm-fork/oggm/tests/test_utils.py ....................... [ 76%] ....sss.......sss...s....................ss.s..ssss.ssssss..sss...s.ss.ss.ss.... [ 98%] disk/Dropbox/HomeDocs/git/oggm-fork/oggm/tests/test_workflow.py ssssss [100%] ======================= 224 passed, 149 skipped in 217.03s (0:03:37) ====================== .. important:: The tests (without the ``--run-slow`` option) should run in 5 to 15 minutes. If this takes too long, this may be an indication that something's wrong This runs a comprehensive suite of tests. If you want to run the *entire* test suite (including graphics and slow running tests), type:: pytest.oggm --run-slow --mpl **Congrats**, you are now set-up for the :doc:`getting-started` section! .. _install-troubleshooting: Installation troubleshooting ---------------------------- We try to do our best to avoid issues, but experience shows that the installation of the necessary packages can be difficult. Typical errors are often related to the pyproj, fiona and GDAL packages, which are heavy and (for pyproj) have changed a lot in the recent past and are prone to platform specific errors. If the tests don't pass, a diagnostic of which package creates the errors might be necessary. Errors like ``segmentation fault`` or ``Proj Error`` are frequent and point to errors in upstream packages, rarely in OGGM itself. If you encounter issues, please get in touch with us `on github `_. Install a minimal OGGM environment ---------------------------------- If you plan to use only the numerical core of OGGM (that is, for idealized simulations or teaching), you can skip many dependencies and only install this shorter list: .. include:: recommended_minimal_env.yml :literal: Installing them with pip or conda should be much easier. `Install OGGM itself`_ then as above. Running the tests in this minimal environment works the same. Simply run from a terminal:: pytest.oggm The number of tests will be much smaller! .. _virtualenv-install: Install with pyenv (Linux) -------------------------- .. note:: We recommend our users to use ``conda`` instead of ``pip``, because of the ease of installation with ``conda``. If you are familiar with ``pip`` and ``pyenv``, the instructions below work as well: as of Sept 2022 (and thanks to pip wheels), a pyenv installation is possible without major issue on Debian/Ubuntu/Mint systems. Linux packages ~~~~~~~~~~~~~~ Run the following commands to install the required linux packages. For building python and stuff:: $ sudo apt-get install --no-install-recommends make build-essential git \ libssl-dev zlib1g-dev libbz2-dev libreadline-dev libsqlite3-dev wget \ curl llvm libncurses5-dev xz-utils tk-dev libxml2-dev libxmlsec1-dev \ libffi-dev liblzma-dev For NetCDF and HDF:: $ sudo apt-get install netcdf-bin ncview hdf5-tools libhdf5-dev Pyenv and pyenv-virtualenv ~~~~~~~~~~~~~~~~~~~~~~~~~~ .. note:: If you are not familiar with pyenv, you can visit `their documentation `_ (especially the installing pyenv section). Install `pyenv `_ and create a new virtual environment with a recent python version (3.7+) using `pyenv-virtualenv `_. Python packages ~~~~~~~~~~~~~~~ Be sure to be on the working environment:: $ pyenv activate oggm_env Update pip (**important!**):: $ pip install --upgrade pip Install some packages one by one:: $ pip install numpy scipy pandas shapely matplotlib pyproj \ rasterio Pillow geopandas netcdf4 scikit-image configobj joblib \ xarray progressbar2 pytest motionless dask bottleneck toolz \ tables rioxarray pytables A pinning of the NetCDF4 package to 1.3.1 might be necessary on some systems (`related issue `_). Finally, install the pytest-mpl OGGM fork and salem libraries:: $ pip install git+https://github.com/OGGM/pytest-mpl.git $ pip install salem Install OGGM and run the tests ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Refer to `Install OGGM itself`_ above.