Python Environment

Running the notebooks requires a variety of Python packages. See Requirements below for the current list that is used for the geoclaw4 conda environment currently used by rjl on DesignSafe.

To create a similar environment on the DesignSafe JupyterHub, follow these steps, as adapted from the documentation on installing software and kernels:

Log into Design Safe and start a Jupyter Hub server.

Create a requirements.txt file listing packages to be pip installed, e.g. using the list below.

Open a terminal window and do the following:

    mkdir -p ~/MyData/Python_Envs
    conda config --add envs_dirs ~/MyData/Python_Envs
    conda create --name geoclaw4 -y -c conda-forge pip python
    conda activate geoclaw4
    pip install -r requirements.txt

This will take a while to run.

Then do the following (also whenever logging into Design Safe again):

    conda activate geoclaw4
    ipython kernel install --user --name=geoclaw4

The last step should ensure that the kernel geoclaw4 can be selected when running a notebook. You may have to wait a few minutes before it is available.

Requirements¶

The current contents of the requirements.txt file is listed below. Most of these are not currently needed, but may be for some future projects.

numpy
matplotlib
netCDF4
scipy
xarray
pandas
cartopy
folium
ffmpeg
pyproj
utm
obspy
obspyh5
sympy
pyvista
ninja
cloudpathlib
meson-python
pytest
torch
torchvision
ipykernel
ipython
ipywidgets
jupyterlab
trame
trame_jupyter_extension
trame-vuetify
trame-vtk
myst-parser
mystmd
jupyterlab_myst
myst-nb
jupytext
jupyter-book
nbstripout
nbdime
clawpack