Running the System Test notebooks

We recommend using the Anaconda python environment. If you use anaconda, you should be able to create a system-test environment using the conda-requirements.txt file found in each system-test directory.

First clone the system-test repo:

git clone [email protected]:ioos/system-test.git

and navigate to the subdirectory that contains the system-test notebook you want to run. In that subdirectory, you should find a conda-requirements.txt file. For example:

cd system-test/Theme_2_Extreme_Events/Scenario_2A/Extremes_Waves

you should see a notebook file ending in .ipynb as well as a conda-requirements.txt file.

First add rsignell's binstar repo which contains many of the binary packages used in they system test:

conda config --add channels https://conda.binstar.org/rsignell

• If you are NOT using Wakari, you should be able to be able to create a new custom environment that only installs the packages in use the requirements file.

conda create -n systest --file conda-requirements.txt
source activate systest

and then use the systest environment to run the notebook.

• If you are using Wakari, creating a new environment doesn't seem to work, so you can add the packages an existing environment. For example, go to Terminals, choose Shell and np18py27-1.9 and click on +Tab to open a terminal with the np18py27-1.9 environment. Then type

conda config --add channels https://conda.binstar.org/rsignell
conda install --file conda-requirements.txt

and then use the np18py27-1.9 environment to run the notebook.