Stencila for Python
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nokome Merge pull request #17 from stencila/install-instructions
Troubleshooting install with Anaconda
Latest commit f6a245f Jun 12, 2018

Stencila for Python

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This package isn't on PyPI yet, but you can install it this repository using using pip:

pip install --user

Note If you have Anaconda installed on your system, you should install the package using the following command:

pip install

This will install stencila in your Anaconda directory (where it should be), rather than in your local user Python libraries directory. If you don't do that (i.e. get the stencila package installed in your local user Python libraries), when you try to register stencila package (see below), you will get an error as your Anaconda Python will search for stencila and its dependencies in the Anaconda directory.

Then install the package so that other Stencila packages and applications can detect it:

python -m stencila register

or, for older versions of Python you may need to do:

python -c "import stencila; stencila.register()"

Note If the default Python on your machine is Python 2.7 whilst you have Python 3.6 installed and you would like to use it with Stencila, then you need to install stencila using pip3 and then register it explicitly using python3:

pip3 install --user
python3 -m stencila register


This package lets you run Python code (and other languages) from inside Stencila Documents. When you start the Stencila Desktop, the Stencila Python package will be automatically detected by the dektop app and you'll be able to execute Python code cells from within your documents.

In addition to the a PythonContext class, this packages also provides a SQLiteContext for executing SQL within an SQLite database (currently only an in-memory database).

More documentation is available at


We love feedback. Create a new issue, add to existing issues or chat with members of the community.


Most development tasks can be run using the usual Python toolchain or via make shortcuts.

Task make Python tooling
Install dependencies make setup pip install ...
Run tests make test tox
Run tests with coverage make cover tox -e cover
Build make build ./ bdist_wheel
Build documentation make docs make -C docs html
Run for manual testing make run python -m stencila
Clean make clean rm -rf ...

To get started, please read our contributor code of conduct, then get in touch or checkout the platform-wide, cross-repository kanban board, or just send in a pull request!

During development a its handy to have pytest installed and run individual test file from the root directory like this:

python -m pytest tests/

Or run all the tests:

python -m pytest tests

For the automation and standardisation of testing across Python versions we use tox. Running make test (or just tox) will build the package and run the test suite.

Tests are run on Travis and code coverage tracked at Codecov.