Python wrapper around CodeOcean's REST API.
Code Ocean has published their own SDK:
https://github.com/codeocean/codeocean-sdk-python
We will be dropping support of this package in favor of the official SDK.
To install from PyPI, run:
pip install aind-codeocean-api
To install from a clone of the repository, in the root directory, run
pip install -e .
To install the development libraries of the code, run
pip install -e .[dev]
Example of getting data asset metadata:
from aind_codeocean_api.codeocean import CodeOceanClient
domain = "https://acmecorp.codeocean.com"
token = "AN_API_TOKEN" # Replace with your api token
data_asset_id = "37a93748-ce90-4980-913b-2de0908d5212"
co_client = CodeOceanClient(domain=domain, token=token)
response = co_client.get_data_asset(data_asset_id=data_asset_id)
metadata = response.json()
To store credentials locally, run:
python -m aind_codeocean_api.credentials
There are several libraries used to run linters, check documentation, and run tests.
- Please test your changes using the coverage library, which will run the tests and log a coverage report:
coverage run -m unittest discover && coverage report
- Use interrogate to check that modules, methods, etc. have been documented thoroughly:
interrogate .
- Use flake8 to check that code is up to standards (no unused imports, etc.):
flake8 .
- Use black to automatically format the code into PEP standards:
black .
- Use isort to automatically sort import statements:
isort .
For internal members, please create a branch. For external members, please fork the repo and open a pull request from the fork. We'll primarily use Angular style for commit messages. Roughly, they should follow the pattern:
<type>(<scope>): <short summary>
where scope (optional) describes the packages affected by the code changes and type (mandatory) is one of:
- build: Changes that affect the build system or external dependencies (example scopes: pyproject.toml, setup.py)
- ci: Changes to our CI configuration files and scripts (examples: .github/workflows/ci.yml)
- docs: Documentation only changes
- feat: A new feature
- fix: A bug fix
- perf: A code change that improves performance
- refactor: A code change that neither fixes a bug nor adds a feature
- test: Adding missing tests or correcting existing tests
To generate the rst files source files for documentation, run
sphinx-apidoc -o doc_template/source/ src
Then to create the documentation html files, run
sphinx-build -b html doc_template/source/ doc_template/build/html
More info on sphinx installation can be found here: https://www.sphinx-doc.org/en/master/usage/installation.html