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# Setting up sphinx to create a matlab doc
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## Set up virtual environment
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```bash
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virtualenv -p python3 cpp_bids
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source cpp_bids/bin/activate
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pip install -r requirements.txt
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```
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## Quick start on the doc
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See the [sphinx doc](https://www.sphinx-doc.org/en/master/usage/quickstart.html)
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for more.
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This
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[blog post](https://medium.com/@richdayandnight/a-simple-tutorial-on-how-to-document-your-python-project-using-sphinx-and-rinohtype-177c22a15b5b)
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is also useful.
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```bash
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cd docs
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sphinx-quickstart # launch a basic interactive set up of sphinx
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```
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Answer the questions on prompt.
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## Setting up conf.py for matlab doc
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Following the documentation from
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[matlabdomain for sphinx](https://github.com/sphinx-contrib/matlabdomain).
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Specify the extensions you are using:
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```python
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extensions = [
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'sphinxcontrib.matlab',
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'sphinx.ext.autodoc']
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```
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`matlab_src_dir` in `docs/source/conf.py` should have the path (relative to
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`conf.py`) to the folder containing your matlab code:
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```python
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matlab_src_dir = os.path.dirname(os.path.abspath('../../src'))
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```
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## reStructured text markup
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reStructured text mark up primers:
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- on the [sphinx site](https://www.sphinx-doc.org/en/master/usage/restructuredtext/basics.html)
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- more
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[python oriented](https://pythonhosted.org/an_example_pypi_project/sphinx.html)
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- typical doc strings templates
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- [google way](https://www.sphinx-doc.org/en/master/usage/extensions/example_google.html)
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- [numpy](https://www.sphinx-doc.org/en/master/usage/extensions/example_numpy.html#example-numpy)
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## "Templates"
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The templates to use for the doc are in the `src/templates` folder.
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You then just need to insert this in your `.rst` file for the documentation to
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be done automatically.
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```rst
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.. automodule:: src.folder_name .. <-- This is necessary for auto-documenting the rest
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.. autofunction:: function to document
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```
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To get the filenames of all the functions in a folder:
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``` bash
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ls -l src/*.m | cut -c42- | rev | cut -c 3- | rev
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```
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Increase the `42` to crop more characters at the beginning.
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Change the `3` to crop more characters at the end.
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## Build the documentation locally
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From the `docs` directory:
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```bash
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sphinx-build -b html source build
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```
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This will build an html version of the doc in the `build` folder.
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## Build the documentation with Read the Docs
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Add a [`.readthedocs.yml`](../.readthedocs.yml) file in the root of your repo.
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See [HERE](https://docs.readthedocs.io/en/stable/config-file/v2.html) for
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details.
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You can then trigger the build of the doc by going to the
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[read the docs website](https://readthedocs.org).
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You might need to be added as a maintainer of the doc.
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The doc can be built from any branch of a repo.
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Information on how to write and build the documentation can be found in our
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[CONTRIBUTING guidelines](https://github.com/cpp-lln-lab/.github/blob/main/CONTRIBUTING.md).

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