Contributions are welcome in the form of pull requests.
Once the implementation of a piece of functionality is considered to be bug
free and properly documented (both API docs and an example script),
it can be incorporated into the main
branch.
To help developing mne-bids
, you will need a few adjustments to your
installation as shown below.
If you want to run the tests with a development version of MNE-Python, you can install it by running
$ pip install -U https://github.com/mne-tools/mne-python/archive/main.zip
First, you should fork the mne-bids
repository. Then, clone the fork and install it in
"editable" mode.
$ git clone https://github.com/<your-GitHub-username>/mne-bids
$ pip install -e ./mne-bids
You can install the testing requirements using the test_requirements.txt
file
from the root of the mne-bids repository.
$ pip install -r test_requirements.txt
Finally, it is necessary to install the BIDS validator. The outputs of MNE-BIDS are run through the BIDS validator to check if the conversion worked properly and produced datasets that conforms to the BIDS specifications.
You will need the command line version
of the validator.
- First, install Node.js.
- For installing the stable version of
bids-validator
, please follow the instructions as detailed in the README of the bids-validator repository. - For installing the development version of
bids-validator
, see here.
Test your installation by running:
$ bids-validator --version
Install Node.js. If you're use conda
, you can
install the nodejs
package from conda-forge
by running
conda install -c conda-forge nodejs
.
Then, retrieve the validator and install all its dependencies via npm
.
$ git clone git@github.com:bids-standard bids-validator.git
$ cd bids-validator/bids-validator
$ npm install
Test your installation by running:
$ ./bin/bids-validator --version
Now you can finally run the tests by running pytest
in the
mne-bids
directory.
$ pytest
If you have installed the bids-validator
on a per-user basis, set the environment variable VALIDATOR_EXECUTABLE
to point to the path of the bids-validator
before invoking pytest
:
$ VALIDATOR_EXECUTABLE=../bids-validator/bids-validator/bin/bids-validator pytest
The documentation can be built using sphinx.
You can install the documentation requirements using the requirements.txt
file
in the doc/
directory of the mne-bids repository.
$ pip install -r doc/requirements.txt
To build the documentation locally, one can run:
$ make build-doc
or, if you don't want to run the examples to build the documentation:
$ make -C doc/ html-noplot
The latter command will result in a faster build but produce no plots in the examples.