<p align="center" >
<img src="https://github.com/populse/populse_mia/blob/master/populse_mia/sources_images/Logo_populse_mia_HR.jpeg" alt="populse_mia logo" height="220" width="300">
</p>
[//]: [](https://app.travis-ci.com/github/populse/populse_mia)
[](https://ci.appveyor.com/project/populse/populse-mia/branch/master)
[](https://codecov.io/gh/populse/populse_mia)
[](https://github.com/populse/populse_mia/blob/master/LICENSE)
[](https://pypi.org/project/populse-mia/)
[](https://pypi.org/project/populse-mia/)
[](#)
[](#)
# Documentation
[The documentation is available on populse_mia's website here](https://populse.github.io/populse_mia)
# Installation
* From PyPI, [for users](https://populse.github.io/populse_mia/html/installation/user_installation.html)
* By cloning the package, [for developers](https://populse.github.io/populse_mia/html/installation/developer_installation.html)
* From source, [to use the latest version of populse_mia](https://populse.github.io/populse_mia/html/installation/from_source_installation.html)
* [Third-party software](https://populse.github.io/populse_mia/html/installation/3rd-party_installations.html)
# Usage
* After an [installation in user mode](https://populse.github.io/populse_mia/html/installation/user_installation.html):
python3 -m populse_mia
* After an [installation in developer mode](https://populse.github.io/populse_mia/html/installation/developer_installation.html), interprets the main.py file from the source code directory:
cd [populse_install_dir]/populse_mia/populse_mia
python3 main.py
* Depending on the operating system used, it was observed some compatibility issues with PyQt5/SIP. In this case, we recommend, as a first attempt, to do:
python3 -m pip install --force-reinstall pyqt5==5.14.0
python3 -m pip install --force-reinstall PyQt5-sip==5.0.1
* A minimal data set (~500 MB, zip file with Bruker, Philips and NIfTI data) can be downloaded [here](https://gricad-gitlab.univ-grenoble-alpes.fr/condamie/miadatausers/-/archive/main/miadatausers-main.zip) to allow users to quickly start using and testing Mia.
# Contributing to the project
If you'd like to contribute to the project please read our [developer documentation page](https://populse.github.io/populse_mia/html/documentation/developer_documentation.html). Please also read through [our code of conduct](https://github.com/populse/populse_mia/blob/master/CODE_OF_CONDUCT.md).
# Tests
* Unit tests written thanks to the python module unittest
* Continuous integration made with Travis (Linux, OSX), and AppVeyor (Windows)
* Code coverage calculated by the python module codecov
* The module is ensured to work with Python >= 3.6
* The module is ensured to work on the platforms Linux, OSX and Windows
* The script of tests is populse_mia/test.py, so the following command launches the tests:
python3 populse_mia/test.py (from populse_mia root folder, for example [populse_install_dir]/populse_mia)
# Requirements
* capsul >= 2.5.0, < 3.0.0
* cryptography
* matplotlib
* mia-processes >= 2.5.0, < 3.0.0
* nibabel
* nipype
* pillow
* populse-db >= 2.5.0, < 3.0.0
* pre-commit
* pyqt5
* python-dateutil
* pyyaml
* scikit-image
* scipy
* snakeviz
* soma-base >= 5.2.0, < 6.0.0
* soma-workflow >= 3.2.2
* six >= 1.13
* traits
# Other packages used
* sphinx
* unittest
# License
* The whole populse project is open source
* Populse_mia is precisely released under the CeCILL software license
* All license details can be found [here](http://cecill.info/licences/Licence_CeCILL_V2.1-en.html), or refer to the license file [here](https://github.com/populse/populse_mia/blob/master/LICENSE).
# Support and Communication
All bugs, concerns and enhancement requests for populse_mia can be submitted [here](https://github.com/populse/populse_mia/issues).
The developer team can even be contacted using populse-support@univ-grenoble-alpes.fr.
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