.. image:: https://github.com/matthiaskoenig/pymetadata/raw/develop/docs/images/favicon/pymetadata-100x100-300dpi.png
:align: left
:alt: pymetadata logo
pymetadata: python utilities for metadata and COMBINE archives
==============================================================
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:alt: GNU Lesser General Public License 3
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pymetadata is a collection of python utilities for working with
metadata in the context of COMBINE standards with source code available from
`https://github.com/matthiaskoenig/pymetadata <https://github.com/matthiaskoenig/pymetadata>`__.
Features include among others
- COMBINE archive version 1 support (OMEX)
- annotation classes and helpers
- SBO and KISAO ontology enums
If you have any questions or issues please `open an issue <https://github.com/matthiaskoenig/pymetadata/issues>`__.
Documentation
=============
Documentation is still work in progress. For an example usage of the COMBINE archive
see `src/pymetadata/examples/omex_example.py <src/pymetadata/examples/omex_example.py>`__.
How to cite
===========
.. image:: https://zenodo.org/badge/DOI/10.5281/zenodo.5308801.svg
:target: https://doi.org/10.5281/zenodo.5308801
:alt: Zenodo DOI
Contributing
============
Contributions are always welcome! Please read the `contributing guidelines
<https://github.com/matthiaskoenig/pymetadata/blob/develop/.github/CONTRIBUTING.rst>`__ to
get started.
License
=======
* Source Code: `LGPLv3 <http://opensource.org/licenses/LGPL-3.0>`__
* Documentation: `CC BY-SA 4.0 <http://creativecommons.org/licenses/by-sa/4.0/>`__
The pymetadata source is released under both the GPL and LGPL licenses version 2 or
later. You may choose which license you choose to use the software under.
This program is free software: you can redistribute it and/or modify it under
the terms of the GNU General Public License or the GNU Lesser General Public
License as published by the Free Software Foundation, either version 2 of the
License, or (at your option) any later version.
This program is distributed in the hope that it will be useful, but WITHOUT ANY
WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A
PARTICULAR PURPOSE. See the GNU General Public License for more details.
Funding
=======
Matthias König was supported by the Federal Ministry of Education and Research (BMBF, Germany)
within the research network Systems Medicine of the Liver (**LiSyM**, grant number 031L0054)
and is supported by the German Research Foundation (DFG) within the Research Unit Programme FOR 5151
"`QuaLiPerF <https://qualiperf.de>`__ (Quantifying Liver Perfusion-Function Relationship in Complex Resection -
A Systems Medicine Approach)" by grant number 436883643 and by grant number 465194077 (Priority Programme SPP 2311, Subproject SimLivA), and
Installation
============
`pymetadata` is available from `pypi <https://pypi.python.org/pypi/pymetadata>`__ and
can be installed via::
pip install pymetadata
Develop version
---------------
The latest develop version can be installed via::
pip install git+https://github.com/matthiaskoenig/pymetadata.git@develop
Or via cloning the repository and installing via::
git clone https://github.com/matthiaskoenig/pymetadata.git
cd pymetadata
pip install -e .
To install for development use::
pip install -e .[development]
© 2021-2024 Matthias König
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