Metadata-Version: 2.1
Name: cgeniepy
Version: 0.14.5
Summary: A Python package to read, analyse and visualise cGENIE Earth System Model output
Author: Rui Ying
Author-email: ying.rui@outlook.com
License: GPL-3.0-only
Classifier: Programming Language :: Python :: 3
Classifier: License :: OSI Approved :: GNU General Public License v3 (GPLv3)
Classifier: Operating System :: OS Independent
Requires-Python: >=3.10
Description-Content-Type: text/markdown
License-File: LICENSE
Requires-Dist: xarray
Requires-Dist: numpy
Requires-Dist: pandas
Requires-Dist: matplotlib
Requires-Dist: cartopy
Requires-Dist: netCDF4
Requires-Dist: scipy
Requires-Dist: regionmask
Requires-Dist: geopandas
Provides-Extra: extra
Requires-Dist: pangaeapy; extra == "extra"

<p align="center">
  <img src="logo.png"/>
</p>

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`cgeniepy` is a Python package to analyse the output of [cGENIE Earth System Model](https://www.seao2.info/mymuffin.html). It aims to provide a set of convenient tools for the post-simulation work, including analysing the model output, plotting publication-quality figures, and conducting model-data comparison.

⚠ `cgeniepy` is in beta stage with main functionalities being accompolished.


## Installation

1. Install from [PyPI](https://pypi.org/project/cgeniepy/).

```bash
python3 -m pip install cgeniepy
```

2. Install from GitHub:

```bash
python3 -m pip install git+https://github.com/ruiying-ocean/cgeniepy.git@master
```

3. Install extra dependency
```bash
python3 -m pip install "cgeniepy[extra]"
```


## Quickstart
I have uploaded a sample model run, which is a [preindustrial spinup configuration](https://doi.org/10.5194/gmd-17-1729-2024) with marine ecosystem and biogeochemistry enabled (C, P, Fe, Si, O). 

```python
import cgeniepy
from cgeniepy.model import GenieModel

model = cgeniepy.sample_model()
## for your own model experiment
model = GenieModel("directory_to_your_model_output")

## select variable -> select coordinate -> operation like mean or plot
model.get_var('ocn_sur_temp').isel(time=-1).plot(colorbar=True)
```

* If you want to try other cGENIE model runs, you may go to this zenodo record (https://zenodo.org/records/10575295). 
* If you want to try non-cGENIE model, I have also uploaded two example files to here (https://zenodo.org/records/13786014). 


## Documentation

[An online documentation is hosted in readthedoc.](https://cgeniepy.readthedocs.io/en/latest/)



## Citation

Ying, R. (2024). cgeniepy: A Python package for analysing cGENIE Earth System Model output. Journal of Open Source Software, 9(101), 6762. https://doi.org/10.21105/joss.06762

## Logo

Logo is designed by me using free **righteous** font.

## Alternative
* Prof. Andy Ridgwell's [muffinplot](https://github.com/derpycode/muffinplot)
* Dr. Alex Phol's [genie_basicdiags](https://github.com/alexpohl/genie_basicdiags/)

## Raise a bug

Please use GitHub's Issues to raise a bug. This makes the issues traceable so that future users having the same problem can find the answer in the public domain.

## Contributing

[How to contribute](CONTRIBUTING.md)
