GRASS GIS Jupyter notebooks: Difference between revisions

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''(add yours to the list!)''
''(add yours to the list!)''


Intro notebooks:
'''Intro notebooks:'''
* [https://github.com/OSGeo/grass/blob/main/doc/notebooks Official notebooks in OSGeo/grass repo] ([https://mybinder.org/v2/gh/OSGeo/grass/main?urlpath=lab%2Ftree%2Fdoc%2Fnotebooks%2Fjupyter_example.ipynb jupyter_example.ipynb on Binder])
* [https://github.com/OSGeo/grass/blob/main/doc/notebooks Official notebooks in OSGeo/grass repo] ([https://mybinder.org/v2/gh/OSGeo/grass/main?urlpath=lab%2Ftree%2Fdoc%2Fnotebooks%2Fjupyter_example.ipynb jupyter_example.ipynb on Binder])
* [https://github.com/ncsu-geoforall-lab/grass-gis-workshop-foss4g-2022 Unleash the power of GRASS GIS with Jupyter (FOSS4G 2022 workshop)]
* [https://github.com/ncsu-geoforall-lab/grass-gis-workshop-foss4g-2022 Unleash the power of GRASS GIS with Jupyter (FOSS4G 2022 workshop)]
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** GRASS GIS Introduction, by Anna Petrasova: https://dashboard.wholetale.org/run/63d832bab4a0197e9a9ecdad?tab=files
** GRASS GIS Introduction, by Anna Petrasova: https://dashboard.wholetale.org/run/63d832bab4a0197e9a9ecdad?tab=files


Collections:
'''Workbook Collections:'''
* [https://github.com/wenzeslaus/geospatial-modeling-course-jupyter/tree/master/notebooks 14 Jupyter Notebooks for learning geospatial analysis and modeling with GRASS GIS] (Python and command line versions)
* [https://github.com/wenzeslaus/geospatial-modeling-course-jupyter/tree/master/notebooks 14 Jupyter Notebooks for learning geospatial analysis and modeling with GRASS GIS] (Python and command line versions)


Species Distribution Modeling:
'''Species Distribution Modeling:'''
* NSF platform: https://wholetale.org/
* NSF platform: https://wholetale.org/
** Using satellite data for Species Distribution Modeling with GRASS GIS and R, by Veronica Andreo https://dashboard.wholetale.org/run/64388157b3b74e434bd8f1ac?tab=files
** Using satellite data for Species Distribution Modeling with GRASS GIS and R, by Veronica Andreo https://dashboard.wholetale.org/run/64388157b3b74e434bd8f1ac?tab=files


Image processing/OBIA:
'''Image processing/OBIA:'''
* [https://github.com/veroandreo/foss4g2022_grass4rs GRASS GIS for remote sensing data processing and analysis]
* [https://github.com/veroandreo/foss4g2022_grass4rs GRASS GIS for remote sensing data processing and analysis]
* [https://github.com/neteler/jupyter_sentinel2_grass_gis GRASS GIS 8 and processing of multitemporal EO data]
* [https://github.com/neteler/jupyter_sentinel2_grass_gis GRASS GIS 8 and processing of multitemporal EO data]
* [https://github.com/tgrippa/Opensource_OBIA_processing_chain An open-source semi-automated processing chain for urban OBIA classification]
* [https://github.com/tgrippa/Opensource_OBIA_processing_chain An open-source semi-automated processing chain for urban OBIA classification]


Python and PyGRASS:
'''Python and PyGRASS:'''
* [https://github.com/zarch/workshop-pygrass Workshop on PyGRASS using IPython notebook]
* [https://github.com/zarch/workshop-pygrass Workshop on PyGRASS using IPython notebook]
* [https://github.com/wenzeslaus/foss4g-2022-developing-custom-grass-tools Developing custom GRASS tools (FOSS4G 2022 workshop)]
* [https://github.com/wenzeslaus/foss4g-2022-developing-custom-grass-tools Developing custom GRASS tools (FOSS4G 2022 workshop)]
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* [https://github.com/lucadelu/docker-stacks/tree/geospatial/geospatial-notebook Jupyter Notebook Geospatial Python Stack]
* [https://github.com/lucadelu/docker-stacks/tree/geospatial/geospatial-notebook Jupyter Notebook Geospatial Python Stack]


R and GRASS GIS:
'''R and GRASS GIS:'''
* [https://gist.github.com/joergsteinkamp/43fb13a82aeab9b5c0dcc4433f97f1a6 Simple Opensource GIS examples with GRASS GIS and R]
* [https://gist.github.com/joergsteinkamp/43fb13a82aeab9b5c0dcc4433f97f1a6 Simple Opensource GIS examples with GRASS GIS and R]


Wildfire Modeling:
'''Wildfire Modeling:'''
* [https://github.com/acoiman/wildfire_modeling Wildfire Modeling in Yosemite National Park]
* [https://github.com/acoiman/wildfire_modeling Wildfire Modeling in Yosemite National Park]


Revision as of 16:17, 7 May 2023

A Jupyter Notebook is a web application that allows you to create and share documents that contain scripts and code, equations, visualizations and explanatory text, combined.

Get started

Read the intro in the official documentation for grass.jupyter package.

List of selected GRASS GIS Jupyter notebooks

(add yours to the list!)

Intro notebooks:

Workbook Collections:

Species Distribution Modeling:

Image processing/OBIA:

Python and PyGRASS:

R and GRASS GIS:

Wildfire Modeling:

Running GRASS GIS in Jupyter Lab with docker

Running GRASS GIS in a Jupyter notebook locally

Both Jupyter and GRASS GIS have so called environments or sessions which need to be combined. Existing online environments with example notebooks are usually prepared to run right away, but locally, one must prepare the necessary software setup.

Software requirements

You need to have a working GRASS GIS installation.

You need to have a working Jupyter installation. If you are using pip, you can install Jupyter using: 

pip install jupyter

GRASS GIS and the Python you used to install Jupyter need to know about each other.

On Linux, this will be usually true and no special steps are needed. GRASS GIS just uses the system Python and you presumably use pip which uses system Python too.

On Windows, install Jupyter using the Python which is available in GRASS session. There is no system Python on Windows, so, e.g., installing Jupyter in conda and standalone GRASS GIS results in two different and disconnected Python installations. See this NCSU GIS714 Jupyter On Windows Tutorial for installing Jupyter using pip which is linked with Python linked to GRASS GIS.

Start Jupyter, then GRASS GIS

jupyter lab

In a notebook, start the session using the grass.jupyter package.

On Windows, due to a lack of system Python shared among all applications, it is easiest to start GRASS GIS (to get a command line with Python) and start Jupyter from there, see the NCSU GIS714 Jupyter On Windows Tutorial. (The session in command line will be replaced by a new session in the notebook.)

Start GRASS GIS, then GRASS GIS

If the above does not work for you or you want your notebooks to not deal with GRASS session at all, start GRASS shell and then start Jupyter from there, for example: 

$ grass ...
GRASS > jupyter lab

This can be done in one command, avoiding need for an additional step in the GRASS shell: 

$ grass ... --exec jupyter lab

For example: 

$ grass ~/data/world_wgs84/coastal --exec jupyter lab

Infrastructure

Tools

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