Atlantis Ecosystem Model version tracking

Comments on compiling and running Atlantis code versions

The Atlantis modeling framework is a simulation modeling approach developed by Dr. Beth Fulton at the Commonwealth Scientific and Industrial Research Organisation (CSIRO) . Atlantis integrates physical, chemical, ecological, and anthropogenic processes in a three-dimensional, spatially explicit domain. This framework has been applied to evaluate management scenarios and investigate the effects of climate change in over 30 ecosystems worldwide. In Atlantis, ecosystem dynamics are represented by spatially explicit submodels that simulate oceanographic processes, biogeochemical factors driving primary production, and food web relations among flora and fauna. The model represents species of ecological and conservation concern and key exploited species at the level of detail necessary to evaluate the direct effects of fishing, and it represents other anthropogenic and climate impacts on the ecosystem as a whole.

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To contribute to this repository

  1. Create a local folder and initiate it as a Github repository. To install git https://git-scm.com/book/en/v2/Getting-Started-Installing-Git
mkdir mynewbranch
cd mynewbranch
git init
git checkout -b mynewbranch
git remote add mynewbranch https://github.com/Atlantis-Ecosystem-Model/atlantismodelversionlog.git
  1. Open the file _quarto.yml and add your comments under the corresponding *.qmd file for the version you are running. You can also create a new page for a new version by making a copy of the file content/v_template.qmd and add its name under href in the _quarto.yml file.

style: "docked"
    search: true
    collapse-level: 1
    contents:
      - href: index.qmd
        text: Home
      - href: content/v6690.qmd
        text: v6690
  1. Push your branch to the repository
git add -A
git commit -m "-Added description of version 6690"
git push https://<user>:<PAT>/Atlantis-Ecosystem-Model/atlantismodelversionlog.git mynewbranch

How to generate a PAT in Github

  1. Create a pull request
gh pr create --base main

License

Copyright is waived worldwide through the CC0 1.0 Universal public domain dedication. The Atlantis Ecosystem Model code base is owned by the Commonwealth Scientific and Industrial Research Organisation (CSIRO).

Maintainer

Hem Nalini Morzaria-Luna