MBON+AIR BioData Mobilization Workshop

This project site is built & hosted by GitHub to provide basic information about the 2025 MBON+AIR Centre's Marine BioData Mobilization Workshop.

See also the (older) repo where dataset issues have been submitted here.

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The Carpentries Workshop Template

This repository is based on The Carpentries' (Software Carpentry, Data Carpentry, and Library Carpentry's) template for creating websites for workshops.

Customizing Your Website (Required Steps)

There are two ways of customizing your website. You can either:

• edit the files directly in GitHub using your web browser
• clone the repository on your computer and update the files locally

Updating the files on GitHub in your web browser

1. Go into your newly-created repository, which will be at https://github.com/your_username/YYYY-MM-DD-site. For example, if your username is gvwilson, the repository's URL will be https://github.com/gvwilson/2016-12-01-oomza.

2. Ensure you are on the gh-pages branch by clicking on the branch under the drop down in the menu bar (see the note below):

   

3. Edit index.md or other files. You can do this in the browser by clicking on it in the file view on GitHub and then selecting the pencil icon in the menu bar:

   

   Editing hints are embedded in index.md, and full instructions are in the customization instructions.

4. Edit _config.yml to customize certain site-wide variables, such as: carpentry (to tell your participants the lesson program for your workshop), curriculum and flavor for the curriculum taught in your workshop, and title (overall title for all pages).

   Editing hints are embedded in _config.yml, and full instructions are in the customization instructions.

5. Edit the schedule.html file to edit the schedule for your upcoming workshop. This file is located in the _includes directory, make sure to choose the one from the appropriate dc (Data Carpentry workshop), lc (Library Carpentry), or swc (Software Carpentry) subdirectory.

Working locally

Note: you don't have to do this, if you have already updated your site using the web interface.

If you are already familiar with Git, you can clone the repository to your desktop, edit index.md, _config.yml, and schedule.html following the instruction above there, and push your changes back to the repository.

git clone https://github.com/your_username/YYYY-MM-DD-site

In order to view your changes once you are done editing, if you have bundler installed (see the installation instructions below), you can preview your site locally with:

make serve

and go to http://0.0.0.0:4000 to preview your site.

Before pushing your changes to your repository, we recommend that you also check for any potential issues with your site by running:

make workshop-check

Once you are satisfied with the edits to your site, commit and push the changes to your repository. A few minutes later, you can go to the GitHub Pages URL for your workshop site and preview it. In the example above, this is https://gvwilson.github.io/2016-12-01-oomza. The finished page should look something like this.

Additional Notes

Note: please do all of your work in your repository's gh-pages branch, since GitHub automatically publishes that as a website.

Note: this template includes some files and directories that most workshops do not need, but which provide a standard place to put extra content if desired. See the design notes for more information about these.

Further instructions are available in the customization instructions. This FAQ includes a few extra tips (additions are always welcome) and these notes on the background and design of this template may help as well.

Creating Extra Pages

In rare cases, you may want to add extra pages to your workshop website. You can do this by putting either Markdown or HTML pages in the website's root directory and styling them according to the instructions give in the lesson template.

Installing Software

If you want to set up Jekyll so that you can preview changes on your own machine before pushing them to GitHub, you must install the software described in the lesson example setup instructions.

Setting Up a Separate Repository for Learners

If you are teaching Git, you should create a separate repository for learners to use in that lesson. You should not have them use the workshop website repository because:

• your workshop website repository contains many files that most learners don't need to see during the lesson, and

• you probably don't want to accidentally merge a damaging pull request from a novice Git user into your workshop's website while you are using it to teach.

You can call this repository whatever you like, and add whatever content you need to it.

Getting and Giving Help

We are committed to offering a pleasant setup experience for our learners and organizers. If you find bugs in our instructions, or would like to suggest improvements, please file an issue or mail us.