If you want to contribute to the web page, whether it is to fix something somewhere, or to write a blog post, there are two things you need to do.
The first is to be able to run the web page locally so you can see how things are rendered and how they will look online when you finally commit your changes to this repository. The remainder of this document will help you run the web site locally.
The second is to take a look at these tips which will help you to be able to use all the little toys we have for content developers:
https://merenlab.org/web-tips/
Installing ruby on Mac is always a pain. But you can start with this (newer versions of ruby may cause you trouble with some of the gems):
brew install ruby@2.7
This step may ask you to add things to your ~/.bash_profile to update your $PATH, which you should do, and then either open a new terminal, or run source ~/.bash_profile, so the output for which ruby looks something like this:
/usr/local/opt/ruby@2.7/bin/ruby
Once you're done with these initial steps, you can get a copy of the web site from GitHub:
mkdir -p ~/github
cd ~/github/
git clone https://github.com/merenlab/web.git
To make sure you have the necesary gems, run:
cd web
bundle install
And run the following command in this directory:
bundle exec jekyll serve --incremental
You should see a similar output in your terminal:
Configuration file: /Users/evan/Software/web/_config.yml
Configuration file: /Users/evan/Software/web/_config.yml
Source: /Users/evan/Software/web
Destination: /Users/evan/Software/web/_site
Incremental build: enabled
Generating...
done in 6.585 seconds.
Auto-regeneration: enabled for '/Users/evan/Software/web'
Configuration file: /Users/evan/Software/web/_config.yml
Server address: http://127.0.0.1:4000/
Server running... press ctrl-c to stop.
This basically runs a local server for you to see the changes you've made locally. You can access to this server by visiting the URL http://127.0.0.1:4000/ with your browser.
With the --incremental flag every change you will make in any of the files will be reflected to your local website automatically.
If you are not seeing some of the changes you expect to see, press ctrl-c to stop the server on your termianl, clean out the static web directory by running the command rm -rf _site/, and re-run the server using the command above.
It is simple.
You can make the following changes in the web site:
find ./_posts/ -type f | xargs sed -i '' -e "s/An anvi'o/A microbial dark matter \(MDM\)/g"
find ./_posts/ -type f | xargs sed -i '' -e "s/an anvi'o/a microbial dark matter \(MDM\)/g"
find ./_posts/ -type f | xargs sed -i '' -e "s/Anvi'o/Microbial dark matter \(MDM\)/g"
find ./_posts/ -type f | xargs sed -i '' -e "s/anvi'o/microbial dark matter \(MDM\)/g"
find ./_posts/ -type f | xargs sed -i '' -e "s/anvi'o/microbial dark matter \(MDM\)/g"
find ./_posts/ -type f | xargs sed -i '' -e "s/anvi'server/MDM'server/g"
And commit them to the main repository after making sure they look alright in your local copy:
git add .
git commit -m "name upgrade"
git push origin master
Congratulations!