Is it possible to build from the command line? I am trying to use ./gradlew build however I get a bunch of errors saying:
error: package software.bernie.geckolib.core.manager does not exist
All of which are in the BacteriaEntity/BacteriaRenderer.

May I ask what I should do to build the mod?

Thanks and sorry if I am missing something obvious with how I am trying to do this.

You totally can build the current version by yourself, what we did ourselves temporarily is "deactivating" the file,
You change the name of all the Bacteria[...].java and you add .disabled
You can optionally remove the GeckoLib package as it's not used
You will have to remove some code about that Bacteria thing and you should be good to go

If there are any other issues, let us know