I wrote atom-imagej-mode. I was heavily motivated by the fact that script editor doesn’t have flexible keybindings (I’m an emacs user), and I do believe that this is a job that atom is quite good at. Folks have done a great job with the script editor, but I personally think it isn’t the right choice for the image analysis community to take on the job of maintaining a code editing tool when so many already exist and can now fairly easily be adapted and integrated into other tools.
Yes, the point is that you can write ImageJ scripts in Atom. If you follow the instructions on the link you reference (https://atom.io/packages/atom-imagej-mode) then it should work for you.
The way I (and folks in my lab) have been using it is:
- follow the installation instructions
- launch Fiji/ImageJ from atom using the “Launch ImageJ” command
- Write your script, and when you want to evaluate it with “Run ImageJ script”
You get the same effect as using script editor with Run.
Script editor has had some extra features added since then, and some of them can certainly be ported to atom-imagej-mode.