Once I have my idea and an outline, I start writing. I've used different software for my rough drafts, but I essentially do it the same way no matter what software I use. Often, I don't write my novels chronologically. I just pick something from my outline that I feel like writing and I write. When I run out of ideas for that scene, I pick another one and I write it. Sometimes when I'm writing, I think of another scene or occurrence that I want to include. I continue in this way until all of my listed scenes are written.
Then I let the story sit for a bit and go back to read through my list of scenes. When I did this with Alaskan Hope, I realized I just have one plot line. It's boring; you don't learn anything about any of the supporting characters and there's only one problem the main characters are trying to solve. It's repetitive. No one wants to read 200 pages about a pair of characters trying to overcome one problem.
I moped. For twenty-four hours, I beat myself up about how awful this idea was and how no one would be interested in reading it. I had to do something to make the story entertaining. I found myself back at the pre-writing stage, brainstorming ideas that I could use to add depth and interest to my story (aka "how to make my characters suffer").
After deciding what "problems" my characters would have to solve, I then made lists of the steps in each of those problems. I've interspersed those "plot points" into my original outline and will be writing those scenes. So while I said the rough draft was done, it's currently only about half done.
Starting Monday, I'm participating in September's Book-in-a-week challenge. My goal is 50 pages of rough draft. That will be about a third of the remaining scenes I need to write for Alaskan Hope.