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>students don't know how to use man pages >fix the programs not the students

ok pal.

"I strive to remove incidental complexity for my students, so that they can focus on the intrinsic complexity of their research."

A worthy goal. I think, though, that calling out the fact that it's command line serves to distract more than illuminate - at least the reader and possibly the author. There are doubtless unnecessary steps between idea and code. However, shoving those in a graphical wizard doesn't make it any better.