Using Flash to develop to games and mobile apps

This semester I registered for an online course called Motion Graphics with my college.
The course was supposed to be an introduction to Adobe Flash and Adobe After Effects.
I signed up for the class specifically because I wanted to learn Adobe Flash to create games and mobile apps.
Unfortunately, it turns out that as of this semester my college is phasing out Adobe Flash from all of its courses,
and the course I signed up for is now only teaching After Effects and won't be teaching Flash at all.
I asked the course instructor about this, and she said it was because "flash can no longer work with creating many "apps" and other applications do not except flash." [sic]
Is this even a factual statement?
My college still offers several Java-related courses, but I really would have preferred to learn Flash and ActionScript instead.
I suppose my primary question here is:
Would it be better to learn Flash or to learn Java to create apps and games that can run on all of the most common platforms (e.g. Android, iOS, Windows)?

To be on topic, the course is about "motion graphics", and After Effects is an excellent, highly used tool in that trade. When creating video, Flash is used much less because it's very inferior. Again, in "motion graphics". With a robust expression scripting language in After Effects, Flash lost its footing in this department. Flash was probably only previously part of that course to deploy your video to the web, but it's not necessary or desirable due to (as kglad mentioned) Adobe discontinued Flash Player for mobile. Your target just changed to outputting MP4.
What you want to do, make apps, is a completely different world. Adobe AIR SDK is a great, frequently updated runtime that I've made dozens of apps with. Java is used with the Android SDK to make native Android apps. Objective-C with Xcode and the iOS SDK is used to make native iOS apps. Visual Studio and Azure (or HTML5/JS/CSS) are used to make Windows apps. The big difference here is the AIR SDK can get a good return on investment from re-using most of the code base of your app (depending on its type) by its scripting language porting to Android, iOS (and I think still Blackberry tabs), not Windows however.
If you want to make apps, you took the wrong class.
There are numerous frameworks out there similar to AIR that can deploy to multiple targets that are worth consideration on their own. From specific frameworks (like game-oriented) such as Unity to extremely abstract (used for anything) like Phonegap and standard HTML5 web development.
I haven't used Flash to make anything like a website in almost a decade. It's strictly been device apps, desktop apps, kiosks and product demonstrations. It's an extremely capable IDE for just about everything, except modern motion graphics.

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