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Procedural versus declarative memory: There's a big difference between remembering a fact and mastering a process. For instance, while you might remember a Unix command when cued by an Anki question, that doesn't mean you'll recognize an opportunity to use the command in the context of the command line, and be comfortable typing it out. And it's still another thing to find novel, creative ways of combining the commands you know, in order to solve challenging problems. Put another way: to really internalize a process, it's not enough just to review Anki cards. You need to carry out the process, in context. And you need to solve real problems with it. With that said, I've found the transfer process relatively easy. In the case of the command line, I use it often enough that I have plenty of opportunities to make real use of my Ankified knowledge of the command line. Over time, that declarative knowledge is becoming procedural knowledge I routinely use in context. That said, it'd be good to better understand when the transfer works and when it doesn't. Even better would be a memory system that integrates into my actual working environment. For instance, it could query me on Unix commands, while placing me at an actual command line. Or perhaps it would ask me to solve higher-level problems, while at the command line. I've tried one experiment in this vein: miming the action of typing commands while I review my Anki cards. But my subjective impression was that it doesn't work so well, and it was also quite annoying to do. So I stopped.
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