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It has never been true.
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Yes, this was quite true for since qsys first came out. I kept trying each version as it was released. Finally on 12.1 it magically worked! No one ever admitted that it was broken, but no one could ever show me a board that worked with the epcs. Then one day it just worked with no change to my files, other than recompiling with version 12.1. Typical not a problem...not a problem....oh, yes we fixed that "issue"..... ;)
So yes, it is safe to use qsys now, as long as you can live with it's other issues. I would skip directly to SP1 though. 12.1 by itself was very buggy and crashed when ever you had the signal tap up. It was identified and fixed in sp1 though. I haven't had a crash yet.
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