Runes question

Hi, coming back to this game for a little bit after a loooooong absence.

My question is this: I noticed that there is a new rune system, however I didn't get any compensation for all the runes I have "lost" by deleting the old system. And I had a huge selection of runes, owned almost every single one of them. Actually, I put more emphasis on collecting runes rather than champions. Am I getting punished for this now? Please, tell me there is a way to fix this.