Whether or not: (The instruction is to call him if you are going and call him if you're not. We don't know the reason for the call.)
Even if: (The instruction ensure the listener knows that they must call him if they are not going but also if they're not going.)
For the second, it's already arranged that the person call him if he's not going. This is not a presumption with the first. That is the difference (given that you asked), but it's not a difference worth worrying about."Call him whether you are going or not" (The speaker doesn't know which would happen but the listener still has to call "Him" in either situations). Yes.
"Call him even if you are going" (The speaker asks listener who is not going anywhere yet but will definitely be to call "Him" no matter what the situation is).
For the second, it's already arranged that the person call him if he's not going. This is not a presumption with the first. That is the difference (given that you asked), but it's not a difference worth worrying about.
Does it change the meaning with "Even though".
"Call him even though you are going".
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