I'd probably use all.equal and which to get the information you want. It's not recommended to use all.equal in an if...else block for some reason, so we wrap it in isTRUE(). See ?all.equal for more:
foo <- function(A,B){
if (!isTRUE(all.equal(A,B))){
mismatches <- paste(which(A != B), collapse = ",")
stop("error the A and B does not match at the following columns: ", mismatches )
} else {
message("Yahtzee!")
}
}
And in use:
> foo(A,A)
Yahtzee!
> foo(A,B)
Yahtzee!
> foo(A,C)
Error in foo(A, C) :
error the A and B does not match at the following columns: 2,4