At times, when fitting a stan model involves a low E-BFMI problem, I am provided with the usual warning :

```
> fit.binom <- stan('simu_CAR.stan', data = dat_binom_stan,
+ iter = niter, chains = nchains, verbose = FALSE)
Warning messages:
1: There were 1 chains where the estimated Bayesian Fraction of Missing Information was low.
See http://mc-stan.org/misc/warnings.html#bfmi-low
2: Examine the pairs() plot to diagnose sampling problems
```

However if I call `check_energy()`

, I see no trace of the initial warning :

```
> check_energy(fit.binom)
E-BFMI indicated no pathological behavior.
```

It seems that the `stan()`

main function will raise a warning if E-BFMI is lower than 0.3. (as inidcated in 6.1 - A Conceptual Intorduction to Hamiltonian Monte Carlo, p. 44) whereas the `check_energy()`

function will considered 0.2 as a threshold for pathological behaviors as one can see in the help file ?

Is that indeed the case and is there a practical reason to that ? (Not an earth-shattering problem, but still tickling my curiousity)

PS : R version 3.5.0 and rstan version 2.17.3