Hello! It is my understanding the preferred syntax to provide observations to Turing models going forward is to make use of the condition operator
model() | (;y) instead of explicitly passing the observations
model(y). However, I do not see how this works when building a model without an explicit likelihood in the code. Consider the model below which uses a Kalman filter over the observations and the
Turing.@addlogprob! macro instead of something like
y ~ Distribution(...).
@model function kalman(ys, H, F, Q, P, R)
_, N = size(ys)
latent_dim = size(H, 2)
x₀ ~ MvNormal(zeros(latent_dim), I)
x = x₀
map(1:N) do t
x, P, y, S = kalman_predict(x, P, H, F, Q, R)
r = ys[:,t] - y # without ys as arg this quantity cannot be computed
x, P, y, S = kalman_update(x, P, r, S, H, R)
Turing.@addlogprob! - 0.5 * sum(logdet(S) + r'inv(S)*r)
Without explicitly passing
ys there is no way to write down the log probability, so I am curious if there is a way to use the conditioning syntax with this kind of model?
Yeaah that’s unfortauntely because we don’t have a great solution to that at the moment.
As a short-term solution, see the code-snippets after
EDIT 2 in Supporting mutating ADs in models that fill arrays of parameters · Issue #412 · TuringLang/DynamicPPL.jl · GitHub
@value macros there, you should be able to achieve what you want.
These might make their way into the codebase in the not too distant future.
Thank you for explaining the situation. I’ll probably wait to make changes until an API becomes public.
Could you explain why it is Turing is moving to the newer syntax? It seems to introduce some new complexity so I assume it is for a good reason.
A similar issue arises when one wants to compute pointwise log likelihoods. Since there are no observables passed to the model
Turing.pointwise_loglikelihoods cannot be used. I stumbled upon this when attempting to use Arviz for computing
I want to clarify that I am not posting here as a cry for fixes, but I think it is helpful to articulate these use cases somewhere persistent since it lets them be addressed once and for all.