WARNING: Transition matrix does not exist for the given parameters. Recomputing

[Enterprise-J]

Hi,

I received this warning when running tmk.compute_transition_matrix(self_transitions = "all", threshold="auto", conn_weight=0.5) following the RealTimeKernel tutorial, only changed conn_weight=0.2 to conn_weight=0.5. What does that actually mean and what new parameters it will recompute with?

Thanks!

[WeilerP]

@Enterprise-J, which software version of CellRank are you using? I ran the tutorial using the latest version of CellRank just now, but the warning was not issued. To not recompute transition matrices unnecessarily, kernels keep track of the used parameters and only recomputes the transition matrix if the specified parameters have changed. What does tmk._params look like for you?

[WeilerP]

@Enterprise-J, I investigated a bit further, and I think you are (1) using an old version of CellRank, and (2) computed the transition matrix first with conn_weight=0.2 before recomputing it with conn_weight=0.5. So on the second run, the RealTimeKernel recomputes the transition matrix since parameters have changed. There appears to be a bug in the latest version, though, since the transition matrix is not recomputed. I will open a new issue for it.