parallelisation of SMC, error print and a few other minor fixes #18
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ntncmch
commented
Apr 27, 2016
ntncmch
commented
- fix a bug preventing parallelisation of the SMC within PMMH.
- fix a bug in printing errors at compilation
- several minor bugs fixed
- sigmoid special function added
- poisson likelihood added
Sigmoid as a special function
SSM now understand the poisson distribution
the README now links to the dev help page, useful for external contributors and for us to remember how to do stuff ;)
New observation process
merge bug fix by Joseph
Dispersion matrix must be readen in the same order as the drift list. Accordingly, the drift variables must not be sorted.
fix bug when parsing dispersion matrix
exp and log in reaction rates
print error messages
…time-step the reset for observation t was done at the beginning of the prediction step leading to time t, which was doomed to occur on the time t’ of the time-series with smallest time step (t-1 < t’ < t). Now, reset for observation t is done immediately after the prediction at time t-1, thus ensuring that prediction at time t doesn’t depend on intermediate time-step of other time series.
Fix a bug in the selection of ancestor for the sampled particle. Since resampling happen after observation is made, then ancestor must be chosen (when looking backward in time) just after the observation time and not before.
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