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naturalis / supersmart

Self-Updating Platform for the Estimation of Rates of Speciation, Migration And Relationships of Taxa
MIT License
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"--append" option for smrt bbinfer with ExaBayes inference #97

Closed hettling closed 8 years ago

hettling commented 8 years ago

smrt bbinfer --i exabayes produces ExaBayes checkpoint and other files containing information about the current state of the inference and the current set of sampled trees. It would be good to have an option similar as in smrt cladeinfer --append to restart Exabayes runs from these checkpoints.

On cluster computers, we often had smrt bbinfer aborting due to time limits in runs where the chain almost converged. An append option to smrt bbinfer would prevent from having to restart these runs and help to save some cluster time.

hettling commented 8 years ago

An append option would of course also be very useful for the bootstrapping with the maximum-likelihood programs.

hettling commented 8 years ago

The option --append is added (for exabayes). @dimbots: It would be great if you could test this!