checkpoint - BEAST 1.10.5

[Luiz JQ]

Dear colleagues,

I would like to ask you for some help concerning an issue that is probably very trivial (beast version 1.10.5).

As the cluster I use to run beast analyses is time-limited, I want to generate checkpoints to resume the analyses afterward:

beast1 -save_every 25000 -save_state checkpoint347 T437.xml

However, when I try to resume the analysis using the checkpoint file,

beast1 -load_state checkpoint347 T437.xml

I cannot to because beast complains that the log file already exists. The only solution I found is to overwrite or to run the analysis with different names and then to combine the different pieces of the analysis. 

So my question is if there is a way to resume the analysis by appending automatically the new log and tree data to the ones that already exist.

Thanks for the help!

Cheers,

Luiz

[Andrew Rambaut]

The checkpointing scheme doesn't append to existing log files to minimise the risk of data loss. The suggestion is to use the '-prefix' option to add a prefix to all the log filenames to make it clear it is the restart of a checkpoint. Then collect and append the logfiles using log combiner after the run is finished.

Andrew

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[Luiz JQ]

Thanks, Andrew!