iqtree
Checkpointing for -S
#541
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Hi,
I am trying to estimate some models using QMaker and some larger alignments are taking a while to complete. As far as I am aware, when using -S to estimate from a directory of alignments the checkpoint file is only written to when the tree search is complete. This is problematic for the longer alignments as it is holding up everything. I am using DMTCP to checkpoint so it saves the progress for these longer MSAs but doing so means I have can't change the command line arguments to parallelise over sites instead of over the individual MSAs (so will continue to take longer). Is it feasible to change the checkpointing behaviour for -S so it saves progress from tree searches which are not yet complete?
Best,
Kenta
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