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Need to fix and finalize all parameters and settings
This means that, for the final set of control-file parameters, the documentation and control files must reflect these exactly.
Parameters that s…
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Add helper fxn to BAMMtools to help users set up files with clade- or species-specific sampling probability.
Also test it
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BAMM has the ability to resume the mcmc search from a given event data file.
The file must contain the event data lines for a given generation, with no header, no generation column, and must be tab de…
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Just pushed a directory problems/\* with 3 datasets to project. I think the problem is that the trees have a root edge (someone just sent these to me and I haven't explored problem in detail).
If it…
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In the course of running my datasets it seems to me there should be slightly more informative error messages on some basic tree issues so that people can fix them. The three things that have come up m…
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There is currently no documentation for the formatting of a species-specific sampling fractions file. Also, bamm error handling for incorrectly formatted sampling files could be better (Carlos, I'm se…
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haven't looked into this but had found that plot.bammdata did not work when I input a BAMM run that had 0 rate shifts (e.g. only the root process for each sample). the R message was:
Error in dtRates…
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See https://github.com/macroevolution/bamm/commit/d4ff0bc4fbceff652d3f8474a3ae88637fe4d098#commitcomment-4986595
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In case users have problems and want to contact us, we should have our e-mails (at least) on the website, probably in a new page called "Contact Us". We could also put this information on the Home pag…