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Justin C. Bagley edited this page Jul 30, 2019 · 16 revisions

Bug Bash competition + giveaway!!!

Tuesday, July 30th, 2019 kicks off the first PIrANHA Bug Bash (July 30 – August 30, 2019), a competition to see who can find and report the most bugs in the current alpha release of PIrANHA. Winner will receive a Charles Darwin poster giveaway prize!

Find more info here: https://github.com/justincbagley/piranha/issues/3

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Developer information

TODO

  • Improve option and usage sections of BEASTRunner.sh script. DONE! ✅
  • Add MrBayes scripts DONE! ✅
  • Add options to MrBayesPostProc script, e.g. for burnin frac and stepping-stone MLE analysis. DONE! ✅
  • Change new phylipSubsampler script so that it accounts for missing data (currently does not).
  • Give supercomputer scripts options (header w/flags) that will work for both a) TORQUE/PBS and b) SLURM Workload Manager cluster management and job scheduling systems (need meticulous work on this in Super-pyRAD2PartitionFinder.sh, BEASTRunner.sh, BEASTPostProc.sh, and RAxMLRunner.sh)
  • Add mrbayes and beast model options to pyrad2PartitionFinder.sh and supercomputer version of the same script.
  • Make pyrad and ipyrad batch run scripts available
  • Consider separate scripts to work with ipyrad
  • Add capacity of adding or not adding path sampling/stepping-stone sampling to BEAST runs (use BEASTRunner.sh as springboard to develop tools in BEAST_PathSampling dir)

July 26, 2019 Justin C. Bagley, St. Louis, MO, USA

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