josephryan/sowhat

Issues

• Installation not possible

  #38 opened 6 months ago by bheimbu
  7

• use IQtree for ML searches

  #37 opened 6 years ago by shchurch
  3

• update and clean github documentation

  #33 opened 6 years ago by shchurch
  0

• create docker image release

  #32 opened 6 years ago by shchurch
  1

• more obvious warning when not in sequential phylip

  #34 opened 7 years ago by shchurch
  1

• Add support for threads (multiCPU)

  #7 opened 7 years ago by caseywdunn
  2

• print $DIR/sowh_trace_$name.txt with output similar to phylobayes .trace files

  #11 opened 7 years ago by caseywdunn
  1

• update documentation and usage subroutine to reflect RAxML default

  #19 opened 9 years ago by josephryan
  1

• Add more version information to sowhat.results

  #21 opened 7 years ago by josephryan
  1

• treetwo is better

  #25 opened 7 years ago by josephryan
  1

• instructions for monitoring a job - and cutting a job short

  #24 opened 7 years ago by josephryan
  1

• sowhat should throw error if reps < 10

  #26 opened 7 years ago by josephryan
  1

• Check that constraint tree, dataset have consistent taxa names

  #10 opened 7 years ago by caseywdunn
  1

• escape spaces in pathnames returned from getcwd

  #2 opened 9 years ago by caseywdunn
  1

• Add tests with more intuitive messages for missing prerequisites

  #18 opened 7 years ago by josephryan
  1

• Add support for AUTO model specification in RAxML

  #17 opened 7 years ago by josephryan
  1

• seq-gen has limited model set. sowhat needs to check models before any processes are run.

  #20 opened 7 years ago by josephryan
  1

• Add true support for multistate

  #8 opened 7 years ago by caseywdunn
  1

• Character dataset fails with newest RAxML

  #14 opened 7 years ago by shchurch
  2

• include sowhat version in results.txt

  #29 opened 7 years ago by josephryan
  1

• Allow for comparison of two suboptimal hypotheses

  #6 opened 7 years ago by caseywdunn
  1

• json output

  #23 opened 7 years ago by caseywdunn
  1

• add travis-ci integration

  #27 opened 7 years ago by caseywdunn
  0

• Failing travis ci due to old R

  #31 opened 7 years ago by caseywdunn
  4

• Possibly include stopping criterion

  #22 opened 9 years ago by shchurch
  1

• mislabeled constrained / unconstrained values in report

  #30 opened 8 years ago by shchurch
  0

• add subroutine tests

  #28 opened 9 years ago by josephryan
  1

• Improve Partition Feature Functionality

  #12 opened 9 years ago by shchurch
  1

• raxml returns higher likelihood for constrained tree than unconstrained tree for some simulated matrices

  #13 opened 9 years ago by caseywdunn
  2

• add documentation about using local::lib

  #9 opened 9 years ago by caseywdunn
  0

• Eat MOAR Twizzlers

  #5 opened 9 years ago by caseywdunn
  0

• error in Statistics::R related to a flag sent to R (--gui=none).

  #4 opened 9 years ago by caseywdunn
  0

• Come up with an alternative to IPC::Run for the test suite

  #3 opened 9 years ago by caseywdunn
  0

• Description of sample datasets

  #1 opened 9 years ago by caseywdunn
  0