v3.1.7

• Fixes issue with 3D admixture models in which the f parameter was not correctly bounded between 0 and 1. The upper bounds and starting parameters were added to the three relevant models (admix_origin_no_mig, admix_origin_sym_mig_adj, and admix_origin_uni_mig_adj).

Version 3.1.6

Includes a new module, dadi-test-projections.py, which allows users to quickly test combinations of projection sizes to determine numbers of segregating sites.

Version 3.1.5

• Added 15 new 3D models that were developed for Firneno et al. 2020. Included is a new class of models involving an admixed (or "hybrid") origin for the third population. All new models are fully integrated in the Three_Population_Pipeline.

• Compatibility check with dadi v2.1.0 completed.

• Fixed minor import issue causing Make_Plots.py to crash with particular model specification formats.

• Updated citations.

Version 3.1.4

Minor fixes to optimizer selection option.

Version 3.1.3

Added optional optimizer argument to Optimize_Routine functions. Includes use of the following functions from the Inferenence.py module in dadi: optimize_log (BFGS method), optimize_log_lbfgsb (L-BFGS-B method), optimize_log_fmin (Nelder-Mead method), and optimize_log_powell (Powell's method).

Version 3.1.2

Fixed issue related to object returned by parameter optimization.

Version 3.1.1

Revised and expanded the 2D island model set, for which some models contained unused or unassigned parameters. Minor updates to Optimize_Functions.py, mainly relating to printing information to screen during replicates.

Version 3.1

All scripts have been upgraded to be Python 3 compatible. They were specifically tested for Python 3.7.

Version 3.0

The initial and second releases are archived within the 2D and 3D pipelines. This has been the current release for some time now but I forgot to tag it!