You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
The output file Base_report.cafe or Gamma_report.cafe has been added. This file has a
format roughly the same as the CAFE 4 output, so tools and scripts that work with this
format should run properly.
The tutorial now includes a cafe5_draw_tree.py script, demonstrating how to use BioPython
to create a tree.
Changed
Ordering of nodes has changed. The order should now be the same, relative to the source Newick
tree, as in the R package Ape.
The model_change.tab file no longer includes a "+" sign before positive change counts.
The simulator handles different max family and max root sizes correctly.
The DocTest unit tester has been updated to v2.4.9.
The application will no longer attempt to compute P-Values or a reconstruction, if the user
specifies a lambda and the calculated -lnL is infinite.
The configure script now checks for the existence of mkl.h before attempting to use it.
Building the application should no longer fail if OpenMP is missing. (It will probably run
much slower, however)