Commits

History for

Commits on Mar 14, 2023

Remove unnecessary debug stuff, add gtroptim_flags.txt, add comments, other small adjustments
jdaneau
committed

Commits on Feb 23, 2023

Slight adjustment to restartParameters, add gtr20-weirdness folder (for debug investigation)
jdaneau
committed

Commits on Feb 7, 2023

Print rate matrix to log file, suppress GTR20 warning, ensure restartParameters doesn't go below the lower bound
jdaneau
committed

Commits on Jan 31, 2023

Fix issues/bugs with GTR20 rate optimization
jdaneau
committed

Commits on Jul 30, 2020

Adding curly braces to suppress warning messages about indentation (many files affected,
JamesBarbetti
committed

Commits on Jul 28, 2020

In optimisation.cpp, I added some code to figure out an auxiliary
JamesBarbetti
committed

Commits on Mar 16, 2018

Change ABNORMAL_TERMINATION_IN_LNSRCH to warning
bqminh
committed

Commits on Dec 6, 2017

More robust optimization combing BFGS and L-BFGS-B as backup when estimates are at boundary (reported by Michael Woodhams)
bqminh
committed

Commits on Nov 15, 2017

todo, quieter during model testing
dschrempf
committed

Commits on Jun 26, 2017

First attempt at having Lie-Markov models do automatic restarts when they optimize to parameters on the boundary of parameter space. Mostly (but not 100%) effective, rather slow.
MichaelWoodhams
committed

Commits on May 6, 2017

create utils folder
bqminh
committed

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