IQ-TREE version 1.6.7

Aug 23, 2018

Important changes:

• Temporarily disable AU test due to unresolved numerical issue when bp-rell are all zeros.

Bugfixes:

• Checkpointing issue in ModelFinder for mixture models causing incorrect likelihoods with e.g. -madd C10 (reported by Juergen Strassert).
• Checkpointing Lie Markov models.
• (v1.6.6) Incomplete parsing of site positions of partition file (reported by Alexey Kozlov).
• Parsing polymorphic states from NEXUS file (reported by Steven Heritage).
• Use of only 1 thread when #partitions < #cores (reported by Alexey Kozlov).
• Double RAM usage for -bnni option (reported by Juergen Strassert).
• Over-bound for optimizeTreeLengthScaling causing too long branch lengths in extreme cases (reported by vikaszsi77).
• Exclude ORDERED model by default for morphological data due to frequent numerical underflow.
• (v1.6) -m ..MERGE.. wrong concatenateAlignments with missing data (reported by David Dunchene).
• Error message instead of crash when using -bsam with non-partition model (reported by Sarah Jensen).

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