Closed bqminh closed 5 years ago
I overlooked that a species can have two different genetic codes. But of course the mitochondria may have a different code than the nuclear genome. This ERROR happened when IQ-Tree tries to concatenate the CODON with CODON5 partitions, which have different number of non-stop codons. But it shouldn’t do so. I created a github issue to fix for the next release 1.6.9.
Fixed in v1.6.9
From Morgan Jackson
I'm trying to run a partitioned analysis of DNA and CODON data. My partition file is as such:
IQTree seems to recognize the partitions and data correctly, but then I get the following error message and it quits:
The same error occurs using both the CIPRES build (v1.6.6) and the cibiv build, and if I input a single .phy datafile partitioned as above but without the alignment file modifiers.