Hi,

I think I may have ran into a bug. I have a rather small dataset of sequences and binary data (some 1700 unique patterns and around 300 taxa with many similar sequences). I can run IQ-TREE with no issues with the sequence data or binary data alone, but when I try to run the mixed analysis it is inevitably killed. I haven't gotten any error message, but I suspect it is to do with RAM, as I see that several people have had a similar issue.

I am using IQ-TREE 1.6.12 on a MacBook Air.

I am using the following command to run the analysis: iqtree -p partititonfile.nex -B 1000 -alrt 1000 -nt 4

My partition-file looks like this (partition specifications replaced with "..." to make it shorter for here):

NEXUS

begin sets; charset Partition_1 = dna.nex: 1 2 ...; charset Partition_2_Partition_3_Partition_5 = dna.nex: 1556 ...; charset Partition_4 = dna.nex: 10 ...; charset Partition_6 = dna.nex: 30 ...; charset gaps = gaps.nex: 1-171; charpartition mymodels = F81: Partition_1{0.0116996}, K3Pu{3.83804,0.554527}+F{0.320441,0.212304,0.18546,0.281795}: Partition_2_Partition_3_Partition_5{1.91812}, TIM{3.80616,0.510092,2.5422}+F{0.335995,0.219066,0.141179,0.30376}+ASC: Partition_4{1.18866}, TVMe{1.15964,3.90262,0.835974,0.0888411}+FQ+ASC+R3{0.81266,0.57693,0.175273,1.9823,0.0120672,15.2238}: Partition_6{4.50569}, GTR2+FO+ASC+R3: gaps; end;

I would greatly appreciate any help with this issue!

All the best, Venni Keskiniva

Cibiv / IQ-TREE

BUG: partitioned run with mixed sequence and binary data crashes #248

NEXUS