ERROR: Tree file does not start with an opening-bracket

[Mark Miller]

Hi,

I am trying to run tree optimization on a partitioned data set. But the job fails with the message ERROR: Tree file does not start with an opening-bracket '(' (line 1 column 1)

I wonder if the -bnni option is incompatible with using a partition file?

Here are the command lines, the first fails, the second works

iqtree_1.6.9_comet  -wslr -s infile.txt -bb 1000 -sp partition.txt      -wsl -bnni        -st DNA -wsr         -pre nop_cyc -nt AUTO

if i remove the partition file, the job runs normally. 

iqtree_1.6.9_comet  -wslr -s infile.txt -bb 1000      -wsl -bnni        -st DNA -wsr         -pre nop_cyc_noparts -nt AUTO

Thanks for any advice

Mark

[Minh Bui]

Hi Mark,

Thanks for reporting this, I confirm that this crash is a bug in the combination of two options -sp and -bnni. I’ll have a closer look once back in ~2 weeks. Note that the edge-linked partition model (-spp) works fine with -bnni, which I actually recommend you to do, see a preprint on the comparison between the two partition models:

https://doi.org/10.1101/467449

Cheers,

Minh

--
You received this message because you are subscribed to the Google Groups "IQ-TREE" group.
To unsubscribe from this group and stop receiving emails from it, send an email to iqtree+un...@googlegroups.com.
To post to this group, send email to iqt...@googlegroups.com.
Visit this group at https://groups.google.com/group/iqtree.
For more options, visit https://groups.google.com/d/optout.

[Minh Bui]

Dear Mark,

This issue is now fixed in version 1.6.10 just released.

Thanks,

Minh