Unable to reconstruct phylogenetic trees using Beast

[nieyuan1027]

Hi
I am trying to reconstruct phylogenetics using BEAST2 on linux. The code and data comes from 'run_wang2021.r'. Now,I am getting this error:

The test code is as follows:
beasts(
patient_fasta,
template = file.path("/Public/Script/shouhou/phyloRNA/phyloRNAanalysis-master/templates", "BDStrictOrdinal.xml"),
outdir = file.path(outdir, patient, "BI")
)
I'm wondering if there are some packages I have not installed.

Thanks for your help.
Best,
Nie Yuan

[J-Moravec]

Hi Nie,
looks like you are missing some BEAST packages, specifically the MM package that contains the ordinal model.

Please, type (if you are on Linux and have BEAST2 installed):

packagemanager -add MM

That should download the MM package and its dependencies.

You can also do this through GUI in Beauti.
https://beast2.blogs.auckland.ac.nz/managing-packages/

[nieyuan1027]

@J-Moravec，Thanks for the hint!
The problem solved after installing the MM package.