FixedTreeAnalysis with a fixed tree and fasta sequences

[Mattia Ragazzini]

Dear developers,

I am trying to run a beast v.2.7.6 analysis with the FixedTree template, providing a fixed tree completely solved (no polytomies) and a fasta file including sequences from all tips represented in the tree. I also provided a MRCA prior. 
I need beast to provide me with an ultrametric tree based on the provided topology, the sequences set, and the prior.

Despite trying different options, the analysis can't start, and the same error appears to me:

"
  Error 110 parsing the xml input file

validate and intialize error: initAndValidate() failed! Cannot invoke "beast.base.evolution.tree.Node.isLeaf()" because "<parameter1>" is null

Error detected about here:
  <beast>
      <run id='mcmc' spec='MCMC'>
          <distribution id='posterior' spec='CompoundDistribution'>
              <distribution id='likelihood' spec='CompoundDistribution'>
                  <distribution id='treeLikelihood.trimmedDEFINITIVEspnames' spec='ThreadedTreeLikelihood'>

"

I can't really understand what it means with parameter1 as I can't find it in the xml file.

I can provide the xml file in case it can be useful

Thanks a lot for the kind help

Best regards

Mattia

[higg...@gmail.com]

Hi Mattia,

Can you make the XML available so I can have a look at what is causing this?

Cheers,

Remco