[Noza]

Dear Beast users,

I would really appreciate it if could please help me with the following
questions: I am using BEAST to estimate the divergence times. I recently
upgraded to version 1.7.1 but now the problem that I am facing, when I upload
my Nexus file using BEAUti I get error messages. I thought maybe there was
something wrong with my data and I used one of the Nexus files from examples
that came with the program (Primates.nex) but still I get the following error
message that reads as follows "Unable to read file:
java.io.StreamCorruptedException: invalid stream header: 234E4558". May you
please advice what could be the problem?

Secondly: I don't know any fossil record of of the group ants that I am
working with. I only know that the evolutionary rate of ant cytb is 0.165 %
per million years at the first and second codon. I am uncertain as to how to
specify the per/codon position relative rates. Is it correct to include this
value (0.165) as the mean value for prior distribution for tmrca? And put one
as the standard deviation?

Thank you in advance for your help.

Kind regards
Noza

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[Samantha Strickland]

I'm getting this error message when I try to run my xml file using

exponential model.

 

Fatal exception: failed to merge trees after 1000 tries!

java.lang.RuntimeException: failed to merge trees after 1000 tries!

 

I could perfectly run the same data set using constant and BSP model,

but not exponential. I've also tried different BEAST versions (1.5.4,

1.6.1 and 1.7.1) and got always the same message. I've also tried to use

UPGMA and a user-defined (newick format) as initial trees but then I got

zero probability error message (The initial model is invalid because

state has a zero probability). Is there anything else I can try? Why am

I getting this message only with exponential model?

 

Thank you!

Nazle