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BEAUti: prior generator is not picking up the correct value from prior panel #311

Closed GoogleCodeExporter closed 9 years ago

GoogleCodeExporter commented 9 years ago 
Hi Walter 

I am writing to you in order to report a bug in Beauti program which I
noticed while I was preparing my data files. 

I partitioned the codon regions data into codon positions, either
partitioning to (1+2)+3 or partitioning to 1+2+3.
In priors, when  I lowered the the shape parameter (alpha) to upper 100
(instead of 1000 in default) I realized that although it accepts the change
 but in the XML file generated with Beauti the upper value is still 1000.
if I leave the codon partitioning “off “, there is no problem and the
changes are the same in xml file.
I manually modified the xml file and contacted Alexie Drummond for his
opinion. He thinks that it sounds like a bug and  asked me to report that
to you.

Cheers,
Elmira 

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After test, it seems generator is getting wrong values from GUI if choosing
codon partitioning.

Original issue reported on code.google.com by dong.w.xie@gmail.com on 31 May 2010 at 11:12

GoogleCodeExporter commented 9 years ago 
Parameter parameter = model.getParameter(model.getPrefixCodon(num) + id);

Original comment by dong.w.xie@gmail.com on 16 Aug 2010 at 5:33