Export to GitHub

beast-mcmc - issue #759

4 taxa were in the xml file but error messages of "Tree with fewer than 3 taxa" by BEAST


Posted on Feb 20, 2015 by Grumpy Cat

What steps will reproduce the problem? 1. 4 fasta file, each having 190KB nucldotide 2. Run BEATUi 1.8.1 3. Run BEAST 1.8.1

What is the expected output? What do you see instead?

Running was terminated with error messages

What version of the product are you using? On what operating system? Windows BEAST 1.8.1

Please provide any additional information below.

dr.xml.XMLParseException: Error parsing '<wideExchange>' element with id, 'null': Tree with fewer than 3 taxa at dr.xml.AbstractXMLObjectParser.parseXMLObject(Unknown Source) at dr.xml.XMLParser.convert(Unknown Source) at dr.xml.XMLParser.convert(Unknown Source) at dr.xml.XMLParser.convert(Unknown Source) at dr.xml.XMLParser.parse(Unknown Source) at dr.app.beast.BeastMain.<init>(Unknown Source) at dr.app.beast.BeastMain.main(Unknown Source) Feb 19, 2015 8:36:06 PM dr.app.beast.BeastMain <init> SEVERE: Parsing error - poorly formed BEAST file, e1.hap.01.xml: Error parsing '<wideExchange>' element with id, 'null': Tree with fewer than 3 taxa java.lang.RuntimeException: Terminate at dr.app.beast.BeastMain.<init>(Unknown Source) at dr.app.beast.BeastMain.main(Unknown Source)

BEAST has terminated with an error. Please select QUIT from the menu.

Comment #1

Posted on Mar 5, 2015 by Quick Horse

I can't replicate this error. 3 & 4 sequence data sets work fine. Possibly something to do with taxon labels? Need more details and/or example XML.

Status: New

Labels:
Type-Defect Priority-Low