Duplicate Taxon error

[Ryan Perry]

Hi all, 

I am running an analysis of 3 gene regions in a relaxed clock, GTR analysis. Everything works out fine, but when I get the output tree from Tree Annotator and try to open it in Figtree, I get an error saying "duplicate taxon." So I opened up the tree file in text wrangler, and sure enough all of my specimen names were reduced to just the genus name of each specimen, and clearly not giving any unique identifiers. I have no idea how to fix this, as all of the specimen names had underscores between names. I did a similar analysis last week but using a strict molecular clock model, and I had no problems opening up the file in Figtree, and looking at the tree file in text wrangler shows that the specimen names are all kept intact, with unique identifiers. I used the exact same nexus file in Beauti to begin each analysis, so I am completely lost. Please help!

[dbto...@gmail.com]

Check your taxa names in the alignment you loaded into BEAUTi. If there were spaces, they get lost. This just happened to me.

-Tom

[Tim Vaughan]

Hi Ryan, may I ask what version of beast you're using?

Tim

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[Caroline Judy]

Hi Tim, did you get resolution on this error? I'm having the same problem (2 yrs later!)

[Tim Vaughan]

Hi Caroline, I don't think I ever got a response to the question of which BEAST version was involved. 1.x? 2.x?  This is very important in answering any technical question, as they are essentially independent development projects.

Cheers,

Tim

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