[Biopython] Bug in Phylo.write('phyloxml')?

[Eric Talevich]

On Fri, Dec 16, 2011 at 1:44 PM, Jon Sanders <jsanders at oeb.harvard.edu>wrote:

> My XML trees exported in biopython (with confidence values, thanks Eric!)
> don't open in most XML tree viewing programs.
>
> The problem seems to be a spurious <name /> tag at the beginning of the
> tree.
>
> <phy:phyloxml xmlns:phy="http://www.phyloxml.org">
>  <phy:phylogeny rooted="false">
>    <phy:name />
>    <phy:clade>
>
> If I delete this tag they open fine.
>
>
Hi Jon,

Thanks for reporting this. I'll check the spec to see if an empty 'name'
tag is even valid. Can you give me the name of one or two programs that are
supposed to handle phyloXML, but don't like this input? Is Archaeopteryx
one of them?

-Eric