I'm guessing this is because you need to specify the argument "file" by
name and are not doing so - i.e.:
write.nexus(tree,file="filename")
This is because the first argument in write.nexus, unlike write.tree, is
the ... three-dot argument so subsequent arguments need to be indicated
by name (otherwise they are treated as additional trees to write). Let
us know if specifying the argument file by name fixes your problem.
- Liam
Liam J. Revell, Assistant Professor of Biology
University of Massachusetts Boston
web: http://faculty.umb.edu/liam.revell/
email: liam.rev...@umb.edu
blog: http://blog.phytools.org
On 6/27/2013 3:11 PM, Peter Adler wrote:
Elaine,
Did you ever solve this problem? I have run into the same error in the
same context (trying to write.nexus() after pruning a tree).
-Peter
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