Ahhh. I see. I missed the part in Yan's original email about the names.
All the best, Liam
Liam J. Revell, Associate 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 12/28/2016 6:45 AM, Emmanuel Paradis wrote:
Hi Liam,
Actually, this can be done with c():
R> tr <- rtree(10)
R> c(tr)
1 phylogenetic trees
With respect to Yan's initial query, this will not restore the tree name
from the NEXUS file which is (currently) lost if there is a single tree.
Best,
Emmanuel
Le 28/12/2016 à 03:11, Liam J. Revell a écrit :
Hi Yan.
In case it is useful I just pushed an update to phytools in which I have
added an as.multiPhylo method for objects of class "phylo". This will
also return an object of class "multiPhylo" if that is already the
object class. This means that:
obj<-as.multiPhylo(read.nexus(...))
in which ... are the arguments to read.nexus, will return an object of
class "multiPhylo" with length 1 if the file contains only one tree -
but will also return an object of class "multiPhylo" if the file has 2
or more trees.
To get this one needs to install phytools from GitHub using devtools:
library(devtools)
install_github("liamrevell/phytools")
All the best, Liam
Liam J. Revell, Associate 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 12/27/2016 5:11 PM, Yan Wong wrote:
On 27 Dec 2016, at 22:08, Emmanuel Paradis <emmanuel.para...@ird.fr>
wrote:
Hi Yan,
Yes, you are right: this modification can be done. In the meantime,
you can fix the code with:
fix(read.nexus)
Find this line (#117):
if (Ntree == 1) {
and change it to:
if (FALSE) {
save and close. Tell me if you still have problem.
Yes, that works fine. Thanks a lot.
Yan
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