This makes sense as I was also able to read in the file using
read.tree() with no difficulty running in Windows. - Liam
On 1/21/2011 10:46 AM, Leonor Palmeira wrote:
> On 21/01/11 16:39, Chris Mcowen wrote:
>> Thanks for this, it works now. I wonder how that got there? It isn't
>> in the nexus format? Very odd!
>>
>> Also,
>>
>>> Enrico Rezende
>>
>>> Chris,
>>> FYI, I opened your file in R with the read.tree command and had no
>>> problems to visualise your tree.
>>>
>>>
>>>> tree<- read.tree("tree.txt")
>>>> tree
>>>
>>> Phylogenetic tree with 1325 tips and 1248 internal nodes.
>>>
>>> Tip labels:
>>> Acanthochlamys_bracteata, Barbacenia_albiflora,
>>> Barbacenia_pallida, Barbacenia_riedeliana, Barbacenia_trigona,
>>> Freycinetia_awaiarensis, ...
>>>
>>> Rooted; includes branch lengths.
>>>
>>>
>>> Enrico
>>
>> How could he open it in this format?
>
> It might be related to the system under which you're running R? I am
> running it under Linux and have the same error as you. Enrico might be
> running it under Windows, which might ignore this character.
>
> Sorry that I don't have any more insight on this matter.
>
> Leo.
>
>> Thanks
>>
>> On 21 Jan 2011, at 15:36, Leonor Palmeira wrote:
>>
>> Hi,
>>
>> this is just due to a unallowed character in your file in
>> "Ptychosperma_harannii". If you change this, it should run fine.
>>
>> Leo.
>>
>> On 21/01/11 16:00, Chris Mcowen wrote:
>>> Hi,
>>>
>>> I am using a function that requires a tree in PHYLIP format. I had
>>> it in nexus ( which read in fine using the read.nexus function) i
>>> then opened it in figtree and output it as phylip.
>>>
>>> However when i try and open it i get this error:
>>>
>>>>> read.tree("/Users/chrismcowen/Desktop/tree.txt")
>>>> NULL
>>>> Warning message:
>>>> In strsplit(tree, NULL) : input string 1 is invalid in this locale
>>>>
>>>
>>> I can open it in figtree fine, so i am unsure why i cant in R?
>>>
>>> any help would be greatly appreciated.
>>>
>>> p.s - the tree is attached.
>>>
>>> Chris
>>>
>>>
>>>
>>> _______________________________________________
>>> R-sig-phylo mailing list
>>> R-sig-phylo@r-project.org
>>> https://stat.ethz.ch/mailman/listinfo/r-sig-phylo
>>
>
--
Liam J. Revell
NESCent, Duke University
web: http://anolis.oeb.harvard.edu/~liam/
NEW email: lrev...@nescent.org
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