[Phylobase-devl] tdata<- method bug

[Peter Cowan]

Steve,

You're correct, at the time I sent that I didn't have the latest svn
version.  Sorry for that, thankfully for my ego a bug still exists in
the method.

Peter

On Sun, Jul 27, 2008 at 1:49 PM, Steve Kembel <skembel at berkeley.edu> wrote:
> Hi Peter,
>
> The short answer is that the tdata<- method needs to be fleshed out.
> Currently there's no error checking at all and it assumes you're just
> assigning tip data, not tip + node data. There is a 'which' argument for the
> tdata<- method that lets you specify whether tip, node or alldata should be
> filled. Having said that, when I run tdata<- I get a different error message
> than you did, do you have the most recent version of phylobase installed?
>
>> library(phylobase)
> Loading required package: ape
>> foo <- as(rcoal(5), 'phylo4d')
>> tdata(foo) <- as.data.frame(rnorm(9))
>> foo
> Error in data.frame(label = data.names, tdata) :
>  arguments imply differing number of rows: 5, 9
> Error in print(as(x, "data.frame")) :
>  error in evaluating the argument 'x' in selecting a method for function
> 'print'
>
> I only get an error when I try to print the resulting object - it was
> assigning a 9-row data frame to the 5-row tip data slot.
>
> I can put this on my to do list if no one else gets to it first, I had to
> tidy that method up recently but it's still somewhat broken.
>
> Steve
>
> On Jul 27, 2008, at 11:47 AM, Peter Cowan wrote:
>
>> Hi all,
>>
>> I'm getting an error when I attempt the following.  I think this
>> should be allowed no?  There appears to be a method defined but
>> perhaps it's not being dispatched properly?
>>
>> Peter
>>
>> require(phylobase)
>> Loading required package: phylobase
>> Loading required package: ape
>> foo <- as(rcoal(5), 'phylo4d')
>> tdata(foo) <- as.data.frame(rnorm(9))
>>
>> Error in tdata(foo) <- as.data.frame(rnorm(9)) :
>>  could not find function "tdata<-"
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>
> ______________________________________________
> Dr. Steven Kembel - skembel at berkeley.edu
> http://www.phylodiversity.net/skembel/
>
>
>