[adegenet-forum] adegenet-forum Digest, Vol 67, Issue 6

[Caitlin Collins]

Hi Francesco,

Glad to see you are already testing out the new version of adegenet!

I recognise the second message (Error in if (!ONEDIM) { : argument is of
length zero). It appears twice in my R console upon start-up of the
adegenetServer on Rstudio. It is also matched very briefly by the
appearance of the truncated message (Error: argument is of length zero) in
the adegenetServer browser. This occurs because the adegenetServer, upon
start-up, attempts to immediately and simultaneously load the data and plot
the DAPC scatterplot. This causes the plot function to return an error
message in the moment before it is able to find the data. I will attempt to
silence this error message in the next version of the adegenetServer. For
now, unless you think the adegenetServer is otherwise misbehaving, I would
say it is safe to simply ignore this error message.

As for the first error message you mentioned (Error in
substitute(value)[[2]] : subscript out of bounds), could you tell me when
and where this is occurring, and also what processes it seems to be
interrupting?

Thank you for the feedback.

Best,
Caitlin.


On Thu, Mar 20, 2014 at 11:26 AM, Francesco Montinaro <
francesco.montinaro at gmail.com> wrote:

> Hi Thibaut,
> Thank you very much for this big update!
>
> When I type adegenetServer() on Rstudio (on Linuxmint)
> I get this error.
>
> Listening on http://127.0.0.1:7727
> Error in substitute(value)[[2]] : subscript out of bounds
> Error in if (!ONEDIM) { : argument is of length zero
>
>
> Best,
>
> Francesco
>
> Francesco Montinaro
>
>
> On 20 March 2014 11:00, <
> adegenet-forum-request at lists.r-forge.r-project.org> wrote:
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>>    1. new release(s) of adegenet (Jombart, Thibaut)
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>> ----------------------------------------------------------------------
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>> Message: 1
>> Date: Wed, 19 Mar 2014 17:02:12 +0000
>> From: "Jombart, Thibaut" <t.jombart at imperial.ac.uk>
>> To: "adegenet-forum at lists.r-forge.r-project.org"
>>         <adegenet-forum at lists.r-forge.r-project.org>
>> Subject: [adegenet-forum] new release(s) of adegenet
>> Message-ID:
>>         <2CB2DA8E426F3541AB1907F98ABA657075F77B9B at icexch-m1.ic.ac.uk>
>> Content-Type: text/plain; charset="Windows-1252"
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>>
>> Dear all
>>
>> as some of you might have noticed, we have just released a new version of
>> adegenet. Well, actually two, but 1.4-0 had a bug we had to correct
>> quickly, so new version is 1.4-1.
>>
>> Big changes for this new release. The tutorials are no longer distributed
>> as vignettes, but are accessible online from the adegenet website, or using
>> the new command "adegenetTutorial". We have revamped the tutorials, which
>> are now using knitr rather than Sweave (meaning: prettier, and easier to
>> copy/paste command from the pdf into R).
>>
>> The other big news is that Caitlin and I have been working on a web
>> server for DAPC, which is now part of the package. Type "adegenetServer()",
>> and this will open up a web interface for DAPC. This includes some of the
>> most recent work Caitlin has done on DAPC, like the feature selection
>> procedure or the cross validation.
>>
>> As always, feedback and contributions welcome.
>>
>> Happy data analysis!
>>
>> Best
>>
>> Thibaut
>>
>> --
>> ######################################
>> Dr Thibaut JOMBART
>> MRC Centre for Outbreak Analysis and Modelling
>> Department of Infectious Disease Epidemiology
>> Imperial College - School of Public Health
>> St Mary?s Campus
>> Norfolk Place
>> London W2 1PG
>> United Kingdom
>> Tel. : 0044 (0)20 7594 3658
>> t.jombart at imperial.ac.uk
>> http://sites.google.com/site/thibautjombart/
>> http://adegenet.r-forge.r-project.org/
>>
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>> End of adegenet-forum Digest, Vol 67, Issue 6
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