[R-sig-Debian] Error gdata and gplots packages

[Michael Dewey]

At 16:34 24/02/2014, you wrote:

Dear Elodie
Please do not reply to me personally but to the whole list

You now give us a different error message. Is 
there any reason why you decided not to do this the first time?

I do not think there is much we can do to help 
you until we are sure that you are telling us the 
whole story. Please give us a minimal 
reproducible example. I suspect your problem has 
nothing to do with Debian and might be more suitable for R-help.

>These warnings stop the script execution in 
>Shiny application (Rstudio shiny server 
>packages) where gdata and gplots are loaded :
>
>
>
>
>An error has occurred
>
>
>
>The application failed to start.
>
>The application exited during initialization.
>
>gdata: read.xls support for 'XLS' (Excel 
>97-2004) files ENABLED. gdata: read.xls support 
>for 'XLSX' (Excel 2007+) files ENABLED. 
>Attaching package: ‘gdata’ L'objet suivant est 
>masqué from ‘package:stats’: nobs L'objet 
>suivant est masqué from ‘package:utils’: 
>object.size Erreur dans 
>`[.data.frame`(cancerandtechno, , 1) : undefined 
>columns selected Calls: runApp ... eval -> eval 
>-> do.call -> strsplit -> [ -> [.data.frame Exécution arrêtée
>
>
>
>Le 24/02/2014 17:33, Michael Dewey a écrit :
>>At 16:17 24/02/2014, Elodie Chapeaublanc wrote:
>>>Hi, I just installed Ubuntu 12.04.4. I 
>>>installed R by following instructions from 
>>>CRAN after modification into my /etc/apt/sources.list file
>>>
>>>  sudo apt-get update
>>>
>>>  sudo apt-get install r-base
>>>
>>>  sudo apt-get install r-base-dev
>>>
>>>
>>>  When I try to load library(gdata) ou 
>>> library(gplots), I have error message :
>>
>>Dear Elodie
>>
>>I am not that expert either at R or French but 
>>I do not see any error message there. See inline below
>>
>>
>>>library(gdata)
>>>
>>>gdata: read.xls support for 'XLS' (Excel 97-2004) files ENABLED.
>>>
>>>gdata: read.xls support for 'XLSX' (Excel 2007+) files ENABLED.
>>>
>>>Attachement du package : 'gdata'
>>>
>>>L'objet suivant est masqué from 'package:stats':
>>>
>>>     nobs
>>
>>Is this what was concerning you?
>>
>>>L'objet suivant est masqué from 'package:utils':
>>>
>>>     object.size
>>>
>>>>library(gplots)
>>>
>>>KernSmooth 2.23 loaded
>>>
>>>Copyright M. P. Wand 1997-2009
>>>
>>>Attachement du package : 'gplots'
>>>
>>>L'objet suivant est masqué from 'package:stats':
>>>
>>>     lowess
>>
>>At this point does running one of the examples from either package work?
>>
>>
>>>sessionInfo()
>>>R version 3.0.2 (2013-09-25)
>>>Platform: x86_64-pc-linux-gnu (64-bit)
>>>
>>>locale:
>>>  [1] LC_CTYPE=fr_FR.UTF-8       LC_NUMERIC=C
>>>  [3] LC_TIME=fr_FR.UTF-8        LC_COLLATE=fr_FR.UTF-8
>>>  [5] LC_MONETARY=fr_FR.UTF-8    LC_MESSAGES=fr_FR.UTF-8
>>>  [7] LC_PAPER=fr_FR.UTF-8       LC_NAME=C
>>>  [9] LC_ADDRESS=C               LC_TELEPHONE=C
>>>[11] LC_MEASUREMENT=fr_FR.UTF-8 LC_IDENTIFICATION=C
>>>
>>>attached base packages:
>>>[1] stats     graphics  grDevices utils     datasets  methods base
>>>
>>>other attached packages:
>>>[1] gplots_2.12.1 gdata_2.13.2
>>>
>>>loaded via a namespace (and not attached):
>>>[1] bitops_1.0-6       caTools_1.16       gtools_3.3.0 KernSmooth_2.23-10
>>>
>>>
>>>Thanks,
>>>
>>>Elodie
>>>
>>>
>>>
>>>--
>>>--
>>>Elodie Chapeaublanc
>>>IE Bioinformatique
>>>Équipe Oncologie Moléculaire
>>>Institut Curie - UMR 144 - CNRS
>>>26 rue d'Ulm - 75248 Paris Cedex 05
>>>Tel: +33 1 56 24 63 57
>>>Email: <mailto:elodie.chapeaublanc at curie.fr>elodie.chapeaublanc at curie.fr
>>>
>>>_______________________________________________
>>>R-SIG-Debian mailing list
>>><mailto:R-SIG-Debian at r-project.org>R-SIG-Debian at r-project.org
>>>https://stat.ethz.ch/mailman/listinfo/r-sig-debian
>>
>>Michael Dewey
>><mailto:info at aghmed.fsnet.co.uk>info at aghmed.fsnet.co.uk
>>http://www.aghmed.fsnet.co.uk/home.html
>
>
>
>--
>--
>Elodie Chapeaublanc
>IE Bioinformatique
>Équipe Oncologie Moléculaire
>Institut Curie - UMR 144 - CNRS
>26 rue d'Ulm - 75248 Paris Cedex 05
>Tel: +33 1 56 24 63 57
>Email: <mailto:elodie.chapeaublanc at curie.fr>elodie.chapeaublanc at curie.fr

Michael Dewey
info at aghmed.fsnet.co.uk
http://www.aghmed.fsnet.co.uk/home.html