
Thanks, James. 

By the way, and concerning also tkWidgets, on Windows XP I am not able to browse the USB drives in the widget opened by ReadAffy(widget=TRUE). 

Regards, 

Ignacio 

De: "James W. MacDonald" <jmacdon@med.umich.edu> 
Para: "\"Ignacio López de Ullibarri [guest]\"" <guest@bioconductor.org> 
CC: bioconductor@r-project.org, ilu@udc.es 
Enviados: Lunes, 3 de Octubre 2011 15:09:42 
Asunto: Re: [BioC] Problem with tkWidgets 

Hi Ignacio, 

On 10/3/2011 6:46 AM, Ignacio López de Ullibarri [guest] wrote: 
> I have found a problem with the tkWidgets package. When executing readAffy(widget=TRUE), the CEL files are visible on the left panel of the widget, but no the compressed ones (i.e. those with names *.CEL.gz). This contradicts Figure 1 of the \'affy\' vignette of the affy package. 
> 
> Is this actually a bug in the package? or could this be caused by some problem on my platform (Ubuntu 10.04)? 

Yes, that is a bug. Surprisingly enough this bug has existed for years 
now without being detected. Although these days there isn't a profit in 
gzipping a celfile (you don't gain anything by gzipping a binary file), 
so maybe that explains it. 

Anyway, fixed in the devel version (1.31.6). This should propagate 
through the build system and be available in 24 hours or so. Note that 
you will need to use the devel version of R in order to get it via 
biocLite(). 

Best, 

Jim 
> 
> -- output of sessionInfo(): 
> 
> R version 2.13.1 (2011-07-08) 
> Platform: x86_64-pc-linux-gnu (64-bit) 
> 
> locale: 
> [1] LC_CTYPE=en_GB.UTF-8 LC_NUMERIC=C 
> [3] LC_TIME=en_GB.UTF-8 LC_COLLATE=en_GB.UTF-8 
> [5] LC_MONETARY=C LC_MESSAGES=en_GB.UTF-8 
> [7] LC_PAPER=en_GB.UTF-8 LC_NAME=C 
> [9] LC_ADDRESS=C LC_TELEPHONE=C 
> [11] LC_MEASUREMENT=en_GB.UTF-8 LC_IDENTIFICATION=C 
> 
> attached base packages: 
> [1] tools tcltk stats graphics grDevices utils datasets 
> [8] methods base 
> 
> other attached packages: 
> [1] tkWidgets_1.30.0 DynDoc_1.30.0 widgetTools_1.30.0 affy_1.30.0 
> [5] Biobase_2.12.2 
> 
> loaded via a namespace (and not attached): 
> [1] affyio_1.20.0 annotate_1.30.1 AnnotationDbi_1.14.1 
> [4] DBI_0.2-5 genefilter_1.34.0 limma_3.8.3 
> [7] marray_1.30.0 preprocessCore_1.14.0 RSQLite_0.10.0 
> [10] splines_2.13.1 survival_2.36-10 xtable_1.5-6 
> 
> -- 
> Sent via the guest posting facility at bioconductor.org. 
> 
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-- 
James W. MacDonald, M.S. 
Biostatistician 
Douglas Lab 
University of Michigan 
Department of Human Genetics 
5912 Buhl 
1241 E. Catherine St. 
Ann Arbor MI 48109-5618 
734-615-7826 

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