[Bioc-devel] warnings in biodonductor package "SPIA"

[Hervé Pagès]

Hi Adi,

On 10/14/2010 10:04 AM, Tarca, Adi wrote:
> Hi all,
> Anyone has an idea how to find out wich dataset in my package is the one about which the RCMD check is complaining:?
>>
> Undocumented data sets:
>    .required
> All user-level objects in a package should have documentation entries.
> See the chapter 'Writing R documentation files' in manual 'Writing R
> Extensions'.
>>
>
> I do not see any names and this same package did not give warnings with the previous version of R.

You need to use 'all.names=TRUE' to see objects with a name which
begins with a ‘.’:

 > load("SPIA/data/colorectalcancer.RData")
 > ls(all.names=TRUE)
[1] "ALL_Colorectal" "DE_Colorectal"  ".required"      "top"

Cheers,
H.

>
> Thanks,
> Adi
>
> ________________________________
> From: Dan Tenenbaum [dtenenba at fhcrc.org]
> Sent: Wednesday, October 13, 2010 6:22 PM
> To: Tarca, Adi
> Subject: warnings in biodonductor package "SPIA"
>
> Hello,
>
> The Bioconductor package mentioned in the subject line has you listed as maintainer.
>
> This package is generating warnings for one or more platforms. We need all warnings to be resolved before we release Bioconductor 2.7 in a few days.
> Can you please fix the package so the warnings no longer appear? Thank you!
>
> You can see the warnings here:
> http://bioconductor.org/checkResults/devel/bioc-LATEST/
> (search for the name of your package, then click on the "WARNINGS" text in orange).
>
> Thanks,
> Dan Tenenbaum
> Bioconductor Team / Fred Hutchinson Cancer Research Center
>
>
> 	[[alternative HTML version deleted]]
>
> _______________________________________________
> Bioc-devel at stat.math.ethz.ch mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel


-- 
Hervé Pagès

Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M2-B876
P.O. Box 19024
Seattle, WA 98109-1024

E-mail: hpages at fhcrc.org
Phone:  (206) 667-5791
Fax:    (206) 667-1319