Note that the Bioconductor MLInterfaces package creates interfaces to many
packages that are not part of
Bioconductor.  Some interface calls will fail if a given package is not
installed.

On Thu, Mar 5, 2009 at 4:47 AM, rcaloger <raffaele.calogero@gmail.com>wrote:

> Hi,
> I am the maintainer of oneChannelGUI, a graphical inteface to various
> Bioconductor packages.
> I am putting some effort in increasing the capability of oneChannelGUI in
> the analysis of exon-arrays.
> Recently Xing et al . have published a nice paper on a new tool for exon
> arrays analysis (MADS: a new and improved method for analysis of
> differential alternative splicing by exon-tiling microarrays. RNA. 2008
> Aug;14(8):1470-9).
> This tool was subsequently embedded in the JETTA software
> http://gluegrant1.stanford.edu/~junhee/JETTA/<http://gluegrant1.stanford.edu/%7Ejunhee/JETTA/>, which is also available as R package for win/mac/linux platforms.
> I am working on interfacing this libray in oneChannelGUI, however I need
> some advice regarding the insertion in Biocondutor of libraries that are not
> part of it.
> Since in one of my function I call jetta library, I need to declare it in
> the suggested packages in the DESCRIPTION file of oneChannelGUI.
> In my function I have implemented a routine that download and install from
> the http://gluegrant1.stanford.edu/~junhee/JETTA/<http://gluegrant1.stanford.edu/%7Ejunhee/JETTA/>web page the specific platform package.
> Therefore the users interested to use jetta could handle it.
> However, if I will load the package on the devel repository of
> Bioconductor, the presence in the suggested packages of jetta will produce a
> warning.  How can  I handle this problem?
> Is this acceptable by Bioconductor?
> Is there any way to avoid the warning?
> e.g. ask to the Biocore team to install the jetta lib on the repository. Is
> this feasible?
>
> I am open to any suggestion
>
> Cheers
> Raffaele
>
>
>
>
> --
>
> ----------------------------------------
> Prof. Raffaele A. Calogero
> Bioinformatics and Genomics Unit
> Dipartimento di Scienze Cliniche e Biologiche
> c/o Az. Ospedaliera S. Luigi
> Regione Gonzole 10, Orbassano
> 10043 Torino
> tel.   ++39 0116705417
> Lab.   ++39 0116705408
> Fax    ++39 0119038639
> Mobile ++39 3333827080
> email: raffaele.calogero@unito.it
>      raffaele[dot]calogero[at]gmail[dot]com
> www:   http://www.bioinformatica.unito.it
> Info: http://publicationslist.org/raffaele.calogero
>
> _______________________________________________
> Bioc-devel@stat.math.ethz.ch mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>

	[[alternative HTML version deleted]]

