[BioC] Help to submission

[Wolfgang Huber]

Dear Arnaud

re the vignette build problem, there is a draft of a little tutorial 
describing one possible solution, that addresses Vince's suggestion, 
posted here:
    http://www.ebi.ac.uk/~huber/bigvig.pdf

- I would also be interested in feedback / comments on this approach.
- For the record: at some point, the PDF might disappear from the above 
URL and perhaps appear in R-news.

Best wishes
      Wolfgang

----------------------------------------------------
Wolfgang Huber, EMBL-EBI, http://www.ebi.ac.uk/huber


Vincent Carey ha scritto:
> it is true that you might just submit the pdf file, but i think the Rnw
> source should be available
> in a non-building form.  you can accomplish this by setting eval=FALSE on
> chunks or by placing
> the vignette source in a folder where it will not be built.  it should be
> possible for someone who
> wants to wait for the vignette to compile to do so on their own, with
> straightforward changes
> 
> On Mon, Nov 17, 2008 at 5:02 PM, Richard Pearson <
> richard.pearson at postgrad.manchester.ac.uk> wrote:
> 
>> Arnaud
>>
>> You can get round the size problem by creating a separate data package (I
>> did this with puma/pumadata).
>>
>> You can get round the vignette build problem by providing just the
>> generated pdf file, and not the Rnw file.
>>
>> Best wishes
>>
>> Richard.
>>
>>
>>
>> Droit Arnaud wrote:
>>
>>> Hello All,
>>>
>>> I am going to create a package for the Bioconductor's submission.
>>>
>>> I have two problems to solve before submitting them :
>>> First, we have included the CEL and bpmap files in our package. But the
>>> size is more than 100 Mo.
>>> What is the best solution to reduce it? May be, I could make it available
>>> on another ftp server?
>>>
>>> Second, the time to run the R CMD check is more than 5 minutes.
>>> Most of this time is required to build a Sweave vignette.  Can I disable
>>> the check command in the Rnw files?
>>>
>>> Thank you
>>>
>>> Arnaud.
>>>
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>> --
>> Richard D. Pearson             richard.pearson at postgrad.manchester.ac.uk
>> School of Computer Science,    http://www.cs.man.ac.uk/~pearsonr<http://www.cs.man.ac.uk/%7Epearsonr>
>> University of Manchester,      Tel: +44 161 275 6178
>> Oxford Road,                   Mob: +44 7971 221181
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