[Bioc-devel] Packages available in the build system

[Nicolas Delhomme]

Hi Henrik,

Thanks! I have seen your gunzip function in the GEOquery / R.utils packages too for the case I would have very large files inappropriate for in-memory decompression (I haven't check yet how much mem. is required with these functions).

Nico

P.S. Henrik - sorry for the duplicate email.

---------------------------------------------------------------
Nicolas Delhomme

Genome Biology Computational Support

European Molecular Biology Laboratory

Tel: +49 6221 387 8310
Email: nicolas.delhomme at embl.de
Meyerhofstrasse 1 - Postfach 10.2209
69102 Heidelberg, Germany
---------------------------------------------------------------





On 1 Apr 2012, at 00:12, Henrik Bengtsson wrote:

> FYI,
> 
> in the 'base' package, there also memDecompress(), cf.
> help("memCompress", package="base").
> 
> /Henrik
> 
> On Sat, Mar 31, 2012 at 12:13 PM, Nicolas Delhomme <delhomme at embl.de> wrote:
>> Hi Dan,
>> 
>> Good to know!
>> 
>> Thanks,
>> 
>> Nico
>> 
>> ---------------------------------------------------------------
>> Nicolas Delhomme
>> 
>> Genome Biology Computational Support
>> 
>> European Molecular Biology Laboratory
>> 
>> Tel: +49 6221 387 8310
>> Email: nicolas.delhomme at embl.de
>> Meyerhofstrasse 1 - Postfach 10.2209
>> 69102 Heidelberg, Germany
>> ---------------------------------------------------------------
>> 
>> 
>> 
>> 
>> 
>> On 31 Mar 2012, at 21:00, Dan Tenenbaum wrote:
>> 
>>> On Sat, Mar 31, 2012 at 9:46 AM, Nicolas Delhomme <delhomme at embl.de> wrote:
>>>> Hi,
>>>> 
>>>> I'm thinking about using the Rcompression library for a package I'm writing and it is only available from the http://www.omegahat.org/R repository. I was wondering if this repo was used by the Bioc build system.
>>> 
>>> No, it is not.
>>> You can see the repositories used by the build system if you do this:
>>> library(BiocInstaller)
>>> biocinstallRepos()
>>> 
>>> Dan
>>> 
>>> 
>>>> If not, I'd welcome pointers to libraries with similar capabilities, e.g. I'm retrieving compressed fasta files with Rcurl and would like to uncompress them in R.
>>>> 
>>>> Thanks!
>>>> 
>>>> Nico
>>>> 
>>>> ---------------------------------------------------------------
>>>> Nicolas Delhomme
>>>> 
>>>> Genome Biology Computational Support
>>>> 
>>>> European Molecular Biology Laboratory
>>>> 
>>>> Tel: +49 6221 387 8310
>>>> Email: nicolas.delhomme at embl.de
>>>> Meyerhofstrasse 1 - Postfach 10.2209
>>>> 69102 Heidelberg, Germany
>>>> 
>>>> _______________________________________________
>>>> Bioc-devel at r-project.org mailing list
>>>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>> 
>> _______________________________________________
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