[BioC] Error loading ShortRead

[rcaloger]

Many thanks!
Updating everything with:
source("http://bioconductor.org/biocLite.R")
   update.packages(repos=biocinstallRepos(), ask=F)
I solved the problem.
Cheers
Raffaele

Il 16/05/2011 17:47, Martin Morgan ha scritto:
> On 05/16/2011 06:50 AM, rcaloger wrote:
>> Dear All,
>> I am trying to load ShortRead package but I get the following error:
>>
>> library(Biostrings)
>> library(ShortRead)
>> Error : object ‘compact’ is not exported by 'namespace:Biostrings'
>> Error: loading package/namespace failed for 'ShortRead'
>>
>> Any suggestions?
>
> Biostrings and IRanges changed as a bug fix. You installed (maybe 
> freom SVN?) an updated ShortRead but not the other packages. Try
>
>   source("http://bioconductor.org/biocLite.R")
>   update.packages(repos=biocinstallRepos())
>
> perhaps with ask=FALSE.
>
> Martin
>
>> Cheers
>> Raffaele
>>
>> ##########################################################
>> sessionInfo()
>>
>> R version 2.13.0 (2011-04-13)
>> Platform: x86_64-pc-mingw32/x64 (64-bit)
>>
>> locale:
>> [1] LC_COLLATE=Italian_Italy.1252 LC_CTYPE=Italian_Italy.1252
>> LC_MONETARY=Italian_Italy.1252
>> [4] LC_NUMERIC=C LC_TIME=Italian_Italy.1252
>>
>> attached base packages:
>> [1] stats graphics grDevices utils datasets methods base
>>
>> other attached packages:
>> [1] Rsamtools_1.4.0 Biostrings_2.20.1 GenomicRanges_1.4.3 IRanges_1.10.3
>> lattice_0.19-23
>>
>> loaded via a namespace (and not attached):
>> [1] Biobase_2.12.1 grid_2.13.0 tools_2.13.0
>>
>>
>
>


-- 

----------------------------------------
Prof. Raffaele A. Calogero
Bioinformatics and Genomics Unit
MBC Centro di Biotecnologie Molecolari
Via Nizza 52, Torino 10126
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Mobile ++39 3333827080
email: raffaele.calogero at unito.it
        raffaele[dot]calogero[at]gmail[dot]com
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