[Bioc-devel] GenomicFeatures Install Fails

[Hervé Pagès]

Hi Dario, Wei,

Remember that this is devel and some packages might introduce changes
that affect other packages. So please make sure that you update
your installation frequently:

   source("http://bioconductor.org/biocLite.R")
   update.packages(repos=biocinstallRepos(), ask=FALSE, checkBuilt=TRUE)

For the particular problem you are seeing, make sure you have the
latest versions of IRanges, GenomicRanges, Biostrings, BSgenome,
and rtracklayer before you try to install GenomicFeatures.

Cheers,
H.


On 11-04-10 09:04 PM, Wei Shi wrote:
> I got that problem too ...
>
> Wei
>
> On Apr 11, 2011, at 2:00 PM, Dario Strbenac wrote:
>
>> Hello,
>>
>> I'm having problems installing the package GenomicFeatures, development version. I've looked at http://www.bioconductor.org/checkResults/2.8/bioc-LATEST/ and it doesn't have warnings or errors there, but when I try to install it I get :
>>
>> * installing *source* package âGenomicFeaturesâ ...
>>   ...          ...
>> Error : class "Sequence" is not exported by 'namespace:IRanges'
>> ERROR: lazy loading failed for package âGenomicFeaturesâ
>>   ...          ...
>>
>> I've got the latest IRanges installed though.
>>> library(IRanges)
>>   ...          ...
>>> sessionInfo()
>> R version 2.13.0 RC (2011-04-05 r55310)
>> Platform: x86_64-unknown-linux-gnu (64-bit)
>>   ...         ...
>> other attached packages:
>> [1] IRanges_1.9.31
>>   ...         ...
>>
>> Am I doing something wrong, or are there some more changes to be made before it goes to release ?
>>
>> --------------------------------------
>> Dario Strbenac
>> Research Assistant
>> Cancer Epigenetics
>> Garvan Institute of Medical Research
>> Darlinghurst NSW 2010
>> Australia
>>
>> _______________________________________________
>> Bioc-devel at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>
>
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