[Bioc-devel] Error in DESeq Installation

[Obenchain, Valerie]

Hi,

I'm not having problems installing DESeq with Bioconductor 3.4 and R
3.3.1. Please try installing the package in a fresh R session, show the
commands you ran and the output of sessionInfo(). Here's mine:

> sessionInfo()
R version 3.3.1 (2016-06-21)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Fedora 24 (Workstation Edition)

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C             
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8   
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8  
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                
 [9] LC_ADDRESS=C               LC_TELEPHONE=C           
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C      

attached base packages:
[1] parallel  stats4    stats     graphics  grDevices utils     datasets
[8] methods   base    

other attached packages:
[1] BiocInstaller_1.24.0 reactome.db_1.58.0   AnnotationDbi_1.36.0
[4] IRanges_2.8.0        S4Vectors_0.12.0     Biobase_2.34.0     
[7] BiocGenerics_0.20.0

loaded via a namespace (and not attached):
[1] tools_3.3.1   DBI_0.5-1     RSQLite_1.0.0

As for the 'upgrade' error, Bioconductor 3.4 (release) is the most
recent version that can be run with R 3.3.1 so it can't upgrade. If you
want to use Bioconductor 3.5 (devel) you need to install a newer version
of R. See this page for details:

  http://www.bioconductor.org/install/

Valerie


On 10/24/2016 01:37 AM, Yogesh Gupta wrote:
> Dear All,
>
> I am getting error in DESeq installation in R.
>
> package ‘DESeq’ is not available (for R version 3.3.1)
>> source("http://www.Bioconductor.org/biocLite.R
> <http://www.bioconductor.org/biocLite.R>")
> Bioconductor version 3.4 (BiocInstaller 1.24.0), ?biocLite for help
>> biocLite("BiocUpgrade")
> Error: Bioconductor version 3.4 cannot be upgraded with R version 3.3.1
>
> Can you suggest me I How I can resolve it.
>
> Thanks
> Yogesh
>
>
> *Yogesh Gupta*
> *Postdoctoral Researcher*
> *Department of Biological Science*
> *Seoul National University*
> *Seoul, South Korea*
> web) http://biosci.snu.ac.kr/jiyounglee
> *Cell No. +82-10-6453-0716*
>
> 	[[alternative HTML version deleted]]
>
> _______________________________________________
> Bioc-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel




This email message may contain legally privileged and/or confidential information.  If you are not the intended recipient(s), or the employee or agent responsible for the delivery of this message to the intended recipient(s), you are hereby notified that any disclosure, copying, distribution, or use of this email message is prohibited.  If you have received this message in error, please notify the sender immediately by e-mail and delete this email message from your computer. Thank you.