Question: DEXSeq install problem
2
gravatar for bartosovic.marek
2.9 years ago by
bartosovic.marek30 wrote:

Hi,

My server was recently updated to R 3.3 and I have a problem installing and running DEXSeq. Can someone help? Bioconductor installer states I am using bioc, version 3.2. Maybe I am doing some obvious mistake. Thanks !

Here is the Error:

source("https://bioconductor.org/biocLite.R")
biocLite("DEXSeq",lib="~/R/x86_64-pc-linux-gnu-library/")


BioC_mirror: https://bioconductor.org
Using Bioconductor 3.2 (BiocInstaller 1.20.3), R 3.3.0 (2016-05-03).
Installing package(s) ‘DEXSeq’
trying URL 'https://bioconductor.org/packages/3.2/bioc/src/contrib/DEXSeq_1.16.10.tar.gz'    
Content type 'unknown' length 370326 bytes (361 KB)
==================================================
downloaded 361 KB

* installing *source* package ‘DEXSeq’ ...
** R
** inst
** preparing package for lazy loading
Error in makePrototypeFromClassDef(properties, ClassDef, immediate, where) : 
in making the prototype for class “DEXSeqDataSet” elements of the prototype failed to match the corresponding slot     class: design (class "formula" )
Error : unable to load R code in package ‘DEXSeq’
ERROR: lazy loading failed for package ‘DEXSeq’
* removing ‘/homes2/marek/R/x86_64-pc-linux-gnu-library/DEXSeq’

sessionInfo()

R version 3.3.0 (2016-05-03)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 14.04.4 LTS

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] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] BiocInstaller_1.20.3

loaded via a namespace (and not attached):
[1] tools_3.3.0
ADD COMMENTlink modified 2.9 years ago • written 2.9 years ago by bartosovic.marek30
1

Nevermind, update of BiocInstaller to newer version solved the problem

ADD REPLYlink written 2.9 years ago by bartosovic.marek30
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