[BioC] problem installing GenomicFeatures

Kavita Garg [guest] guest at bioconductor.org
Mon Apr 29 18:23:49 CEST 2013


I am having trouble updating GenomicFeatures package. Can you please look at it and let me know what I doing wrong.

this is the error I get

Error : object ‘findSpliceOverlaps’ is not exported by 'namespace:GenomicRanges'
ERROR: lazy loading failed for package ‘GenomicFeatures’

thanks
kavita

> biocLite("GenomicFeatures")
BioC_mirror: http://bioconductor.org
Using R version 2.15, BiocInstaller version 1.4.9.
Installing package(s) 'GenomicFeatures'
trying URL 'http://bioconductor.org/packages/2.10/bioc/src/contrib/GenomicFeatures_1.8.3.tar.gz'
Content type 'application/x-gzip' length 1749597 bytes (1.7 Mb)
opened URL
==================================================
downloaded 1.7 Mb

* installing *source* package ‘GenomicFeatures’ ...
** R
** inst
** preparing package for lazy loading
Error : object ‘findSpliceOverlaps’ is not exported by 'namespace:GenomicRanges'
ERROR: lazy loading failed for package ‘GenomicFeatures’

 -- output of sessionInfo(): 

R version 2.15.3 (2013-03-01)
Platform: x86_64-unknown-linux-gnu (64-bit)

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=C                 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_1.4.9  lattice_0.20-13      Biostrings_2.26.3   
[4] AnnotationDbi_1.20.6 Biobase_2.18.0       GenomicRanges_1.8.13
[7] IRanges_1.16.6       BiocGenerics_0.4.0  

loaded via a namespace (and not attached):
 [1] biomaRt_2.14.0  bitops_1.0-5    BSgenome_1.26.1 DBI_0.2-5      
 [5] grid_2.15.3     parallel_2.15.3 RCurl_1.95-4.1  RSQLite_0.11.2 
 [9] stats4_2.15.3   tools_2.15.3    XML_3.95-0.2    zlibbioc_1.4.0 

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