[BioC] R error by installing the org.Hs.eg.db package

lisann [guest] guest at bioconductor.org
Wed Jan 23 16:32:38 CET 2013


I have a question about installing a package in R. It seems to be very simple, but I can't figure out why it goes wrong. I want to install the package: org.Hs.eg.db from bioconductor. All the information about the R version and other package version are below.

I hope that somebody can help me with this!

 > source("http://bioconductor.org/biocLite.R")
 Bioconductor version 2.11 (BiocInstaller 1.8.3), ?biocLite for help
 > biocLite("org.Hs.eg.db")
 BioC_mirror: http://bioconductor.org
 Using Bioconductor version 2.11 (BiocInstaller 1.8.3), R version 2.15.
 Installing package(s) 'org.Hs.eg.db'
 trying URL 'http://bioconductor.org/packages/2.11/data/annotation/bin/windows/contrib/2.15/org.Hs.eg.db_2.8.0.zip'
 Content type 'application/zip' length 47453600 bytes (45.3 Mb)
 opened URL
 downloaded 45.3 Mb


 The downloaded binary packages are in
    C:\Users\lsvijfhuizen\AppData\Local\Temp\RtmpUvyORM\downloaded_packages
 Old packages: 'digest'
 Update all/some/none? [a/s/n]: a
 trying URL 'http://cran.fhcrc.org/bin/windows/contrib/2.15/digest_0.6.1.zip'
 Content type 'application/zip' length 135921 bytes (132 Kb)
 opened URL
 downloaded 132 Kb

 package ‘digest’ successfully unpacked and MD5 sums checked

 The downloaded binary packages are in
    C:\Users\lsvijfhuizen\AppData\Local\Temp\RtmpUvyORM\downloaded_packages
 Warning message:
 In unzip(zipname, exdir = dest) : write error in extracting from zip file


 -- output of sessionInfo(): 

>sessionInfo()

R version 2.15.2 (2012-10-26)
Platform: x86_64-w64-mingw32/x64 (64-bit)

- locale:
LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252    LC_MONETARY=English_United States.1252 LC_NUMERIC=C                           LC_TIME=English_United States.1252    

- attached base packages:

stats     graphics  grDevices utils     datasets  methods   base     

- other attached packages:

BiocInstaller_1.8.3 globaltest_5.12.0   biomaRt_2.14.0      edgeR_3.0.8         limma_3.14.4       

- loaded via a namespace (and not attached):

annotate_1.36.0    AnnotationDbi_1.20.3 Biobase_2.18.0      
BiocGenerics_0.4.0   DBI_0.2-5            IRanges_1.16.4      
parallel_2.15.2      RCurl_1.95-3         RSQLite_0.11.2
splines_2.15.2       stats4_2.15.2        survival_2.37-2      
tools_2.15.2         XML_3.95-0.1         xtable_1.7-0

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