[BioC] GEOquerry and virtualArray

James W. MacDonald jmacdon at uw.edu
Tue Apr 8 15:59:06 CEST 2014


Hi Miroslav,


On 4/8/2014 9:53 AM, Blumenberg, Miroslav wrote:
> I tried to load GEOquerry and virtualArray but am getting the following error messages (even after re-loading latest versions of R and Bioconductor):
>
> Error in read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package", "Type")) :
>    cannot open the connection
> In addition: Warning messages:
> 1: In download.file(url, destfile, method, mode = "wb", ...) :
>    downloaded length 7031 != reported length 35878
> 2: In unzip(zipname, exdir = dest) : error 1 in extracting from zip file
> 3: In read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package", "Type")) :
>    cannot open compressed file 'bitops/DESCRIPTION', probable reason 'No such file or directory'
>
> In addition: Warning messages:
> 1: In download.file(url, destfile, method, mode = "wb", ...) :
>    downloaded length 7031 != reported length 35878
> 2: In download.file(url, destfile, method, mode = "wb", ...) :
>    downloaded length 188067 != reported length 1145037
> 3: In download.file(url, destfile, method, mode = "wb", ...) :
>    downloaded length 539927 != reported length 2836490
> 4: In download.file(url, destfile, method, mode = "wb", ...) :
>    downloaded length 7031 != reported length 51601
> 5: In download.file(url, destfile, method, mode = "wb", ...) :
>    downloaded length 193909 != reported length 320154
> 6: In unzip(zipname, exdir = dest) : error 1 in extracting from zip file
> 7: In read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package", "Type")) :
>    cannot open compressed file 'bitops/DESCRIPTION', probable reason 'No such file or directory'

It looks at the very least like your bitops package is broken, so I 
would re-install that. You also neglect to show what code you were 
running before you got these errors, so any further troubleshooting is 
difficult to do.

You also neglected to include your sessionInfo().

Best,

Jim

>
> What am I doing wrong? My RankProd is working fine.
> Please help,
> Miki Blumenberg, NYU Med School.
>
>
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-- 
James W. MacDonald, M.S.
Biostatistician
University of Washington
Environmental and Occupational Health Sciences
4225 Roosevelt Way NE, # 100
Seattle WA 98105-6099



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