[BioC] failed to install biocondoctuor

[Dan Tenenbaum]

PS. An easy way to select mirrors is to use the functions
chooseCRANmirror()
and
chooseBioCmirror()

Dan


----- Original Message -----
> From: "Dan Tenenbaum" <dtenenba at fhcrc.org>
> To: "Wang Peter" <wng.peter at gmail.com>
> Cc: bioconductor at r-project.org
> Sent: Tuesday, December 3, 2013 8:32:26 AM
> Subject: Re: [BioC] failed to install biocondoctuor
> 
> You don't say which mirrors you are using. What is the output of:
> 
> library(BiocInstaller)
> biocinstallRepos()
> 
> ?
> 
> Try using the mirror that Tengfei Yin set up in China:
> 
> http://mirrors.ustc.edu.cn/bioc/
> 
> You should also pick a CRAN mirror in China, from this list:
> 
> http://cran.r-project.org/mirrors.html
> 



> Dan
> 
> 
> ----- Original Message -----
> > From: "Wang Peter" <wng.peter at gmail.com>
> > To: bioconductor at r-project.org
> > Sent: Tuesday, December 3, 2013 5:47:32 AM
> > Subject: [BioC] failed to install biocondoctuor
> > 
> > i just reinstall the biocondoctuor in china.
> > it is very slow, due to chinese restriction to foreign website
> > 
> > and i meet such error, i never met before
> > 
> > 
> > package �annotate� successfully unpacked and MD5 sums checked
> > Error in read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package",
> > "Type"))
> > :
> >   cannot open the connection
> > In addition: Warning messages:
> > 1: packages �base�, �boot�, �class�, �compiler�, �datasets�,
> > �foreign�,
> > �graphics�, �grDevices�, �grid�, �MASS�, �methods�, �nlme�,
> > �parallel�,
> > �spatial�, �splines�, �stats�, �stats4�, �tcltk�, �tools�, �utils�
> > are not
> > available (for R version 2.15.2)
> > 2: In download.file(url, destfile, method, mode = "wb", ...) :
> >   downloaded length 262334 != reported length 4200978
> > 3: In download.file(url, destfile, method, mode = "wb", ...) :
> >   downloaded length 57623 != reported length 2346708
> > 4: In download.file(url, destfile, method, mode = "wb", ...) :
> >   downloaded length 436576 != reported length 889011
> > 5: In download.file(url, destfile, method, mode = "wb", ...) :
> >   downloaded length 1481998 != reported length 2048190
> > 6: In download.file(url, destfile, method, mode = "wb", ...) :
> >   downloaded length 589241 != reported length 724724
> > 7: In download.file(url, destfile, method, mode = "wb", ...) :
> >   downloaded length 123147 != reported length 3506196
> > 8: In unzip(zipname, exdir = dest) : error 1 in extracting from zip
> > file
> > 9: In read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package",
> > "Type")) :
> >   cannot open compressed file 'AnnotationDbi/DESCRIPTION', probable
> >   reason
> > 'No such file or directory'
> > > sessionInfo()
> > R version 2.15.2 (2012-10-26)
> > Platform: i386-w64-mingw32/i386 (32-bit)
> > locale:
> > [1] LC_COLLATE=Chinese_People's Republic of China.936
> > [2] LC_CTYPE=Chinese_People's Republic of China.936
> > [3] LC_MONETARY=Chinese_People's Republic of China.936
> > [4] LC_NUMERIC=C
> > [5] LC_TIME=Chinese_People's Republic of China.936
> > attached base packages:
> > [1] stats     graphics  grDevices utils     datasets  methods
> >   base
> > other attached packages:
> > [1] BiocInstaller_1.8.3
> > loaded via a namespace (and not attached):
> > [1] tools_2.15.2
> > 
> > --
> > shan gao
> > Room 231(Dr.Fei lab)
> > Boyce Thompson Institute for Plant Research
> > Cornell University
> > Tower Road, Ithaca, NY 14853-1801
> > Office phone: 1-607-254-1267(day)
> > Official email:sg839 at cornell.edu
> > Facebook:http://www.facebook.com/profile.php?id=100001986532253
> > 
> > 	[[alternative HTML version deleted]]
> > 
> > 
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