Hi all,

I am aware that a question about this error message was posted before, but following the recommendations has still not gotten me much further.

Please find my code and error message below:

> source("http://www.bioconductor.org/biocLite.R")
  Installing package into ‘C:/Users/r01ced13/Documents/R/win-library/3.2’
   (as ‘lib’ is unspecified)
   Warning: unable to access index for repository https://bioconductor.org/packages/3.2/bioc/src/contrib
   Warning: unable to access index for repository https://bioconductor.org/packages/3.2/bioc/bin/windows/contrib/3.2
   'biocLite.R' failed to install 'BiocInstaller', use
     'install.packages("BiocInstaller",
    repos="https://bioconductor.org/packages/3.1/bioc")' or
    'install.packages("BiocInstaller",
    repos="http://bioconductor.org/packages/3.1/bioc")'
    Warning message:
     package ‘BiocInstaller’ is not available (for R version 3.2.2)

I then followed the advise to try downloading the url as temporary file:

> url="http://bioconductor.org/packages/3.1/bioc/src/contrib/PACKAGES"
> t=tempfile()
> download.file(url,t)
trying URL 'http://bioconductor.org/packages/3.1/bioc/src/contrib/PACKAGES'
Content type '' length 278574 bytes (272 KB)
downloaded 272 KB

which appears to download a file of expected size as stated in the previous post. I looked at the file t to see if it is functional:

[7611] "Version: 1.16.0"                                                                                           
[7612] "Depends: R (>= 2.15), methods, igraph"                                                                     
[7613] "Imports: RCurl, XML"                                                                                       
[7614] "Suggests: PANR, pvclust"                                                                                   
[7615] "License: GPL (>= 2)"                                                                                       
[7616] "MD5sum: 685e7d91565b3c3916396990a4227bdc"                                                                  
[7617] "NeedsCompilation: no"                                                                                      
[7618] ""                                                                                                          
[7619] "Package: REDseq"                                                                                           
[7620] "Version: 1.14.1"                                                                                           
[7621] "Depends: R (>= 2.15.0), BiocGenerics (>= 0.1.0),"                                                          
[7622] "        BSgenome.Celegans.UCSC.ce2, multtest, Biostrings, BSgenome,"                                       
[7623] "        ChIPpeakAnno"                                                                                      
[7624] "Imports: BiocGenerics, AnnotationDbi, Biostrings, ChIPpeakAnno,"                                           
[7625] "        graphics, IRanges (>= 1.13.5), multtest, stats, utils" 

which appears to be sensible output.

I then tried source("http://www.bioconductor.org/biocLite.R") again but get the same error message as before:

> source("http://www.bioconductor.org/biocLite.R")
Installing package into ‘C:/Users/r01ced13/Documents/R/win-library/3.2’
(as ‘lib’ is unspecified)
Warning: unable to access index for repository https://bioconductor.org/packages/3.2/bioc/src/contrib
Warning: unable to access index for repository https://bioconductor.org/packages/3.2/bioc/bin/windows/contrib/3.2
'biocLite.R' failed to install 'BiocInstaller', use 'install.packages("BiocInstaller", repos="https://bioconductor.org/packages/3.1/bioc")' or
  'install.packages("BiocInstaller", repos="http://bioconductor.org/packages/3.1/bioc")'
Warning message:
package ‘BiocInstaller’ is not available (for R version 3.2.2)

Could someone suggest a solution please? Any suggestions welcome!

Thanks!

Try options(useHTTPS=FALSE) before source("http://bioconductor.org/biocLite.R").

Thanks for your reply Martin, unfortunately that did not work either