Hi all, I am trying to install the DESeq2, but I keep getting error message. Here is a code:

R version 3.5.1 (2018-07-02) -- "Feather Spray"

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[Workspace loaded from ~/.RData]

> source("https://bioconductor.org/biocLite.R")

Bioconductor version 3.7 (BiocInstaller 1.30.0), ?biocLite for help

> biocLite("DESeq2")

BioC_mirror: https://bioconductor.org

Using Bioconductor 3.7 (BiocInstaller 1.30.0), R 3.5.1 (2018-07-02).

Installing package(s) ‘DESeq2’

Warning: unable to access index for repository https://cran.rstudio.com/src/contrib:

  cannot open URL 'https://cran.rstudio.com/src/contrib/PACKAGES'

Warning: dependencies ‘locfit’, ‘RcppArmadillo’ are not available

Warning: unable to access index for repository https://cran.rstudio.com/bin/windows/contrib/3.5:

  cannot open URL 'https://cran.rstudio.com/bin/windows/contrib/3.5/PACKAGES'

trying URL 'https://bioconductor.org/packages/3.7/bioc/bin/windows/contrib/3.5/DESeq2_1.20.0.zip'

Content type 'application/zip' length 2524898 bytes (2.4 MB)

downloaded 2.4 MB

package ‘DESeq2’ successfully unpacked and MD5 sums checked

The downloaded binary packages are in

C:\Users\b0bhan02\AppData\Local\Temp\RtmpsrxmSY\downloaded_packages

Warning: unable to access index for repository https://cran.rstudio.com/src/contrib:

  cannot open URL 'https://cran.rstudio.com/src/contrib/PACKAGES'

> library("DESeq2")

Loading required package: S4Vectors

Loading required package: stats4

Loading required package: BiocGenerics

Loading required package: parallel

Attaching package: ‘BiocGenerics’

The following objects are masked from ‘package:parallel’:

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport, clusterMap, parApply, parCapply, parLapply, parLapplyLB, parRapply,

    parSapply, parSapplyLB

The following objects are masked from ‘package:stats’:

    IQR, mad, sd, var, xtabs

The following objects are masked from ‘package:base’:

    anyDuplicated, append, as.data.frame, basename, cbind, colMeans, colnames, colSums, dirname, do.call, duplicated, eval, evalq, Filter, Find, get,

    grep, grepl, intersect, is.unsorted, lapply, lengths, Map, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, Position, rank, rbind,

    Reduce, rowMeans, rownames, rowSums, sapply, setdiff, sort, table, tapply, union, unique, unsplit, which, which.max, which.min

Attaching package: ‘S4Vectors’

The following object is masked from ‘package:base’:

    expand.grid

Loading required package: IRanges

Attaching package: ‘IRanges’

The following object is masked from ‘package:grDevices’:

    windows

Loading required package: GenomicRanges

Loading required package: GenomeInfoDb

Error: package or namespace load failed for ‘GenomeInfoDb’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):

 there is no package called ‘RCurl’

Error: package ‘GenomeInfoDb’ could not be loaded

The first warning is your clue what's going on.

I wonder, can you access this URL from your computer:

https://cran.rstudio.com/src/contrib/PACKAGES