I am trying to install packages into my Rstudio. Running R version: 3.4.4. However the packages seem to download fine but then won't load for a lot of them? So for S4Vectors the download proceeded as follows:
> biocLite("S4Vectors") BioC_mirror: https://bioconductor.org Using Bioconductor 3.6 (BiocInstaller 1.28.0), R 3.4.4 (2018-03-15). Installing package(s) ‘S4Vectors’ trying URL 'https://bioconductor.org/packages/3.6/bioc/bin/windows/contrib/3.4/S4Vectors_0.16.0.zip' Content type 'application/zip' length 2653765 bytes (2.5 MB) downloaded 2.5 MB package ‘S4Vectors’ successfully unpacked and MD5 sums checked The downloaded binary packages are in C:\Users\sejjzcr\AppData\Local\Temp\Rtmp8MmDrg\downloaded_packages Old packages: 'checkmate', 'cluster', 'nlme', 'RcppArmadillo' Update all/some/none? [a/s/n]: a There are binary versions available but the source versions are later: binary source needs_compilation checkmate 1.9.1 1.9.3 TRUE cluster 2.0.8 2.0.9 TRUE nlme 3.1-137 3.1-140 TRUE RcppArmadillo 0.9.300.2.0 0.9.400.3.0 TRUE Binaries will be installed trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.4/checkmate_1.9.1.zip' Content type 'application/zip' length 735324 bytes (718 KB) downloaded 718 KB trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.4/cluster_2.0.8.zip' Content type 'application/zip' length 588040 bytes (574 KB) downloaded 574 KB trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.4/nlme_3.1-137.zip' Content type 'application/zip' length 2344000 bytes (2.2 MB) downloaded 2.2 MB trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.4/RcppArmadillo_0.9.300.2.0.zip' Content type 'application/zip' length 2241393 bytes (2.1 MB) downloaded 2.1 MB package ‘checkmate’ successfully unpacked and MD5 sums checked package ‘cluster’ successfully unpacked and MD5 sums checked package ‘nlme’ successfully unpacked and MD5 sums checked package ‘RcppArmadillo’ successfully unpacked and MD5 sums checked The downloaded binary packages are in C:\Users\sejjzcr\AppData\Local\Temp\Rtmp8MmDrg\downloaded_packages
But then when I try and load the library it gives an error (which I can't seem to google my way around):
> library(S4Vectors) Error: package or namespace load failed for ‘S4Vectors’: .onLoad failed in loadNamespace() for 'S4Vectors', details: call: .Call(.NAME, ..., PACKAGE = PACKAGE) error: "make_RAW_from_NA_LLINT" not available for .Call() for package "S4Vectors"
I get the same sort of error for GenomicRanges, BSgenome, Xvector, so all the good stuff...
Is this to do with the binary packages being in a different folder to the package downloads? I work on a university managed desktop but have had privileges to download into the folder where my packages (not the binary versions) are being downloaded, and I can see them in the R folder library there, so they do seem to download fine?
Any insight would be much appreciated, thanks all!
All the best, Zoe