I recently installed R 4.0.3. I had to update Bioconductor to 3.12. Following instructions on install page
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install(version = "3.12")
However, this tries to reinstall 295 packages. After a while R stopped responding so I used alt-ctrl-del end task to abort.
I tried installing qvalues using
[I use this code all of the time and it works.]
I got the message
Bioconductor version 3.12 (BioManager 1.30.10), R 4.0.3 (2020-10-10) Installing package(s) 'qvalues'
It responds with names of many packages followed by
Update all/some/none? [a/s/n]
if I type '''n''' I get message
Warning message: package 'qvalues' is not available for this version of R A version of this package for your version of R might be available elsewhere, see ideas at [URL for installing packages]
if I type '''s''' I get message
ALL: Version 1.20.0 installed in H:/R/packages Version 1.32.0 available at https://bioconductor.org/packages/3.12/data/experi....
A box appears asking Update? This reiterates to BH bibtex Biobase BiocGenerics BiocParallel etc
I selected some and it started running but then I got message
Error in unpackPkgZip (foundpkgs[okp, 2L], foundpkgs[okp,IL], lib, libs_only, : ERROR: failed to lock directory 'H:\R\packages' for modifying [this is where I store all my R packages] Try removing 'H:\R\packages\00LOCK' In addition: Warning message package 'qvalues' is not available for this version of R A version of this package... "'> values=list(huntington, mart=ensembl)'''. [this looks like my code in R] Error unexpected ',' in "values=list(huntington),"
I am at a loss, can someone please help?