Cannot load package "hgu133a.db"

Question

[chengzhao41]

Hi,

I successfully installed package "hgu133a.db", but I cannot load it.

> library("hgu133a.db")
Loading required package: AnnotationDbi
Loading required package: IRanges
Loading required package: S4Vectors
Error in unloadNamespace(package) : 
  namespace 'S4Vectors' is imported by 'AnnotationDbi', 'IRanges' so cannot be unloaded
Error in library(pkg, character.only = TRUE, logical.return = TRUE, lib.loc = lib.loc,  : 
  Package 'S4Vectors' version 0.8.3 cannot be unloaded

Any ideas?

[Sean Davis]

Do:

remove.packages('S4Vectors')
biocLite('S4Vectors')

Then, try again. Be sure to include the output of sessionInfo() if you continue to have problems.

[Thomas]

Hello, I am having the exact same problem as the original user albeit trying to load a different library ("zebrafish.db0")

I tried the two commands you suggested, but this didn't seem to help I am afraid.

My sessionInfo() output is the following:

R version 3.3.1 (2016-06-21)
Platform: x86_64-apple-darwin13.4.0 (64-bit)
Running under: OS X 10.11.6 (El Capitan)

locale:
[1] en_GB.UTF-8/en_GB.UTF-8/en_GB.UTF-8/C/en_GB.UTF-8/en_GB.UTF-8

attached base packages:
[1] stats4    parallel  stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] zebrafishcdf_2.18.0  BiocInstaller_1.24.0 affy_1.52.0          Biobase_2.34.0       BiocGenerics_0.20.0 

loaded via a namespace (and not attached):
 [1] zlibbioc_1.20.0       IRanges_2.8.1         DBI_0.5-1             tools_3.3.1           Rcpp_0.12.9          
 [6] affyio_1.44.0         AnnotationDbi_1.36.1  RSQLite_1.1-2         preprocessCore_1.36.0 S4Vectors_0.12.1

Answer 1

[icebing]

This problem occurs when I use RStudio. Try to use the terminal instead.