I would like to install the package org.Hs.eg.db version 3.5 in R 3.4.0 and Bioconductor 3.6 (BiocInstaller 1.28.0). I have tried to install the package version 3.4.1, and also tried to use R.3.4.2. The error is always the same, as follows. Any help would be greatly appreciated!
> biocLite("org.Hs.eg.db")
BioC_mirror: https://bioconductor.org
Using Bioconductor 3.6 (BiocInstaller 1.28.0), R 3.4.0 (2017-04-21).
Installing package(s) ‘org.Hs.eg.db’
installing the source package ‘org.Hs.eg.db’
trying URL 'https://bioconductor.org/packages/3.6/data/annotation/src/contrib/org.Hs.eg.db_3.5.0.tar.gz'
Content type 'application/x-gzip' length 75219292 bytes (71.7 MB)
downloaded 71.7 MB
CMD.EXE was started with the above path as the current directory.
UNC paths are not supported. Defaulting to Windows directory.
* installing *source* package 'org.Hs.eg.db' ...
** R
** inst
** preparing package for lazy loading
Warning: package 'AnnotationDbi' was built under R version 3.4.2
Warning: package 'BiocGenerics' was built under R version 3.4.2
Warning: package 'Biobase' was built under R version 3.4.2
Warning: package 'IRanges' was built under R version 3.4.2
Warning: package 'S4Vectors' was built under R version 3.4.2
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
*** arch - i386
Warning: package 'AnnotationDbi' was built under R version 3.4.2
Warning: package 'BiocGenerics' was built under R version 3.4.2
Warning: package 'Biobase' was built under R version 3.4.2
Warning: package 'IRanges' was built under R version 3.4.2
Warning: package 'S4Vectors' was built under R version 3.4.2
Error: package or namespace load failed for 'org.Hs.eg.db':
.onLoad failed in loadNamespace() for 'org.Hs.eg.db', details:
call: dbFileConnect(dbfile)
error: DB file '' not found
Error: loading failed
Execution halted
*** arch - x64
Warning: package 'AnnotationDbi' was built under R version 3.4.2
Warning: package 'BiocGenerics' was built under R version 3.4.2
Warning: package 'Biobase' was built under R version 3.4.2
Warning: package 'IRanges' was built under R version 3.4.2
Warning: package 'S4Vectors' was built under R version 3.4.2
Error: package or namespace load failed for 'org.Hs.eg.db':
.onLoad failed in loadNamespace() for 'org.Hs.eg.db', details:
call: dbFileConnect(dbfile)
error: DB file '' not found
Error: loading failed
Execution halted
ERROR: loading failed for 'i386', 'x64'
Here is my SessionInfo():
> sessionInfo()
R version 3.4.0 (2017-04-21)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 14393)
Matrix products: default
locale:
[1] LC_COLLATE=English_United Kingdom.1252 LC_CTYPE=English_United Kingdom.1252 LC_MONETARY=English_United Kingdom.1252 LC_NUMERIC=C
[5] LC_TIME=English_United Kingdom.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] BiocInstaller_1.28.0
loaded via a namespace (and not attached):
[1] compiler_3.4.0 tools_3.4.0
Thank you, James! I was actually not intending to use a network directory. How can I set the .libPaths when installing the library from Bioconductor in this case? Thanks so much for your help!
Have you looked at the help page for .libPaths? It's pretty comprehensive.