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marwyelattar
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@marwyelattar-20242
Last seen 5.7 years ago
When i try to install the hgu95av2.db" package using the line code:
BiocManager::install("hgu95av2.db") and also i tried
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("GO.db", version = "3.8")
both commands give the same error
Bioconductor version 3.8 (BiocManager 1.30.4), R 3.5.2 (2018-12-20)
Installing package(s) 'hgu95av2.db'
also installing the dependency ‘org.Hs.eg.db’
installing the source packages ‘org.Hs.eg.db’, ‘hgu95av2.db’
trying URL 'https://bioconductor.org/packages/3.8/data/annotation/src/contrib/org.Hs.eg.db_3.7.0.tar.gz'
Content type 'application/x-gzip' length 77962833 bytes (74.4 MB)
downloaded 74.4 MB
trying URL 'https://bioconductor.org/packages/3.8/data/annotation/src/contrib/hgu95av2.db_3.2.3.tar.gz'
Content type 'application/x-gzip' length 502594 bytes (490 KB)
downloaded 490 KB
* installing *source* package 'org.Hs.eg.db' ...
** R
** inst
** byte-compile and prepare package for lazy loading
Error: package or namespace load failed for 'AnnotationDbi' in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
there is no package called 'Rcpp'
Error : package 'AnnotationDbi' could not be loaded
ERROR: lazy loading failed for package 'org.Hs.eg.db'
* removing 'C:/Users/Marwy/Documents/R/win-library/3.5/org.Hs.eg.db'
In R CMD INSTALL
ERROR: dependency 'org.Hs.eg.db' is not available for package 'hgu95av2.db'
* removing 'C:/Users/Marwy/Documents/R/win-library/3.5/hgu95av2.db'
In R CMD INSTALL
The downloaded source packages are in
‘C:\Users\Marwy\AppData\Local\Temp\RtmpC2ysug\downloaded_packages’
Warning messages:
1: In install.packages(pkgs = doing, lib = lib, repos = repos, ...) :
installation of package ‘org.Hs.eg.db’ had non-zero exit status
2: In install.packages(pkgs = doing, lib = lib, repos = repos, ...) :
installation of package ‘hgu95av2.db’ had non-zero exit status
> sessionInfo()
R version 3.5.2 (2018-12-20)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows >= 8 x64 (build 9200)
Matrix products: default
locale:
[1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252 LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C LC_TIME=English_United States.1252
attached base packages:
[1] stats4 grid parallel stats graphics grDevices utils datasets methods base
other attached packages:
[1] strucchange_1.5-1 sandwich_2.5-0 zoo_1.8-4 modeltools_0.2-22 mvtnorm_1.0-10 affy_1.60.0
[7] Biobase_2.42.0 BiocGenerics_0.28.0 limma_3.38.3
loaded via a namespace (and not attached):
[1] lattice_0.20-38 zlibbioc_1.28.0 affyio_1.52.0 rpart_4.1-13 preprocessCore_1.44.0
[6] splines_3.5.2 tools_3.5.2 yaml_2.2.0 compiler_3.5.2 BiocManager_1.30.4
Thanks
I tried your suggestion, but got an error:
The other two packages loaded fine. Any thoughts? Thanks!