Problem for loading Bioconductor package in R
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araaaju • 0
@araaaju-22923
Last seen 23 months ago
Pune, Maharashtra

Hi, Bioconductor version 3.8 (BiocInstaller 1.32.1), ?biocLite for help Warning message: 'BiocInstaller' and 'biocLite()' are deprecated, use the 'BiocManager' CRAN package instead. > if (!requireNamespace("BiocManager", quietly = TRUE)) + install.packages("BiocManager") > BiocManager::install("BiocInstaller", version = "3.8") Bioconductor version 3.8 (BiocManager 1.30.4), R 3.5.2 (2018-12-20) Installing package(s) 'BiocInstaller' Warning: package ‘BiocInstaller’ is in use and IELTS Classes will not be installed installation path not writeable, unable to update packages: class, codetools. Any Help ?

Need Suggestions.

Bioconductor • 247 views
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Entering edit mode
@kevin
Last seen 14 minutes ago
Republic of Ireland

Your post's formatting makes it difficult to read. Make better use of the 'code' button, 101 010, if at all possible.

It looks like you are trying to run these series of commands:

if (!requireNamespace("BiocManager", quietly = TRUE))
  install.packages("BiocManager")

BiocManager::install("BiocInstaller", version = "3.8")

...with resulting output:

Bioconductor version 3.8 (BiocManager 1.30.4), R 3.5.2 (2018-12-20)
Installing package(s) 'BiocInstaller' Warning: package ‘BiocInstaller’ is in use and IELTS Classes will not be installed installation path not writeable, unable to update packages: class, codetools.

What are you ultimately trying to do? BiocInstaller was deprecated in Bioc 3.9; nevertheless, it should already be installed in your current R version [you are using an older version of both R and Bioc]. It may be advisable to update your R version to >3.6. All packages are now installed via BiocManager().

Kevin

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