Cannot install DESeq2 to R 4.2 version
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Jae Woong • 0
@d719f7f7
Last seen 17 days ago
United States

I am having difficulty installing DESeq2 to my mac laptop. This is what it shows on my screen.

When I type in library(DESeq2), it also gives me this warning.

Please help.

Code should be placed in three backticks as shown below

* installing *source* package ‘tibble’ ...
** package ‘tibble’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
xcrun: error: invalid active developer path (/Library/Developer/CommandLineTools), missing xcrun at: /Library/Developer/CommandLineTools/usr/bin/xcrun
ERROR: compilation failed for package ‘tibble’
* removing ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library/tibble’
* restoring previous ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library/tibble’

The downloaded source packages are in
    ‘/private/var/folders/vf/shs8_w890gx95j99b1drs79w0000gn/T/RtmpYVFBjX/downloaded_packages’
Warning messages:
1: package(s) not installed when version(s) same as current; use `force = TRUE`
  to re-install: 'DESeq2' 
2: In install.packages(update[instlib == l, "Package"], l, repos = repos,  :
  installation of package ‘tibble’ had non-zero exit status


# library(DESeq2)
Error: package or namespace load failed for ‘DESeq2’ in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
 there is no package called ‘RSQLite’
DESeq2 • 154 views
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Basti ▴ 280
@7d45153c
Last seen 12 hours ago
France

Have you tried installing RSQLite? (install.packages("RSQLite")

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loainaom • 0
@d6b8183e
Last seen 3 days ago
Israel

Had the same problem once. Try running R as administrator.

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shepherl 3.1k
@lshep
Last seen 10 hours ago
United States

Please see this: post and this stackoverflow post . You need additional system requirements for tibble to install.

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