"Issues Encountered During Installation of Packages from Both GitHub and Local Sources"

[DaXuanGarden]

"I am encountering issues with the installation of packages. Whether it's from GitHub or local installation, I am unable to install them."

library(remotes)
library(devtools)
Loading required package: usethis

Attaching package: ‘usethis’

The following object is masked from ‘package:remotes’:

git_credentials

Error in FUN(X[[i]], ...) :
lazy-load database '/home/data/t050446/R/x86_64-pc-linux-gnu-library/4.2/devtools/R/devtools.rdb' is corrupt

install_github("YosefLab/VISION")
Downloading GitHub repo YosefLab/VISION@HEAD
Error in utils::download.file(url, path, method = method, quiet = quiet, :
download from 'https://api.github.com/repos/YosefLab/VISION/tarball/HEAD' failed

---

install_local("/home/data/t050446/VISION-3.0.1.tar.gz")
Error: Failed to install 'VISION-3.0.1.tar.gz' from local:
error reading from connection
install_local("/home/data/t050446/VISION-3.0.0.tar.gz")
Error: Failed to install 'VISION-3.0.0.tar.gz' from local:
error reading from connection

[deto]

From the error message it looks like you actually might have an issue with your devtools package. Can you try uninstalling and reinstalling that package? David

…

On Fri, Jul 28, 2023, 4:04 PM DaXuan ***@***.***> wrote: "I am encountering issues with the installation of packages. Whether it's from GitHub or local installation, I am unable to install them." library(remotes) library(devtools) Loading required package: usethis Attaching package: ‘usethis’ The following object is masked from ‘package:remotes’: git_credentials Error in FUN(X[[i]], ...) : lazy-load database '/home/data/t050446/R/x86_64-pc-linux-gnu-library/4.2/devtools/R/devtools.rdb' is corrupt install_github("YosefLab/VISION") Downloading GitHub repo ***@***.*** Error in utils::download.file(url, path, method = method, quiet = quiet, : download from 'https://api.github.com/repos/YosefLab/VISION/tarball/HEAD' failed ------------------------------ install_local("/home/data/t050446/VISION-3.0.1.tar.gz") Error: Failed to install 'VISION-3.0.1.tar.gz' from local: error reading from connection install_local("/home/data/t050446/VISION-3.0.0.tar.gz") Error: Failed to install 'VISION-3.0.0.tar.gz' from local: error reading from connection — Reply to this email directly, view it on GitHub <#126>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAEGXR6XNLNERV5QBFS3HTDXSRAPHANCNFSM6AAAAAA24CHZZY> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

[DaXuanGarden]

From the error message it looks like you actually might have an issue with your devtools package. Can you try uninstalling and reinstalling that package? David
…
On Fri, Jul 28, 2023, 4:04 PM DaXuan @.> wrote: "I am encountering issues with the installation of packages. Whether it's from GitHub or local installation, I am unable to install them." library(remotes) library(devtools) Loading required package: usethis Attaching package: ‘usethis’ The following object is masked from ‘package:remotes’: git_credentials Error in FUN(X[[i]], ...) : lazy-load database '/home/data/t050446/R/x86_64-pc-linux-gnu-library/4.2/devtools/R/devtools.rdb' is corrupt install_github("YosefLab/VISION") Downloading GitHub repo @. Error in utils::download.file(url, path, method = method, quiet = quiet, : download from 'https://api.github.com/repos/YosefLab/VISION/tarball/HEAD' failed ------------------------------ install_local("/home/data/t050446/VISION-3.0.1.tar.gz") Error: Failed to install 'VISION-3.0.1.tar.gz' from local: error reading from connection install_local("/home/data/t050446/VISION-3.0.0.tar.gz") Error: Failed to install 'VISION-3.0.0.tar.gz' from local: error reading from connection — Reply to this email directly, view it on GitHub <#126>, or unsubscribe https://github.com/notifications/unsubscribe-auth/AAEGXR6XNLNERV5QBFS3HTDXSRAPHANCNFSM6AAAAAA24CHZZY . You are receiving this because you are subscribed to this thread.Message ID: @.***>

"Thank you very much. I have successfully restarted R after reinstalling devtools."