Unable to install package

[diego-iac]

Hi, I can't download the package with the described methods. It seems R couldn't find the package in the repository.

I'm using a SO: Ubuntu 22.04.4 LTS 64bit, system x86_64, linux-gnu with a version.string R version 4.4.1 (2024-06-14)

Errors:
install_github("Bioconductor-mirror/metagenomeSeq")
Errore: Failed to install 'unknown package' from GitHub:
HTTP error 404.
Not Found

Did you spell the repo owner (Bioconductor-mirror) and repo name (metagenomeSeq) correctly?

• If spelling is correct, check that you have the required permissions to access the repo.

BiocManager::install("metagenomeSeq")
'getOption("repos")' replaces Bioconductor standard repositories, see 'help("repositories", package = "BiocManager")' for details.
Replacement repositories:
CRAN: https://cloud.r-project.org
Bioconductor version 3.20 (BiocManager 1.30.25), R 4.4.1 (2024-06-14)
Installing package(s) 'metagenomeSeq'
Installation paths not writeable, unable to update packages
path: /home/onco-lab/.cache/R/renv/sandbox/linux-ubuntu-jammy/R-4.4/x86_64-pc-linux-gnu/9a444a72
packages:
boot, codetools, foreign, lattice, Matrix, nlme, spatial
Messaggio di avvertimento:
il pacchetto ‘metagenomeSeq’ non è disponibile for this version of R

The version of R is in Italian, however here:
Messaggio di avvertimento:
il pacchetto ‘metagenomeSeq’ non è disponibile for this version of R
it says that the package is unavailable for this R version.

Hope you can help me

[winatony]

@diego-iac I ran into this issue just now. Installation kept failing with an error suggesting that metagenomeseq was not available for the current version of bioconductor/R when the website showed it was. I was able to partially install the package by downloading the .tar file from bioconductor and installing using the r studio gui. It then failed to load glmnet, but after installing glmnet through cran using the rstudio gui it was able to successfully load. Perhaps there is an error with the glmnet dependency it is asking for? I am currently using it, so it should hopefully work for you as well.