Hi, I am having issues installing BiocManager R packages (i.e. qvalue), in a new computer and R version. Had no problems in the previous PC and R version, so no idea of what is happening here but would love some help as this is obstructing my work.
See error messages below. Thanks Gabriella
BiocManager::install("qvalue")
    ```r
This is the error message I get:
'getOption("repos")' replaces Bioconductor standard repositories, see 'help("repositories", package = "BiocManager")' for details.
Replacement repositories:
    CRAN: https://cran.rstudio.com/
Warning: unable to access index for repository https://bioconductor.org/packages/3.18/bioc/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.18/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.18/data/annotation/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.18/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.18/data/experiment/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.18/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.18/workflows/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.18/workflows/src/contrib/PACKAGES'
Bioconductor version 3.18 (BiocManager 1.30.22), R 4.3.3 (2024-02-29 ucrt)
Installing package(s) 'qvalue'
Warning: unable to access index for repository https://bioconductor.org/packages/3.18/bioc/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.18/bioc/src/contrib/PACKAGES'
sessionInfo( )
R version 4.3.3 (2024-02-29 ucrt) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows 10 x64 (build 19045)
Matrix products: default
locale:
[1] LC_COLLATE=English_Australia.utf8  LC_CTYPE=English_Australia.utf8    LC_MONETARY=English_Australia.utf8 LC_NUMERIC=C
[5] LC_TIME=English_Australia.utf8
time zone: Australia/Brisbane tzcode source: internal
attached base packages: [1] stats graphics grDevices utils datasets methods base
other attached packages: [1] BiocManager_1.30.23
loaded via a namespace (and not attached):
 [1] gtable_0.3.4      miniUI_0.1.1.1    dplyr_1.1.4       compiler_4.3.3    promises_1.2.1    tidyselect_1.2.1  Rcpp_1.0.12       stringr_1.5.1
 [9] later_1.3.2       scales_1.3.0      fastmap_1.1.1     mime_0.12         ggplot2_3.5.0     R6_2.5.1          generics_0.1.3    patchwork_1.2.0
[17] htmlwidgets_1.6.4 tibble_3.2.1      profvis_0.3.8     munsell_0.5.1     shiny_1.8.1.1     pillar_1.9.0      rlang_1.1.3       utf8_1.2.4
[25] stringi_1.8.3     cachem_1.0.8      httpuv_1.6.15     fs_1.6.3          pkgload_1.3.4     memoise_2.0.1     cli_3.6.2         magrittr_2.0.3
[33] digest_0.6.35     grid_4.3.3        xtable_1.8-4      rstudioapi_0.16.0 remotes_2.5.0     devtools_2.4.5    lifecycle_1.0.4   vctrs_0.6.5
[41] glue_1.7.0        urlchecker_1.0.1  sessioninfo_1.2.2 pkgbuild_1.4.4    fansi_1.0.6       colorspace_2.1-0  purrr_1.0.2       usethis_2.2.3
[49] tools_4.3.3       pkgconfig_2.0.3   ellipsis_0.3.2    htmltools_0.5.8

Seems to be a general problem at the moment, can reproduce. The the mirror suggestion here: can't open mghp.osn.xsede.org that works for me (for now).