[ Started: 2023-05-05 00:48:06 CEST ]
[ cosmosR v1.5.2 for BioC-3.16 from https://github.com/saezlab/cosmosR@master ]

[1] "Libraries: "                     "/home/omnipath/local/R/4.2-3.16"
[3] "/home/omnipath/local/R/4.2"      "/usr/lib/R/library"             
Warning: unable to access index for repository https://cran.uni-muenster.de/src/contrib:
  cannot open URL 'https://cran.uni-muenster.de/src/contrib/PACKAGES'
Warning: unable to access index for repository https://cran.uni-muenster.de/src/contrib:
  cannot open URL 'https://cran.uni-muenster.de/src/contrib/PACKAGES'
Bioconductor version '3.16' is out-of-date; the current release version '3.17'
  is available with R version '4.3'; see https://bioconductor.org/install
'getOption("repos")' replaces Bioconductor standard repositories, see
'help("repositories", package = "BiocManager")' for details.
Replacement repositories:
    CRAN: https://cloud.r-project.org
Bioconductor version 3.16 (BiocManager 1.30.20), R 4.2.3 (2023-03-15)
'getOption("repos")' replaces Bioconductor standard repositories, see
'help("repositories", package = "BiocManager")' for details.
Replacement repositories:
    CRAN: https://cloud.r-project.org
Bioconductor version 3.16 (BiocManager 1.30.20), R 4.2.3 (2023-03-15)
Warning message:
package(s) not installed when version(s) same as or greater than current; use
  `force = TRUE` to re-install: 'BiocCheck' 

Skipping 46 packages not available: cpp11, snow, futile.logger, BH, fastmatch, cowplot, ggplot2, data.table, Rcpp, RCurl, crayon, png, httr, RSQLite, DBI, xtable, XML, e1071, mixtools, scales, visNetwork, shinydashboard, shinyjs, htmlwidgets, DT, shiny, relations, igraph, gplots, withr, tidyselect, tidyr, tibble, stringr, rlang, purrr, magrittr, dplyr, broom, rmarkdown, rjson, lpSolve, readr, knitr, testthat, progress
[ Finished: 2023-05-05 00:57:14 CEST ]