[ Started: 2025-07-29 20:07:39 CEST ]
[ mistyR v1.16.0 for BioC-3.22 from https://github.com/saezlab/mistyR@master (bfcba70 2025-06-06 10:53:55) ]

[1] "Libraries: "                     "/home/omnipath/local/R/4.5-3.22"
[3] "/home/omnipath/local/R/4.5"      "/usr/lib/R/library"             
'getOption("repos")' replaces Bioconductor standard repositories, see
'help("repositories", package = "BiocManager")' for details.
Replacement repositories:
    CRAN: https://cloud.r-project.org
Bioconductor version 3.22 (BiocManager 1.30.26), R 4.5.1 (2025-06-13)
Old packages: 'cosmosR'
trying URL 'https://bioconductor.org/packages/3.22/bioc/src/contrib/cosmosR_1.17.0.tar.gz'
Content type 'application/x-gzip' length 3532462 bytes (3.4 MB)
==================================================
downloaded 3.4 MB

* installing *source* package ‘cosmosR’ ...
** this is package ‘cosmosR’ version ‘1.17.0’
** package ‘cosmosR’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (cosmosR)

The downloaded source packages are in
	‘/tmp/RtmpjMrbXd/downloaded_packages’
'getOption("repos")' replaces Bioconductor standard repositories, see
'help("repositories", package = "BiocManager")' for details.
Replacement repositories:
    CRAN: https://cloud.r-project.org
Bioconductor version 3.22 (BiocManager 1.30.26), R 4.5.1 (2025-06-13)
Warning message:
package(s) not installed when version(s) same as or greater than current; use
  `force = TRUE` to re-install: 'BiocCheck' 

Skipping 2 packages ahead of CRAN: future, BiocStyle
[ Finished: 2025-07-29 20:07:52 CEST ]