[ Started: 2023-11-09 18:07:13 CET ]
[ mistyR v1.9.1 for BioC-3.18 from https://github.com/saezlab/mistyR@devel ]

[1] "Libraries: "                     "/home/omnipath/local/R/4.3-3.18"
[3] "/home/omnipath/local/R/4.3"      "/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 3.18 (BiocManager 1.30.22), R 4.3.1 (2023-06-16)
Old packages: 'basilisk', 'basilisk.utils', 'decoupleR'
trying URL 'https://bioconductor.org/packages/3.18/bioc/src/contrib/basilisk_1.14.0.tar.gz'
Content type 'application/x-gzip' length 267309 bytes (261 KB)
==================================================
downloaded 261 KB

trying URL 'https://bioconductor.org/packages/3.18/bioc/src/contrib/basilisk.utils_1.14.0.tar.gz'
Content type 'application/x-gzip' length 240038 bytes (234 KB)
==================================================
downloaded 234 KB

trying URL 'https://bioconductor.org/packages/3.18/bioc/src/contrib/decoupleR_2.8.0.tar.gz'
Content type 'application/x-gzip' length 4413221 bytes (4.2 MB)
==================================================
downloaded 4.2 MB

* installing *source* package ‘basilisk.utils’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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 (basilisk.utils)
* installing *source* package ‘decoupleR’ ...
** using staged installation
** R
** 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 (decoupleR)
* installing *source* package ‘basilisk’ ...
** using non-staged installation via StagedInstall field
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (basilisk)

The downloaded source packages are in
	‘/tmp/RtmpHwhFe1/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 3.18 (BiocManager 1.30.22), R 4.3.1 (2023-06-16)
Warning message:
package(s) not installed when version(s) same as or greater than current; use
  `force = TRUE` to re-install: 'BiocCheck' 

Skipping 1 packages ahead of CRAN: covr
[ Finished: 2023-11-09 18:07:30 CET ]