[ Started: 2023-10-31 13:09:21 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/RtmpZjaKGW/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' [ Finished: 2023-10-31 13:09:38 CET ]