[ Started: 2025-06-03 06:32:04 CEST ]
[ dorothea v1.18.0 for BioC-3.20 from https://git.bioconductor.org/packages/dorothea@RELEASE_3_20 (ce6afd2 2024-10-29 09:50:54) ]

[1] "Libraries: "                     "/home/omnipath/local/R/4.4-3.20"
[3] "/home/omnipath/local/R/4.4"      "/usr/lib/R/library"             
Bioconductor version '3.20' is out-of-date; the current release version '3.21'
  is available with R version '4.5'; 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
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/bioc/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/data/annotation/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/data/experiment/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/workflows/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/workflows/src/contrib/PACKAGES'
Bioconductor version 3.20 (BiocManager 1.30.25), R 4.4.1 (2024-06-14)
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/bioc/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/data/annotation/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/data/experiment/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/workflows/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/workflows/src/contrib/PACKAGES'
'getOption("repos")' replaces Bioconductor standard repositories, see
'help("repositories", package = "BiocManager")' for details.
Replacement repositories:
    CRAN: https://cloud.r-project.org
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/bioc/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/data/annotation/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/data/experiment/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/workflows/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/workflows/src/contrib/PACKAGES'
Bioconductor version 3.20 (BiocManager 1.30.25), R 4.4.1 (2024-06-14)
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/bioc/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/data/annotation/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/data/experiment/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository https://bioconductor.org/packages/3.20/workflows/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.20/workflows/src/contrib/PACKAGES'
Warning message:
package(s) not installed when version(s) same as or greater than current; use
  `force = TRUE` to re-install: 'BiocCheck' 

Skipping 8 packages not available: SummarizedExperiment, SingleCellExperiment, viper, OmnipathR, BiocStyle, Biobase, decoupleR, bcellViper
Skipping 1 packages ahead of CRAN: parallelly
[ Finished: 2025-06-03 07:32:15 CEST ]