[ Started: 2023-04-07 18:41:35 CEST ]
[ dorothea v1.7.2 for BioC-3.17 from https://github.com/saezlab/dorothea@master ]

[1] "Libraries: "                     "/home/omnipath/local/R/4.3-3.17"
[3] "/home/omnipath/local/R/4.3"      "/opt/R-devel/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 3.17 (BiocManager 1.30.20), R Under development (unstable)
  (2023-03-16 r83996)
Old packages: 'beachmat'
trying URL 'https://bioconductor.org/packages/3.17/bioc/src/contrib/beachmat_2.15.2.tar.gz'
Content type 'application/x-gzip' length 1302912 bytes (1.2 MB)
==================================================
downloaded 1.2 MB

* installing *source* package ‘beachmat’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’
using C++11
g++ -std=gnu++11 -I"/opt/R-devel/lib/R/include" -DNDEBUG  -I'/home/omnipath/local/R/4.3-3.17/Rcpp/include' -I/usr/local/include    -fpic  -g -O2  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"/opt/R-devel/lib/R/include" -DNDEBUG  -I'/home/omnipath/local/R/4.3-3.17/Rcpp/include' -I/usr/local/include    -fpic  -g -O2  -c fragment_sparse_rows.cpp -o fragment_sparse_rows.o
g++ -std=gnu++11 -shared -L/usr/local/lib -o beachmat.so RcppExports.o fragment_sparse_rows.o
installing to /home/omnipath/local/R/4.3-3.17/00LOCK-beachmat/00new/beachmat/libs
** 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
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (beachmat)

The downloaded source packages are in
	‘/tmp/Rtmp2ZXxdn/downloaded_packages’
Bioconductor version 3.17 (BiocManager 1.30.20), R Under development (unstable)
  (2023-03-16 r83996)
Warning message:
package(s) not installed when version(s) same as or greater than current; use
  `force = TRUE` to re-install: 'BiocCheck' 

Skipping 17 packages not available: matrixStats, RCurl, BiocManager, yaml, rmarkdown, knitr, bookdown, e1071, mixtools, tidyr, tibble, testthat, Seurat, pkgdown, pheatmap, magrittr, dplyr
[ Finished: 2023-04-07 18:41:57 CEST ]