[ Started: 2023-05-13 02:06:52 CEST ]
[ progeny v1.17.3 for BioC-3.16 from https://github.com/saezlab/progeny@master ]

[1] "Libraries: "                     "/home/omnipath/local/R/4.2-3.16"
[3] "/home/omnipath/local/R/4.2"      "/usr/lib/R/library"             
Bioconductor version '3.16' is out-of-date; the current release version '3.17'
  is available with R version '4.3'; 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
Bioconductor version 3.16 (BiocManager 1.30.20), R 4.2.3 (2023-03-15)
Old packages: 'tzdb'
trying URL 'https://cloud.r-project.org/src/contrib/tzdb_0.4.0.tar.gz'
Content type 'application/x-gzip' length 586327 bytes (572 KB)
==================================================
downloaded 572 KB

* installing *source* package ‘tzdb’ ...
** package ‘tzdb’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG  -I'/home/omnipath/local/R/4.2-3.16/cpp11/include'   -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic  -g -O2 -ffile-prefix-map=/build/r-base-LhKvHL/r-base-4.2.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c api.cpp -o api.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG  -I'/home/omnipath/local/R/4.2-3.16/cpp11/include'   -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic  -g -O2 -ffile-prefix-map=/build/r-base-LhKvHL/r-base-4.2.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c cpp11.cpp -o cpp11.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG  -I'/home/omnipath/local/R/4.2-3.16/cpp11/include'   -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic  -g -O2 -ffile-prefix-map=/build/r-base-LhKvHL/r-base-4.2.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c names.cpp -o names.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG  -I'/home/omnipath/local/R/4.2-3.16/cpp11/include'   -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic  -g -O2 -ffile-prefix-map=/build/r-base-LhKvHL/r-base-4.2.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c path.cpp -o path.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG  -I'/home/omnipath/local/R/4.2-3.16/cpp11/include'   -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic  -g -O2 -ffile-prefix-map=/build/r-base-LhKvHL/r-base-4.2.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c tz.cpp -o tz.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG  -I'/home/omnipath/local/R/4.2-3.16/cpp11/include'   -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic  -g -O2 -ffile-prefix-map=/build/r-base-LhKvHL/r-base-4.2.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c version.cpp -o version.o
g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o tzdb.so api.o cpp11.o names.o path.o tz.o version.o -L/usr/lib/R/lib -lR
installing to /home/omnipath/local/R/4.2-3.16/00LOCK-tzdb/00new/tzdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (tzdb)

The downloaded source packages are in
	‘/tmp/Rtmp1bRURL/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 3.16 (BiocManager 1.30.20), R 4.2.3 (2023-03-15)
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: tzdb
[ Finished: 2023-05-13 02:07:14 CEST ]