[ Started: 2023-03-20 16:25:46 CET ]
[ mistyR v1.6.1 for BioC-3.16 from https://github.com/saezlab/mistyR@master ]

[1] "Libraries: "                     "/home/omnipath/local/R/4.2-3.16"
[3] "/home/omnipath/local/R/4.2"      "/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 3.16 (BiocManager 1.30.20), R 4.2.2 Patched (2022-11-10
  r83330)
Old packages: 'FNN'
trying URL 'https://cloud.r-project.org/src/contrib/FNN_1.1.3.2.tar.gz'
Content type 'application/x-gzip' length 79494 bytes (77 KB)
==================================================
downloaded 77 KB

* installing *source* package ‘FNN’ ...
** package ‘FNN’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c ANN.cpp -o ANN.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c KNN_ANN.cpp -o KNN_ANN.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c KNN_correlation_distance.cpp -o KNN_correlation_distance.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c KNN_cover_test.cpp -o KNN_cover_test.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c KNN_cover_tree.cpp -o KNN_cover_tree.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c KNN_mutual_information.cpp -o KNN_mutual_information.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c bd_fix_rad_search.cpp -o bd_fix_rad_search.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c bd_pr_search.cpp -o bd_pr_search.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c bd_search.cpp -o bd_search.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c bd_tree.cpp -o bd_tree.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c brute.cpp -o brute.o
gcc -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c init_FNN.c -o init_FNN.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c kd_dump.cpp -o kd_dump.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c kd_fix_rad_search.cpp -o kd_fix_rad_search.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c kd_pr_search.cpp -o kd_pr_search.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c kd_search.cpp -o kd_search.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c kd_split.cpp -o kd_split.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c kd_tree.cpp -o kd_tree.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c kd_util.cpp -o kd_util.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c label_point.cpp -o label_point.o
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT     -fpic  -g -O2 -ffile-prefix-map=/build/r-base-Faorqz/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c perf.cpp -o perf.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 FNN.so ANN.o KNN_ANN.o KNN_correlation_distance.o KNN_cover_test.o KNN_cover_tree.o KNN_mutual_information.o bd_fix_rad_search.o bd_pr_search.o bd_search.o bd_tree.o brute.o init_FNN.o kd_dump.o kd_fix_rad_search.o kd_pr_search.o kd_search.o kd_split.o kd_tree.o kd_util.o label_point.o perf.o -L/usr/lib/R/lib -lR
rm -f *.o core
installing to /home/omnipath/local/R/4.2-3.16/00LOCK-FNN/00new/FNN/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 (FNN)

The downloaded source packages are in
	‘/tmp/RtmpBBRScb/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 4.2.2 Patched (2022-11-10
  r83330)
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: tibble
[ Finished: 2023-03-20 16:26:04 CET ]