[ Started: 2024-01-13 11:52:55 CET ]
[ CARNIVAL v2.7.2 for BioC-3.17 from https://github.com/saezlab/CARNIVAL@master ]

[1] "Libraries: "                     "/home/omnipath/local/R/4.3-3.17"
[3] "/home/omnipath/local/R/4.3"      "/usr/lib/R/library"             
trying URL 'https://cran.uni-muenster.de/src/contrib/DBI_1.2.1.tar.gz'
Content type 'application/x-gzip' length 1116529 bytes (1.1 MB)
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downloaded 1.1 MB

trying URL 'https://cran.uni-muenster.de/src/contrib/FNN_1.1.4.tar.gz'
Content type 'application/x-gzip' length 79913 bytes (78 KB)
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downloaded 78 KB

* installing *source* package ‘DBI’ ...
** package ‘DBI’ successfully unpacked and MD5 sums checked
** 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 (DBI)
* installing *source* package ‘FNN’ ...
** package ‘FNN’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c ANN.cpp -o ANN.o
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c KNN_ANN.cpp -o KNN_ANN.o
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -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++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -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++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -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++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -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++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -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++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -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++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c bd_search.cpp -o bd_search.o
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c bd_tree.cpp -o bd_tree.o
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -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-MHXHhT/r-base-4.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c init_FNN.c -o init_FNN.o
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c kd_dump.cpp -o kd_dump.o
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -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++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -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++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c kd_search.cpp -o kd_search.o
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c kd_split.cpp -o kd_split.o
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c kd_tree.cpp -o kd_tree.o
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c kd_util.cpp -o kd_util.o
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c label_point.cpp -o label_point.o
g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -Iinclude -DUSING_R -DUSING_RPRINT      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-MHXHhT/r-base-4.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c perf.cpp -o perf.o
g++ -std=gnu++17 -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/4.3-3.17/00LOCK-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/Rtmp7ctsRZ/downloaded_packages’
Bioconductor version '3.17' is out-of-date; the current release version '3.18'
  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 3.17 (BiocManager 1.30.22), R 4.3.1 (2023-06-16)
'getOption("repos")' replaces Bioconductor standard repositories, see
'help("repositories", package = "BiocManager")' for details.
Replacement repositories:
    CRAN: https://cloud.r-project.org
Bioconductor version 3.17 (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: 2024-01-13 11:53:21 CET ]