[ Started: 2024-01-15 11:51:15 CET ] [ CARNIVAL v2.7.2 for BioC-3.18 from https://github.com/saezlab/CARNIVAL@master ] [1] "Libraries: " "/home/omnipath/local/R/4.3-3.18" [3] "/home/omnipath/local/R/4.3" "/usr/lib/R/library" trying URL 'https://cran.uni-muenster.de/src/contrib/uuid_1.2-0.tar.gz' Content type 'application/x-gzip' length 79715 bytes (77 KB) ================================================== downloaded 77 KB * installing *source* package ‘uuid’ ... ** package ‘uuid’ successfully unpacked and MD5 sums checked ** using staged installation checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for grp.h... yes checking for langinfo.h... yes checking for locale.h... yes checking for netinet/in.h... yes checking for stdlib.h... (cached) yes checking for sys/file.h... yes checking for sys/ioctl.h... yes checking for sys/socket.h... yes checking for sys/sockio.h... no checking for sys/syscall.h... yes checking for sys/sendfile.h... yes checking for sys/time.h... yes checking for sys/un.h... yes checking for unistd.h... (cached) yes checking for net/if.h... yes checking for net/if_dl.h... no checking for dirfd... yes checking for err... yes checking for errx... yes checking for getexecname... no checking for getrandom... yes checking for jrand48... yes checking for llseek... no checking for lchown... yes checking for mempcpy... yes checking for mkostemp... yes checking for nanosleep... yes checking for sendfile... yes checking for srandom... yes checking for strnchr... no checking for strndup... yes checking for strnlen... yes checking for usleep... yes checking for warn... yes checking for warnx... yes checking for flock... yes checking for struct sockaddr.sa_len... no checking for dlfcn.h... yes checking for library containing dlsym... none required checking for thread local storage (TLS) support... yes configure: creating ./config.status config.status: creating src/Makevars config.status: creating src/config.h ** libs using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 R.c -o R.o gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 Ruuid.c -o Ruuid.o gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 clear.c -o clear.o gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 compare.c -o compare.o gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 copy.c -o copy.o gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 gen_uuid.c -o gen_uuid.o gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 isnull.c -o isnull.o gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 md5.c -o md5.o gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 pack.c -o pack.o gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 parse.c -o parse.o gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 rand.c -o rand.o gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 randutils.c -o randutils.o gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 sha1.c -o sha1.o gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 unpack.c -o unpack.o gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -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 unparse.c -o unparse.o gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o uuid.so R.o Ruuid.o clear.o compare.o copy.o gen_uuid.o isnull.o md5.o pack.o parse.o rand.o randutils.o sha1.o unpack.o unparse.o -L/usr/lib/R/lib -lR installing to /home/omnipath/local/R/4.3-3.18/00LOCK-uuid/00new/uuid/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 (uuid) The downloaded source packages are in ‘/tmp/RtmpqbzFnm/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 3.18 (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 3.18 (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: 2024-01-15 11:51:27 CET ]