[ Started: 2023-06-15 22:34:13 CEST ] [ 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" "/opt/R-devel/lib/R/library" trying URL 'https://cran.uni-muenster.de/src/contrib/gprofiler2_0.2.2.tar.gz' Content type 'application/x-gzip' length 1471188 bytes (1.4 MB) ================================================== downloaded 1.4 MB trying URL 'https://cran.uni-muenster.de/src/contrib/pkgbuild_1.4.1.tar.gz' Content type 'application/x-gzip' length 46906 bytes (45 KB) ================================================== downloaded 45 KB trying URL 'https://cran.uni-muenster.de/src/contrib/vctrs_0.6.3.tar.gz' Content type 'application/x-gzip' length 967338 bytes (944 KB) ================================================== downloaded 944 KB * installing *source* package ‘gprofiler2’ ... ** package ‘gprofiler2’ successfully unpacked and MD5 sums checked ** using staged installation ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (gprofiler2) * installing *source* package ‘pkgbuild’ ... ** package ‘pkgbuild’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (pkgbuild) * installing *source* package ‘vctrs’ ... ** package ‘vctrs’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0’ gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c altrep-lazy-character.c -o altrep-lazy-character.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c altrep-rle.c -o altrep-rle.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c altrep.c -o altrep.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c arg-counter.c -o arg-counter.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c arg.c -o arg.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c assert.c -o assert.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c bind.c -o bind.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c c-unchop.c -o c-unchop.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c c.c -o c.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c callables.c -o callables.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c cast-bare.c -o cast-bare.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c cast-dispatch.c -o cast-dispatch.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c cast.c -o cast.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c compare.c -o compare.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c complete.c -o complete.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c conditions.c -o conditions.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c dictionary.c -o dictionary.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c dim.c -o dim.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c empty.c -o empty.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c equal.c -o equal.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c expand.c -o expand.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c fields.c -o fields.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c fill.c -o fill.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c globals.c -o globals.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c group.c -o group.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c growable.c -o growable.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c hash.c -o hash.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c interval.c -o interval.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c match-joint.c -o match-joint.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c match.c -o match.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c missing.c -o missing.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c names.c -o names.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c order-collate.c -o order-collate.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c order-groups.c -o order-groups.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c order-sortedness.c -o order-sortedness.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c order-truelength.c -o order-truelength.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c order.c -o order.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c poly-op.c -o poly-op.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c proxy-restore.c -o proxy-restore.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c proxy.c -o proxy.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c ptype-common.c -o ptype-common.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c ptype.c -o ptype.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c ptype2-dispatch.c -o ptype2-dispatch.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c ptype2.c -o ptype2.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c rank.c -o rank.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c rep.c -o rep.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c rlang-dev.c -o rlang-dev.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c rlang.c -o rlang.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c runs.c -o runs.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c set.c -o set.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c shape.c -o shape.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c size-common.c -o size-common.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c size.c -o size.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c slice-array.c -o slice-array.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c slice-assign-array.c -o slice-assign-array.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c slice-assign.c -o slice-assign.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c slice-chop.c -o slice-chop.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c slice-interleave.c -o slice-interleave.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c slice.c -o slice.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c split.c -o split.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c subscript-loc.c -o subscript-loc.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c subscript.c -o subscript.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c translate.c -o translate.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c type-data-frame.c -o type-data-frame.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c type-date-time.c -o type-date-time.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c type-factor.c -o type-factor.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c type-info.c -o type-info.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c type-integer64.c -o type-integer64.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c type-tibble.c -o type-tibble.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c typeof2-s3.c -o typeof2-s3.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c typeof2.c -o typeof2.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c unspecified.c -o unspecified.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c utils-dispatch.c -o utils-dispatch.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c utils.c -o utils.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c vctrs-core.c -o vctrs-core.o gcc -I"/opt/R-devel/lib/R/include" -DNDEBUG -I./rlang -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c version.c -o version.o gcc -shared -L/usr/local/lib -o vctrs.so altrep-lazy-character.o altrep-rle.o altrep.o arg-counter.o arg.o assert.o bind.o c-unchop.o c.o callables.o cast-bare.o cast-dispatch.o cast.o compare.o complete.o conditions.o dictionary.o dim.o empty.o equal.o expand.o fields.o fill.o globals.o group.o growable.o hash.o init.o interval.o match-joint.o match.o missing.o names.o order-collate.o order-groups.o order-sortedness.o order-truelength.o order.o poly-op.o proxy-restore.o proxy.o ptype-common.o ptype.o ptype2-dispatch.o ptype2.o rank.o rep.o rlang-dev.o rlang.o runs.o set.o shape.o size-common.o size.o slice-array.o slice-assign-array.o slice-assign.o slice-chop.o slice-interleave.o slice.o split.o subscript-loc.o subscript.o translate.o type-data-frame.o type-date-time.o type-factor.o type-info.o type-integer64.o type-tibble.o typeof2-s3.o typeof2.o unspecified.o utils-dispatch.o utils.o vctrs-core.o version.o installing to /home/omnipath/local/R/4.3-3.17/00LOCK-vctrs/00new/vctrs/libs ** 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 ** 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 (vctrs) The downloaded source packages are in ‘/tmp/RtmpWR0odL/downloaded_packages’ Bioconductor version 3.17 (BiocManager 1.30.21), R 4.3.0 (2023-04-21) Bioconductor version 3.17 (BiocManager 1.30.21), R 4.3.0 (2023-04-21) Warning message: package(s) not installed when version(s) same as or greater than current; use `force = TRUE` to re-install: 'BiocCheck' [ Finished: 2023-06-15 22:34:46 CEST ]