downloading reverse dependencies ... downloading chromote_0.3.1.tar.gz ... ok downloading crew_0.10.2.tar.gz ... ok downloading DT_0.33.tar.gz ... ok downloading gwavr_0.3.1.tar.gz ... ok downloading httpuv_1.6.15.tar.gz ... ok downloading lavaangui_0.2.0.tar.gz ... ok downloading learnr_0.11.5.tar.gz ... ok downloading netShiny_1.0.tar.gz ... ok downloading plotly_4.10.4.tar.gz ... ok downloading plumber_1.2.2.tar.gz ... ok downloading plumbertableau_0.1.1.tar.gz ... ok downloading shiny_1.9.1.tar.gz ... ok downloading shinydashboard_0.7.2.tar.gz ... ok downloading shinyTree_0.3.1.tar.gz ... ok downloading tapLock_0.2.0.tar.gz ... ok downloading TKCat_1.1.11.tar.gz ... ok downloading TreeSearch_1.5.1.tar.gz ... ok downloading webdeveloper_1.0.5.tar.gz ... ok downloading webshot2_0.1.1.tar.gz ... ok downloading condformat_0.10.1.tar.gz ... ok downloading coro_1.1.0.tar.gz ... ok downloading dipsaus_0.2.9.tar.gz ... ok downloading googlePubsubR_0.0.4.tar.gz ... ok downloading httr2_1.0.6.tar.gz ... ok downloading ipc_0.1.4.tar.gz ... ok downloading pagedown_0.21.tar.gz ... ok downloading telegram.bot_3.0.0.tar.gz ... ok installing dependencies ‘autometric’, ‘BED’, ‘ClickHouseHTTP’, ‘getip’, ‘ggVennDiagram’, ‘html5’, ‘ipc’, ‘mirai’, ‘nanonext’, ‘netgwas’, ‘nhdplusTools’, ‘plotlyGeoAssets’, ‘promises’, ‘protoclust’, ‘Quartet’, ‘rapidoc’, ‘RClickhouse’, ‘reactlog’, ‘ReDaMoR’, ‘redoc’, ‘redux’, ‘revealjs’, ‘Rogue’, ‘shinyscreenshot’, ‘tower’, ‘TreeDist’, ‘TreeTools’, ‘txtq’, ‘vembedr’, ‘whitebox’, ‘xaringan’ also installing the dependencies ‘maplegend’, ‘RcppHungarian’, ‘hydroloom’, ‘dataRetrieval’, ‘maptiles’, ‘mapsf’, ‘neo2R’, ‘Ternary’, ‘storr’ begin installing package ‘maplegend’ begin installing package ‘RcppHungarian’ begin installing package ‘dataRetrieval’ begin installing package ‘hydroloom’ begin installing package ‘maptiles’ begin installing package ‘neo2R’ begin installing package ‘storr’ begin installing package ‘vembedr’ begin installing package ‘getip’ begin installing package ‘nanonext’ begin installing package ‘autometric’ begin installing package ‘whitebox’ begin installing package ‘ggVennDiagram’ begin installing package ‘netgwas’ begin installing package ‘promises’ begin installing package ‘plotlyGeoAssets’ begin installing package ‘redoc’ begin installing package ‘rapidoc’ begin installing package ‘reactlog’ begin installing package ‘tower’ begin installing package ‘ClickHouseHTTP’ begin installing package ‘RClickhouse’ begin installing package ‘protoclust’ begin installing package ‘TreeTools’ begin installing package ‘html5’ begin installing package ‘txtq’ begin installing package ‘revealjs’ * installing *source* package ‘rapidoc’ ... ** package ‘rapidoc’ 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 ** 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 (rapidoc) * installing *source* package ‘redoc’ ... ** package ‘redoc’ 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 ** 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 (redoc) * installing *source* package ‘tower’ ... ** package ‘tower’ 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 ** 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 (tower) * installing *source* package ‘plotlyGeoAssets’ ... ** package ‘plotlyGeoAssets’ 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 ** 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 (plotlyGeoAssets) * installing *source* package ‘neo2R’ ... ** package ‘neo2R’ 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 (neo2R) * installing *source* package ‘reactlog’ ... ** package ‘reactlog’ 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 (reactlog) * installing *source* package ‘protoclust’ ... ** package ‘protoclust’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp1LsPrD/R.INSTALL11ce496d5e51bd/protoclust/src' gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c hier.c -o hier.o hier.c: In function ‘hier’: hier.c:194:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 194 | for(j = 0; j < imerge; j++) | ^~~ hier.c:204:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 204 | ii = lt(imerge+1,imerge,n); | ^~ hier.c: In function ‘minimaxpoint’: hier.c:442:10: warning: ‘mm’ may be used uninitialized [-Wmaybe-uninitialized] 442 | return mm; | ^~ hier.c:428:7: note: ‘mm’ was declared here 428 | int mm; | ^~ hier.c: In function ‘findNN’: hier.c:346:29: warning: ‘nn’ may be used uninitialized [-Wmaybe-uninitialized] 346 | mincomplete = completelink(dmax, n, clusters[nn], nn, clusters[i], i); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ hier.c:328:7: note: ‘nn’ was declared here 328 | int nn; | ^~ hier.c: In function ‘hier’: hier.c:274:26: warning: ‘imerge’ may be used uninitialized [-Wmaybe-uninitialized] 274 | Cluster *cur = clusters[imerge]; | ^ hier.c:28:20: note: ‘imerge’ was declared here 28 | int i, j, k, ii, imerge, jmerge, reverse; | ^~~~~~ gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c protoclust_init.c -o protoclust_init.o gcc-14 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o protoclust.so hier.o protoclust_init.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp1LsPrD/R.INSTALL11ce496d5e51bd/protoclust/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-protoclust/00new/protoclust/libs ** 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 ** 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 (protoclust) * installing *source* package ‘revealjs’ ... ** package ‘revealjs’ 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 ** 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 (revealjs) * installing *source* package ‘txtq’ ... ** package ‘txtq’ 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 ** 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 (txtq) * installing *source* package ‘autometric’ ... ** package ‘autometric’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpGLSBqw/R.INSTALL11ce127600b058/autometric/src' gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c autometric.c -o autometric.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c export.c -o export.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c metrics.c -o metrics.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c metrics_linux.c -o metrics_linux.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c metrics_mac.c -o metrics_mac.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c metrics_windows.c -o metrics_windows.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c thread.c -o thread.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c timers.c -o timers.o gcc-14 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o autometric.so autometric.o export.o metrics.o metrics_linux.o metrics_mac.o metrics_windows.o thread.o timers.o -lpthread -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpGLSBqw/R.INSTALL11ce127600b058/autometric/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-autometric/00new/autometric/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 (autometric) * installing *source* package ‘maplegend’ ... ** package ‘maplegend’ 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 ** 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 (maplegend) begin installing package ‘mapsf’ * installing *source* package ‘vembedr’ ... ** package ‘vembedr’ 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 (vembedr) * installing *source* package ‘getip’ ... ** package ‘getip’ successfully unpacked and MD5 sums checked ** using staged installation checking for gcc... gcc-14 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-14 accepts -g... yes checking for gcc-14 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 ifaddrs.h... yes checking for socket in -lc... yes checking for socket in -lsocket... no ******************* Results of getip package configure ******************* * Socket Report * >> IFADDRS = -DHAS_IFADDRS * >> SA_LEN = * >> SOCKET_LIBS = ************************************************************************** configure: creating ./config.status config.status: creating src/Makevars ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpR5MCsZ/R.INSTALL11ce2d971626c/getip/src' gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAS_IFADDRS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c getip_native.c -o getip_native.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAS_IFADDRS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c hostname2ip.c -o hostname2ip.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAS_IFADDRS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ip_internal.c -o ip_internal.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAS_IFADDRS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c validate.c -o validate.o gcc-14 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o getip.so getip_native.o hostname2ip.o ip_internal.o validate.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpR5MCsZ/R.INSTALL11ce2d971626c/getip/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-getip/00new/getip/libs ** 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 ** 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 (getip) * installing *source* package ‘html5’ ... ** package ‘html5’ 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 (html5) * installing *source* package ‘dataRetrieval’ ... ** package ‘dataRetrieval’ 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 (dataRetrieval) * installing *source* package ‘ClickHouseHTTP’ ... ** package ‘ClickHouseHTTP’ 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 (ClickHouseHTTP) * installing *source* package ‘ggVennDiagram’ ... ** package ‘ggVennDiagram’ 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 (ggVennDiagram) * installing *source* package ‘storr’ ... ** package ‘storr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpyMvDf5/R.INSTALL11ce096f93edd7/storr/src' gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c storr.c -o storr.o gcc-14 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o storr.so storr.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpyMvDf5/R.INSTALL11ce096f93edd7/storr/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-storr/00new/storr/libs ** 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 ** 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 (storr) begin installing package ‘redux’ * installing *source* package ‘hydroloom’ ... ** package ‘hydroloom’ 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 (hydroloom) * installing *source* package ‘mapsf’ ... ** package ‘mapsf’ 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 (mapsf) * installing *source* package ‘netgwas’ ... ** package ‘netgwas’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (netgwas) * installing *source* package ‘RcppHungarian’ ... ** package ‘RcppHungarian’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpzjiaBY/R.INSTALL11cded5d328fdf/RcppHungarian/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o In file included from RcppExports.cpp:4: ../inst/include/RcppHungarian.h: In member function ‘void HungarianAlgorithm::assignmentoptimal(int*, double*, double*, int, int)’: ../inst/include/RcppHungarian.h:169:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 169 | if (fabs(distMatrix[row + nOfRows*col]) < DBL_EPSILON) | ^~ ../inst/include/RcppHungarian.h:177:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 177 | for (row = 0; row= 1.6 found Detecting 'cmake'... /usr/bin/cmake Detecting 'xz'... /usr/bin/xz Compiling 'libnng' from source ... -- The C compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/gcc-14 - skipped -- Detecting C compile features -- Detecting C compile features - done -- Configuring for NNG version 1.9.0 -- Performing Test NNG_HIDDEN_VISIBILITY -- Performing Test NNG_HIDDEN_VISIBILITY - Success -- Looking for strlcpy -- Looking for strlcpy - found -- Looking for strnlen -- Looking for strnlen - found -- Looking for strcasecmp -- Looking for strcasecmp - found -- Looking for strncasecmp -- Looking for strncasecmp - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Looking for lockf -- Looking for lockf - found -- Looking for flock -- Looking for flock - found -- Looking for getrandom -- Looking for getrandom - found -- Looking for arc4random_buf -- Looking for arc4random_buf - found -- Looking for clock_gettime -- Looking for clock_gettime - found -- Looking for sem_wait in pthread -- Looking for sem_wait in pthread - found -- Looking for pthread_atfork in pthread -- Looking for pthread_atfork in pthread - found -- Looking for pthread_set_name_np in pthread -- Looking for pthread_set_name_np in pthread - not found -- Looking for pthread_setname_np in pthread -- Looking for pthread_setname_np in pthread - found -- Looking for gethostbyname in nsl -- Looking for gethostbyname in nsl - not found -- Looking for socket in socket -- Looking for socket in socket - not found -- Looking for __atomic_load_1 in atomic -- Looking for __atomic_load_1 in atomic - found -- Looking for AF_UNIX -- Looking for AF_UNIX - found -- Looking for backtrace_symbols_fd -- Looking for backtrace_symbols_fd - found -- Performing Test NNG_HAVE_MSG_CONTROL -- Performing Test NNG_HAVE_MSG_CONTROL - Success -- Looking for eventfd -- Looking for eventfd - found -- Looking for kqueue -- Looking for kqueue - not found -- Looking for port_create -- Looking for port_create - not found -- Looking for epoll_create -- Looking for epoll_create - found -- Looking for epoll_create1 -- Looking for epoll_create1 - found -- Looking for getpeereid -- Looking for getpeereid - not found -- Looking for SO_PEERCRED -- Looking for SO_PEERCRED - found -- Performing Test NNG_HAVE_SOCKPEERCRED -- Performing Test NNG_HAVE_SOCKPEERCRED - Failed -- Looking for LOCAL_PEERCRED -- Looking for LOCAL_PEERCRED - not found -- Looking for LOCAL_PEERPID -- Looking for LOCAL_PEERPID - not found -- Looking for getpeerucred -- Looking for getpeerucred - not found -- Looking for atomic_flag_test_and_set -- Looking for atomic_flag_test_and_set - found -- Looking for socketpair -- Looking for socketpair - found -- Found mbedTLS: /usr/lib/x86_64-linux-gnu/libmbedtls.so (found version "2.28.8") -- Configuring done (3.7s) -- Generating done (0.0s) -- Build files have been written to: /home/hornik/tmp/scratch/Rtmp3s0Ef2/R.INSTALL11ce155f93627c/nanonext/nng-190 gmake[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp3s0Ef2/R.INSTALL11ce155f93627c/nanonext/nng-190' make[2]: Entering directory '/home/hornik/tmp/scratch/Rtmp3s0Ef2/R.INSTALL11ce155f93627c/nanonext/nng-190' make[3]: Entering directory '/home/hornik/tmp/scratch/Rtmp3s0Ef2/R.INSTALL11ce155f93627c/nanonext/nng-190' make[3]: Leaving directory '/home/hornik/tmp/scratch/Rtmp3s0Ef2/R.INSTALL11ce155f93627c/nanonext/nng-190' make[3]: Entering directory '/home/hornik/tmp/scratch/Rtmp3s0Ef2/R.INSTALL11ce155f93627c/nanonext/nng-190' [ 0%] Building C object CMakeFiles/nng.dir/src/nng.c.o [ 2%] Building C object 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[ 80%] Building C object CMakeFiles/nng.dir/src/sp/transport/ws/websocket.c.o [ 80%] Building C object CMakeFiles/nng.dir/src/sp/protocol.c.o [ 82%] Building C object CMakeFiles/nng.dir/src/sp/transport.c.o [ 82%] Building C object CMakeFiles/nng.dir/src/supplemental/base64/base64.c.o [ 84%] Building C object CMakeFiles/nng.dir/src/supplemental/http/http_public.c.o [ 86%] Building C object CMakeFiles/nng.dir/src/supplemental/http/http_client.c.o [ 86%] Building C object CMakeFiles/nng.dir/src/supplemental/http/http_chunk.c.o [ 88%] Building C object CMakeFiles/nng.dir/src/supplemental/http/http_conn.c.o [ 88%] Building C object CMakeFiles/nng.dir/src/supplemental/http/http_msg.c.o [ 90%] Building C object CMakeFiles/nng.dir/src/supplemental/http/http_schemes.c.o [ 90%] Building C object CMakeFiles/nng.dir/src/supplemental/http/http_server.c.o [ 92%] Building C object CMakeFiles/nng.dir/src/supplemental/sha1/sha1.c.o [ 94%] Building C object CMakeFiles/nng.dir/src/supplemental/tls/mbedtls/tls.c.o [ 94%] Building C object CMakeFiles/nng.dir/src/supplemental/tls/tls_common.c.o [ 96%] Building C object CMakeFiles/nng.dir/src/supplemental/util/options.c.o [ 96%] Building C object CMakeFiles/nng.dir/src/supplemental/util/platform.c.o [ 98%] Building C object CMakeFiles/nng.dir/src/supplemental/websocket/websocket.c.o [100%] Linking C static library libnng.a make[3]: Leaving directory '/home/hornik/tmp/scratch/Rtmp3s0Ef2/R.INSTALL11ce155f93627c/nanonext/nng-190' [100%] Built target nng make[2]: Leaving directory '/home/hornik/tmp/scratch/Rtmp3s0Ef2/R.INSTALL11ce155f93627c/nanonext/nng-190' Install the project... -- Install configuration: "Release" gmake[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp3s0Ef2/R.INSTALL11ce155f93627c/nanonext/nng-190' ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp3s0Ef2/R.INSTALL11ce155f93627c/nanonext/src' gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../install/include -I/usr/include -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c aio.c -o aio.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../install/include -I/usr/include -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c comms.c -o comms.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../install/include -I/usr/include -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c core.c -o core.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../install/include -I/usr/include -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../install/include -I/usr/include -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ncurl.c -o ncurl.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../install/include -I/usr/include -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c proto.c -o proto.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../install/include -I/usr/include -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sync.c -o sync.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../install/include -I/usr/include -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c thread.c -o thread.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../install/include -I/usr/include -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c tls.c -o tls.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../install/include -I/usr/include -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c utils.c -o utils.o gcc-14 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o nanonext.so aio.o comms.o core.o init.o ncurl.o proto.o sync.o thread.o tls.o utils.o -L../install/lib -L/usr/lib -lnng -lmbedtls -lmbedx509 -lmbedcrypto -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp3s0Ef2/R.INSTALL11ce155f93627c/nanonext/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-nanonext/00new/nanonext/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 (nanonext) begin installing package ‘mirai’ * installing *source* package ‘mirai’ ... ** package ‘mirai’ 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 (mirai) * installing *source* package ‘TreeTools’ ... ** package ‘TreeTools’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’ using C++17 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpIeyBV1/R.INSTALL11ce441ac433d7/TreeTools/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c ClusterTable.cpp -o ClusterTable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c RcppExports-manual.cpp -o RcppExports-manual.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c ape_reorder.cpp -o ape_reorder.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c as_newick.cpp -o as_newick.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c consensus.cpp -o consensus.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c descendant_edges.cpp -o descendant_edges.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c int_to_tree.cpp -o int_to_tree.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c kept_vertices.cpp -o kept_vertices.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c minimum_spanning_tree.cpp -o minimum_spanning_tree.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c path_lengths.cpp -o path_lengths.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c splits.cpp -o splits.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c splits_to_tree.cpp -o splits_to_tree.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c tips_in_splits.cpp -o tips_in_splits.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c tree_shape.cpp -o tree_shape.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o TreeTools.so ClusterTable.o RcppExports-manual.o RcppExports.o ape_reorder.o as_newick.o consensus.o descendant_edges.o int_to_tree.o kept_vertices.o minimum_spanning_tree.o path_lengths.o splits.o splits_to_tree.o tips_in_splits.o tree_shape.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpIeyBV1/R.INSTALL11ce441ac433d7/TreeTools/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-TreeTools/00new/TreeTools/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading Creating a generic function for ‘match’ from package ‘base’ in package ‘TreeTools’ Creating a generic function for ‘%in%’ from package ‘base’ in package ‘TreeTools’ ** 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 (TreeTools) begin installing package ‘TreeDist’ begin installing package ‘Quartet’ * installing *source* package ‘RClickhouse’ ... ** package ‘RClickhouse’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpR6ndV4/R.INSTALL11ce4652433ad2/RClickhouse/src' gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c RClickhouse_init.c -o RClickhouse_init.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c connection.cpp -o connection.o connection.cpp: In instantiation of ‘std::shared_ptr<_Tp> vecToEnum(SEXP, clickhouse::TypeRef, std::shared_ptr >) [with CT = clickhouse::ColumnEnum; VT = signed char; SEXP = SEXPREC*; clickhouse::TypeRef = std::shared_ptr]’: connection.cpp:398:44: required from here 398 | return vecToEnum(v, t, nullCol); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ connection.cpp:310:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 310 | for (size_t i = 0; i < levels.size(); i++) { | ~~^~~~~~~~~~~~~~~ connection.cpp: In instantiation of ‘std::shared_ptr<_Tp> vecToEnum(SEXP, clickhouse::TypeRef, std::shared_ptr >) [with CT = clickhouse::ColumnEnum; VT = short int; SEXP = SEXPREC*; clickhouse::TypeRef = std::shared_ptr]’: connection.cpp:400:46: required from here 400 | return vecToEnum(v, t, nullCol); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ connection.cpp:310:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 310 | for (size_t i = 0; i < levels.size(); i++) { | ~~^~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c result.cpp -o result.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/columns/string.cpp -o vendor/clickhouse-cpp/clickhouse/columns/string.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/columns/date.cpp -o vendor/clickhouse-cpp/clickhouse/columns/date.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/columns/numeric.cpp -o vendor/clickhouse-cpp/clickhouse/columns/numeric.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/columns/decimal.cpp -o vendor/clickhouse-cpp/clickhouse/columns/decimal.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/columns/tuple.cpp -o vendor/clickhouse-cpp/clickhouse/columns/tuple.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/columns/array.cpp -o vendor/clickhouse-cpp/clickhouse/columns/array.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/columns/factory.cpp -o vendor/clickhouse-cpp/clickhouse/columns/factory.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/columns/nullable.cpp -o vendor/clickhouse-cpp/clickhouse/columns/nullable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/columns/enum.cpp -o vendor/clickhouse-cpp/clickhouse/columns/enum.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/columns/uuid.cpp -o vendor/clickhouse-cpp/clickhouse/columns/uuid.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/columns/ip4.cpp -o vendor/clickhouse-cpp/clickhouse/columns/ip4.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/columns/ip6.cpp -o vendor/clickhouse-cpp/clickhouse/columns/ip6.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/query.cpp -o vendor/clickhouse-cpp/clickhouse/query.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/base/platform.cpp -o vendor/clickhouse-cpp/clickhouse/base/platform.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/base/socket.cpp -o vendor/clickhouse-cpp/clickhouse/base/socket.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/base/input.cpp -o vendor/clickhouse-cpp/clickhouse/base/input.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/base/output.cpp -o vendor/clickhouse-cpp/clickhouse/base/output.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/base/coded.cpp -o vendor/clickhouse-cpp/clickhouse/base/coded.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/base/compressed.cpp -o vendor/clickhouse-cpp/clickhouse/base/compressed.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/client.cpp -o vendor/clickhouse-cpp/clickhouse/client.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/types/types.cpp -o vendor/clickhouse-cpp/clickhouse/types/types.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/types/type_parser.cpp -o vendor/clickhouse-cpp/clickhouse/types/type_parser.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/clickhouse/block.cpp -o vendor/clickhouse-cpp/clickhouse/block.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c vendor/clickhouse-cpp/contrib/cityhash/city.cc -o vendor/clickhouse-cpp/contrib/cityhash/city.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c vendor/clickhouse-cpp/contrib/lz4/lz4.c -o vendor/clickhouse-cpp/contrib/lz4/lz4.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I../inst/include -I./vendor/clickhouse-cpp -I./vendor/clickhouse-cpp/contrib -I./vendor/clickhouse-cpp/contrib/bigerint -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c vendor/clickhouse-cpp/contrib/lz4/lz4hc.c -o vendor/clickhouse-cpp/contrib/lz4/lz4hc.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o RClickhouse.so RClickhouse_init.o RcppExports.o connection.o result.o vendor/clickhouse-cpp/clickhouse/columns/string.o vendor/clickhouse-cpp/clickhouse/columns/date.o vendor/clickhouse-cpp/clickhouse/columns/numeric.o vendor/clickhouse-cpp/clickhouse/columns/decimal.o vendor/clickhouse-cpp/clickhouse/columns/tuple.o vendor/clickhouse-cpp/clickhouse/columns/array.o vendor/clickhouse-cpp/clickhouse/columns/factory.o vendor/clickhouse-cpp/clickhouse/columns/nullable.o vendor/clickhouse-cpp/clickhouse/columns/enum.o vendor/clickhouse-cpp/clickhouse/columns/uuid.o vendor/clickhouse-cpp/clickhouse/columns/ip4.o vendor/clickhouse-cpp/clickhouse/columns/ip6.o vendor/clickhouse-cpp/clickhouse/query.o vendor/clickhouse-cpp/clickhouse/base/platform.o vendor/clickhouse-cpp/clickhouse/base/socket.o vendor/clickhouse-cpp/clickhouse/base/input.o vendor/clickhouse-cpp/clickhouse/base/output.o vendor/clickhouse-cpp/clickhouse/base/coded.o vendor/clickhouse-cpp/clickhouse/base/compressed.o vendor/clickhouse-cpp/clickhouse/client.o vendor/clickhouse-cpp/clickhouse/types/types.o vendor/clickhouse-cpp/clickhouse/types/type_parser.o vendor/clickhouse-cpp/clickhouse/block.o vendor/clickhouse-cpp/contrib/cityhash/city.o vendor/clickhouse-cpp/contrib/lz4/lz4.o vendor/clickhouse-cpp/contrib/lz4/lz4hc.o -lpthread -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpR6ndV4/R.INSTALL11ce4652433ad2/RClickhouse/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-RClickhouse/00new/RClickhouse/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 (RClickhouse) * installing *source* package ‘TreeDist’ ... ** package ‘TreeDist’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’ using C++17 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmppYpmMw/R.INSTALL11df4066f1da20/TreeDist/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/TreeTools/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/TreeTools/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c day_1985.cpp -o day_1985.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/TreeTools/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c lap.cpp -o lap.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/TreeTools/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c mast.cpp -o mast.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/TreeTools/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c nni_distance.cpp -o nni_distance.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/TreeTools/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c path_vector.cpp -o path_vector.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/TreeTools/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c reduce_tree.cpp -o reduce_tree.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/TreeTools/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c spr.cpp -o spr.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/TreeTools/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c tree_distance_functions.cpp -o tree_distance_functions.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/TreeTools/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c tree_distances.cpp -o tree_distances.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o TreeDist.so RcppExports.o day_1985.o lap.o mast.o nni_distance.o path_vector.o reduce_tree.o spr.o tree_distance_functions.o tree_distances.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmppYpmMw/R.INSTALL11df4066f1da20/TreeDist/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-TreeDist/00new/TreeDist/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 (TreeDist) begin installing package ‘Rogue’ * installing *source* package ‘Rogue’ ... ** package ‘Rogue’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpqoDsvE/R.INSTALL11e113cc8c81b/Rogue/src' gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c graph_geodesic.c -o graph_geodesic.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rnr/Array.c -o rnr/Array.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rnr/BitVector.c -o rnr/BitVector.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rnr/Dropset.c -o rnr/Dropset.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rnr/HashTable.c -o rnr/HashTable.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rnr/List.c -o rnr/List.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rnr/Node.c -o rnr/Node.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rnr/ProfileElem.c -o rnr/ProfileElem.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rnr/RogueNaRok.c -o rnr/RogueNaRok.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rnr/Tree.c -o rnr/Tree.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rnr/common.c -o rnr/common.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rnr/legacy.c -o rnr/legacy.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rnr/newFunctions.c -o rnr/newFunctions.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Rogue_init.c -o Rogue_init.o gcc-14 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o Rogue.so graph_geodesic.o rnr/Array.o rnr/BitVector.o rnr/Dropset.o rnr/HashTable.o rnr/List.o rnr/Node.o rnr/ProfileElem.o rnr/RogueNaRok.o rnr/Tree.o rnr/common.o rnr/legacy.o rnr/newFunctions.o Rogue_init.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpqoDsvE/R.INSTALL11e113cc8c81b/Rogue/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-Rogue/00new/Rogue/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 (Rogue) * installing *source* package ‘Quartet’ ... ** package ‘Quartet’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpDGrNvZ/R.INSTALL11df3e172c78f1/Quartet/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c AbstractDistanceCalculator.cpp -o AbstractDistanceCalculator.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c AllQuartets.cpp -o AllQuartets.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c EdgeParser.cpp -o EdgeParser.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c HDT.cpp -o HDT.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c HDTCountingCCToC.cpp -o HDTCountingCCToC.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c HDTCountingCTransform.cpp -o HDTCountingCTransform.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c HDTCountingG.cpp -o HDTCountingG.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c HDTCountingIGToC.cpp -o HDTCountingIGToC.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c HDTCountingLeaf.cpp -o HDTCountingLeaf.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c HDTFactory.cpp -o HDTFactory.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c HDTListUtils.cpp -o HDTListUtils.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c NewickParser.cpp -o NewickParser.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c QuartetDistanceCalculator.cpp -o QuartetDistanceCalculator.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c RootedTree.cpp -o RootedTree.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c RootedTreeFactory.cpp -o RootedTreeFactory.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c TripletDistanceCalculator.cpp -o TripletDistanceCalculator.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c int_stuff.cpp -o int_stuff.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c rQuartetDist.cpp -o rQuartetDist.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c rTripletDist.cpp -o rTripletDist.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o Quartet.so AbstractDistanceCalculator.o AllQuartets.o EdgeParser.o HDT.o HDTCountingCCToC.o HDTCountingCTransform.o HDTCountingG.o HDTCountingIGToC.o HDTCountingLeaf.o HDTFactory.o HDTListUtils.o NewickParser.o QuartetDistanceCalculator.o RcppExports.o RootedTree.o RootedTreeFactory.o TripletDistanceCalculator.o int_stuff.o rQuartetDist.o rTripletDist.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpDGrNvZ/R.INSTALL11df3e172c78f1/Quartet/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-Quartet/00new/Quartet/libs ** R ** data *** moving datasets to lazyload DB ** 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 ** 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 (Quartet) checking promises_1.3.1.tar.gz ... checking chromote_0.3.1.tar.gz ... checking crew_0.10.2.tar.gz ... checking DT_0.33.tar.gz ... checking gwavr_0.3.1.tar.gz ... checking lavaangui_0.2.0.tar.gz ... checking httpuv_1.6.15.tar.gz ... checking learnr_0.11.5.tar.gz ... checking netShiny_1.0.tar.gz ... checking plotly_4.10.4.tar.gz ... checking plumber_1.2.2.tar.gz ... checking plumbertableau_0.1.1.tar.gz ... checking shiny_1.9.1.tar.gz ... checking shinydashboard_0.7.2.tar.gz ... checking shinyTree_0.3.1.tar.gz ... checking tapLock_0.2.0.tar.gz ... checking TKCat_1.1.11.tar.gz ... checking TreeSearch_1.5.1.tar.gz ... checking webdeveloper_1.0.5.tar.gz ... checking webshot2_0.1.1.tar.gz ... checking condformat_0.10.1.tar.gz ... checking coro_1.1.0.tar.gz ... checking dipsaus_0.2.9.tar.gz ... checking googlePubsubR_0.0.4.tar.gz ... checking httr2_1.0.6.tar.gz ... checking ipc_0.1.4.tar.gz ... checking pagedown_0.21.tar.gz ... checking telegram.bot_3.0.0.tar.gz ... Depends: Package: promises Imports: fastmap (>= 1.1.0), later, magrittr (>= 1.5), R6, Rcpp, rlang, stats LinkingTo: later, Rcpp Timings: user system elapsed promises 51.518 5.69 68.978 Results: Check status summary: NOTE OK Source packages 0 1 Reverse depends 5 22 Check results summary: promises ... OK rdepends_chromote ... OK rdepends_condformat ... OK rdepends_coro ... OK rdepends_crew ... OK rdepends_dipsaus ... OK rdepends_DT ... NOTE * checking Rd cross-references ... NOTE rdepends_googlePubsubR ... OK rdepends_gwavr ... NOTE * checking Rd cross-references ... NOTE rdepends_httpuv ... OK rdepends_httr2 ... OK rdepends_ipc ... OK rdepends_lavaangui ... OK rdepends_learnr ... OK rdepends_netShiny ... OK rdepends_pagedown ... OK rdepends_plotly ... OK rdepends_plumber ... OK rdepends_plumbertableau ... OK rdepends_shiny ... OK rdepends_shinydashboard ... NOTE * checking Rd cross-references ... NOTE rdepends_shinyTree ... OK rdepends_tapLock ... OK rdepends_telegram.bot ... NOTE * checking Rd files ... [0s/0s] NOTE * checking Rd cross-references ... NOTE rdepends_TKCat ... OK rdepends_TreeSearch ... NOTE * checking Rd cross-references ... NOTE rdepends_webdeveloper ... OK rdepends_webshot2 ... OK