downloading reverse dependencies ... downloading ClustAssess_1.0.0.tar.gz ... ok downloading regplot_1.1.tar.gz ... ok downloading beanplot_1.3.1.tar.gz ... ok downloading berryFunctions_1.22.5.tar.gz ... ok downloading DataVisualizations_1.3.3.tar.gz ... ok downloading sand_2.0.0.tar.gz ... ok downloading vipor_0.4.7.tar.gz ... ok installing dependencies ‘ABCanalysis’, ‘beanplot’, ‘choroplethr’, ‘eigenmodel’, ‘Gmedian’, ‘GOstats’, ‘gprofiler2’, ‘leiden’, ‘monocle3’, ‘networkTomography’, ‘ngspatial’, ‘org.Sc.sgd.db’, ‘qualpalr’, ‘ROCit’, ‘ScatterDensity’, ‘SharedObject’, ‘shinyLP’, ‘vioplot’ Warning: packages ‘monocle3’, ‘choroplethr’, ‘networkTomography’ are not available for this version of R Versions of these packages for your version of R might be available elsewhere, see the ideas at https://cran.r-project.org/doc/manuals/r-devel/R-admin.html#Installing-packages also installing the dependencies ‘Category’, ‘AnnotationForge’, ‘batchmeans’ begin installing package ‘Category’ begin installing package ‘batchmeans’ begin installing package ‘AnnotationForge’ begin installing package ‘Gmedian’ begin installing package ‘gprofiler2’ begin installing package ‘qualpalr’ begin installing package ‘leiden’ begin installing package ‘vioplot’ begin installing package ‘SharedObject’ begin installing package ‘shinyLP’ begin installing package ‘beanplot’ begin installing package ‘ABCanalysis’ begin installing package ‘ROCit’ begin installing package ‘ScatterDensity’ begin installing package ‘eigenmodel’ begin installing package ‘org.Sc.sgd.db’ * installing *source* package ‘batchmeans’ ... ** this is package ‘batchmeans’ version ‘1.0-4’ ** package ‘batchmeans’ 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 (batchmeans) begin installing package ‘ngspatial’ * installing *source* package ‘eigenmodel’ ... ** this is package ‘eigenmodel’ version ‘1.11’ ** package ‘eigenmodel’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** 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 (eigenmodel) * installing *source* package ‘beanplot’ ... ** this is package ‘beanplot’ version ‘1.3.1’ ** package ‘beanplot’ 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 (beanplot) * installing *source* package ‘ABCanalysis’ ... ** this is package ‘ABCanalysis’ version ‘1.2.1’ ** package ‘ABCanalysis’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** 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 (ABCanalysis) * installing *source* package ‘ROCit’ ... ** this is package ‘ROCit’ version ‘2.1.2’ ** package ‘ROCit’ successfully unpacked and MD5 sums checked ** using staged installation ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ROCit) * installing *source* package ‘shinyLP’ ... ** this is package ‘shinyLP’ version ‘1.1.3’ ** package ‘shinyLP’ 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 (shinyLP) * installing *source* package ‘vioplot’ ... ** this is package ‘vioplot’ version ‘0.5.1’ ** 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 (vioplot) * installing *source* package ‘gprofiler2’ ... ** this is package ‘gprofiler2’ version ‘0.2.3’ ** 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 ‘leiden’ ... ** this is package ‘leiden’ version ‘0.4.3.1’ ** package ‘leiden’ 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 (leiden) * installing *source* package ‘qualpalr’ ... ** this is package ‘qualpalr’ version ‘0.4.4’ ** package ‘qualpalr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-16) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpQ6piHa/R.INSTALL3e28c757c1217b/qualpalr/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c qualpal.cpp -o qualpal.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o qualpalr.so RcppExports.o qualpal.o -fopenmp -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpQ6piHa/R.INSTALL3e28c757c1217b/qualpalr/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-qualpalr/00new/qualpalr/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 (qualpalr) * installing *source* package ‘org.Sc.sgd.db’ ... ** this is package ‘org.Sc.sgd.db’ version ‘3.20.0’ ** 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 (org.Sc.sgd.db) * installing *source* package ‘AnnotationForge’ ... ** this is package ‘AnnotationForge’ version ‘1.49.0’ ** 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 (AnnotationForge) * installing *source* package ‘ScatterDensity’ ... ** this is package ‘ScatterDensity’ version ‘0.0.4’ ** package ‘ScatterDensity’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-16) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpDl3n6t/R.INSTALL3e28c93a476399/ScatterDensity/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c c_inPSphere2D.cpp -o c_inPSphere2D.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c quantile4LargeVectors.cpp -o quantile4LargeVectors.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o ScatterDensity.so RcppExports.o c_inPSphere2D.o quantile4LargeVectors.o -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpDl3n6t/R.INSTALL3e28c93a476399/ScatterDensity/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-ScatterDensity/00new/ScatterDensity/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 (ScatterDensity) * installing *source* package ‘ngspatial’ ... ** this is package ‘ngspatial’ version ‘1.2-2’ ** package ‘ngspatial’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-16) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-16) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp93ZRY3/R.INSTALL3e2aff4b0a55c5/ngspatial/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c ngspatialmod.cpp -o ngspatialmod.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o ngspatial.so RcppExports.o init.o ngspatialmod.o -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp93ZRY3/R.INSTALL3e2aff4b0a55c5/ngspatial/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-ngspatial/00new/ngspatial/libs ** 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 ** 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 (ngspatial) * installing *source* package ‘Category’ ... ** this is package ‘Category’ version ‘2.73.0’ ** 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 (Category) begin installing package ‘GOstats’ * installing *source* package ‘SharedObject’ ... ** this is package ‘SharedObject’ version ‘1.21.0’ ** using staged installation checking for gcc... gcc-14 -std=gnu23 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 we are using the GNU C compiler... yes checking whether gcc-14 -std=gnu23 accepts -g... yes checking for gcc-14 -std=gnu23 option to accept ISO C89... none needed checking for shm_open in -lrt... yes configure: creating ./config.status config.status: creating src/Makevars ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-16) 14.2.0’ using C++11 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpKC5gm8/R.INSTALL3e28b9429f616f/SharedObject/src' g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/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 -c C_interface.cpp -o C_interface.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/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 -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/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 -c altrep.cpp -o altrep.o altrep.cpp: In function ‘SEXPREC* createSharedStringFromSource(SEXP, bool, SEXP)’: altrep.cpp:146:69: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘long unsigned int’ [-Wformat=] 146 | Rf_error("Something is wrong with the unit size: %llu\n", unitSize); | ~~~^ ~~~~~~~~ | | | | | long unsigned int | long long unsigned int | %lu altrep.cpp: In function ‘SEXPREC* unshareString(SEXP, SEXP)’: altrep.cpp:241:98: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 241 | Rf_error("Unknown unit size in the unshareString function, unit size: %llu", (uint64_t)unitSize); | ~~~^ ~~~~~~~~~~~~~~~~~~ | | | | | size_t {aka long unsigned int} | long long unsigned int | %lu g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/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 -c altrepRegistration.cpp -o altrepRegistration.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/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 -c numericAltrepOperations.cpp -o numericAltrepOperations.o numericAltrepOperations.cpp: In function ‘Rboolean sharedVector_Inspect(SEXP, int, int, int, void (*)(SEXP, int, int, int))’: numericAltrepOperations.cpp:13:27: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘R_xlen_t’ {aka ‘long int’} [-Wformat=] 13 | Rprintf(" (len=%llu, type=%d, COW=%d, SC=%d, SS=%d) shared object ID:%s\n", Rf_xlength(x), TYPEOF(x), | ~~~^ ~~~~~~~~~~~~~ | | | | long long unsigned int R_xlen_t {aka long int} | %lu g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/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 -c sharedMemory.cpp -o sharedMemory.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/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 -c sharedObjectClass.cpp -o sharedObjectClass.o sharedObjectClass.cpp: In function ‘void validate_shared_memory(std::string, boost::interprocess::shared_memory_object*)’: sharedObjectClass.cpp:73:14: warning: comparison of integer expressions of different signedness: ‘boost::interprocess::offset_t’ {aka ‘long int’} and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 73 | if (size > free_size) | ~~~~~^~~~~~~~~~~ sharedObjectClass.cpp:93:62: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 3 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 93 | "Testing shared memory failed, key: %s, size: %lluB.\n" | ~~~^ | | | long long unsigned int | %lu ...... 96 | key.c_str(), (uint64_t)size); | ~~~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} In function ‘uint64_t get_size(boost::interprocess::shared_memory_object*)’, inlined from ‘void SharedObjectClass::openSharedMemoryHandle()’ at sharedObjectClass.cpp:121:20: sharedObjectClass.cpp:29:12: warning: ‘size’ may be used uninitialized [-Wmaybe-uninitialized] 29 | return size; | ^~~~ sharedObjectClass.cpp: In member function ‘void SharedObjectClass::openSharedMemoryHandle()’: sharedObjectClass.cpp:27:14: note: ‘size’ was declared here 27 | offset_t size; | ^~~~ In function ‘uint64_t get_size(boost::interprocess::shared_memory_object*)’, inlined from ‘size_t SharedObjectClass::getSharedMemorySize()’ at sharedObjectClass.cpp:148:28: sharedObjectClass.cpp:29:12: warning: ‘size’ may be used uninitialized [-Wmaybe-uninitialized] 29 | return size; | ^~~~ sharedObjectClass.cpp: In member function ‘size_t SharedObjectClass::getSharedMemorySize()’: sharedObjectClass.cpp:27:14: note: ‘size’ was declared here 27 | offset_t size; | ^~~~ In function ‘uint64_t get_size(boost::interprocess::shared_memory_object*)’, inlined from ‘size_t SharedObjectClass::getSharedMemorySize()’ at sharedObjectClass.cpp:141:24: sharedObjectClass.cpp:29:12: warning: ‘size’ may be used uninitialized [-Wmaybe-uninitialized] 29 | return size; | ^~~~ sharedObjectClass.cpp: In member function ‘size_t SharedObjectClass::getSharedMemorySize()’: sharedObjectClass.cpp:27:14: note: ‘size’ was declared here 27 | offset_t size; | ^~~~ In function ‘uint64_t get_size(boost::interprocess::shared_memory_object*)’, inlined from ‘void SharedObjectClass::allocateSharedMemory()’ at sharedObjectClass.cpp:228:20: sharedObjectClass.cpp:29:12: warning: ‘size’ may be used uninitialized [-Wmaybe-uninitialized] 29 | return size; | ^~~~ sharedObjectClass.cpp: In member function ‘void SharedObjectClass::allocateSharedMemory()’: sharedObjectClass.cpp:27:14: note: ‘size’ was declared here 27 | offset_t size; | ^~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/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 -c stringAltrepOperations.cpp -o stringAltrepOperations.o stringAltrepOperations.cpp: In function ‘Rboolean sharedString_Inspect(SEXP, int, int, int, void (*)(SEXP, int, int, int))’: stringAltrepOperations.cpp:13:23: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘R_xlen_t’ {aka ‘long int’} [-Wformat=] 13 | Rprintf(" (len=%llu, COW=%d) shared string object\n", Rf_xlength(x), | ~~~^ ~~~~~~~~~~~~~ | | | | long long unsigned int R_xlen_t {aka long int} | %lu g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/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 -c utils.cpp -o utils.o g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o SharedObject.so C_interface.o RcppExports.o altrep.o altrepRegistration.o numericAltrepOperations.o sharedMemory.o sharedObjectClass.o stringAltrepOperations.o utils.o -lrt -L/home/hornik/tmp/R/lib -lR mkdir -p ../inst/include&&\ mkdir -p ../inst/include/SharedObject&&\ mkdir -p ../inst/usrlib ar -crv SharedObject.a C_interface.o RcppExports.o altrep.o altrepRegistration.o numericAltrepOperations.o sharedMemory.o sharedObjectClass.o stringAltrepOperations.o utils.o a - C_interface.o a - RcppExports.o a - altrep.o a - altrepRegistration.o a - numericAltrepOperations.o a - sharedMemory.o a - sharedObjectClass.o a - stringAltrepOperations.o a - utils.o cp "sharedMemory.h" "../inst/include/SharedObject/"&&\ cp SharedObject.a "../inst/usrlib/" make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpKC5gm8/R.INSTALL3e28b9429f616f/SharedObject/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-SharedObject/00new/SharedObject/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 (SharedObject) * installing *source* package ‘Gmedian’ ... ** this is package ‘Gmedian’ version ‘1.2.7’ ** package ‘Gmedian’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-16) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpOsMwuq/R.INSTALL3e28ad66d5a9b1/Gmedian/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RSpectra/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Gmedian.cpp -o Gmedian.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RSpectra/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RSpectra/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Weiszfeld.cpp -o Weiszfeld.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o Gmedian.so Gmedian.o RcppExports.o Weiszfeld.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpOsMwuq/R.INSTALL3e28ad66d5a9b1/Gmedian/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-Gmedian/00new/Gmedian/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 (Gmedian) * installing *source* package ‘GOstats’ ... ** this is package ‘GOstats’ version ‘2.73.0’ ** using staged installation ** R ** data ** 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 (GOstats) checking vioplot_0.5.1.tar.gz ... checking ClustAssess_1.0.0.tar.gz ... checking regplot_1.1.tar.gz ... checking beanplot_1.3.1.tar.gz ... checking berryFunctions_1.22.5.tar.gz ... checking DataVisualizations_1.3.3.tar.gz ... checking sand_2.0.0.tar.gz ... checking vipor_0.4.7.tar.gz ... Depends: Package: vioplot Depends: sm, zoo Timings: user system elapsed vioplot 49.674 5.307 56.462 Results: Check status summary: NOTE OK Source packages 0 1 Reverse depends 1 6 Check results summary: vioplot ... OK rdepends_beanplot ... OK rdepends_berryFunctions ... NOTE * checking Rd cross-references ... NOTE rdepends_ClustAssess ... OK rdepends_DataVisualizations ... OK rdepends_regplot ... OK rdepends_sand ... OK rdepends_vipor ... OK