downloading reverse dependencies ... downloading BGData_2.4.1.tar.gz ... ok downloading bootSVD_1.1.tar.gz ... ok downloading dualScale_1.0.0.tar.gz ... ok downloading ETLUtils_1.5.tar.gz ... ok downloading geoTS_0.1.8.tar.gz ... ok downloading Haplin_7.3.2.tar.gz ... ok downloading LOMAR_0.5.0.tar.gz ... ok downloading omicwas_0.8.0.tar.gz ... ok downloading propagate_1.0-6.tar.gz ... ok downloading RecordLinkage_0.4-12.4.tar.gz ... ok downloading rmgarch_1.3-9.tar.gz ... ok downloading rmio_0.4.0.tar.gz ... ok downloading rOCEAN_1.0.tar.gz ... ok downloading SFtools_0.1.0.tar.gz ... ok downloading symDMatrix_2.1.1.tar.gz ... ok downloading bamlss_1.2-5.tar.gz ... ok downloading bigchess_1.9.1.tar.gz ... ok downloading bit_4.5.0.1.tar.gz ... ok downloading credsubs_1.1.1.tar.gz ... ok downloading future.tests_0.7.0.tar.gz ... ok downloading LinkedMatrix_1.4.0.tar.gz ... ok downloading nat.nblast_1.6.7.tar.gz ... ok downloading RMOA_1.1.0.tar.gz ... ok installing dependencies ‘alphashape3d’, ‘BayesX’, ‘BGData’, ‘dendroextras’, ‘eba’, ‘ff’, ‘ffbase’, ‘glogis’, ‘LinkedMatrix’, ‘lme4’, ‘nat’, ‘Rcpp’, ‘recommenderlab’, ‘RMOAjars’, ‘Rmpi’, ‘scoringRules’, ‘sdPrior’, ‘symDMatrix’, ‘synchronicity’, ‘wordspace’ Warning: package ‘ffbase’ is not available for this version of R A version of this package 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 ‘sparsesvd’, ‘iotools’, ‘GB2’, ‘nat.utils’, ‘recosystem’ begin installing package ‘sparsesvd’ begin installing package ‘Rcpp’ begin installing package ‘iotools’ begin installing package ‘LinkedMatrix’ begin installing package ‘nat.utils’ begin installing package ‘eba’ begin installing package ‘Rmpi’ begin installing package ‘glogis’ begin installing package ‘dendroextras’ begin installing package ‘RMOAjars’ begin installing package ‘ff’ make: *** [Makefile:37: Rmpi.ts] Error 1 * installing *source* package ‘dendroextras’ ... ** this is package ‘dendroextras’ version ‘0.2.3’ ** package ‘dendroextras’ 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 (dendroextras) * installing *source* package ‘nat.utils’ ... ** this is package ‘nat.utils’ version ‘0.6.1’ ** package ‘nat.utils’ 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 (nat.utils) * installing *source* package ‘glogis’ ... ** this is package ‘glogis’ version ‘1.0-2’ ** package ‘glogis’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** demo ** 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 (glogis) * installing *source* package ‘RMOAjars’ ... ** this is package ‘RMOAjars’ version ‘1.2.0’ ** package ‘RMOAjars’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help No man pages found in package ‘RMOAjars’ *** 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 (RMOAjars) * installing *source* package ‘LinkedMatrix’ ... ** this is package ‘LinkedMatrix’ version ‘1.4.0’ ** package ‘LinkedMatrix’ 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 (LinkedMatrix) * installing *source* package ‘eba’ ... ** this is package ‘eba’ version ‘1.10-0’ ** package ‘eba’ 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 (eba) * installing *source* package ‘iotools’ ... ** this is package ‘iotools’ version ‘0.3-5’ ** package ‘iotools’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-12) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpylgYHG/R.INSTALL34326757c6e25a/iotools/src' gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c acc.c -o acc.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c as_output.c -o as_output.o as_output.c: In function ‘as_output_vector’: as_output.c:490:43: warning: variable ‘mod’ set but not used [-Wunused-but-set-variable] 490 | int key_flag = asInteger(sNamesFlag), mod = 0; | ^~~ gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ctapply.c -o ctapply.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lnchunk.c -o lnchunk.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rbind.c -o rbind.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c split.c -o split.o split.c: In function ‘mat_split’: split.c:168:9: warning: ‘rnam’ may be used uninitialized [-Wmaybe-uninitialized] 168 | SET_STRING_ELT(rnam, i, R_BlankString); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ split.c:17:13: note: ‘rnam’ was declared here 17 | SEXP res, rnam; | ^~~~ gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c split_df.c -o split_df.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c split_df_fw.c -o split_df_fw.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c stdio.c -o stdio.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c strutil.c -o strutil.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c tparse.c -o tparse.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c utils.c -o utils.o gcc-14 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o iotools.so acc.o as_output.o ctapply.o lnchunk.o rbind.o split.o split_df.o split_df_fw.o stdio.o strutil.o tparse.o utils.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpylgYHG/R.INSTALL34326757c6e25a/iotools/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-iotools/00new/iotools/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 (iotools) * installing *source* package ‘sparsesvd’ ... ** this is package ‘sparsesvd’ version ‘0.2-2’ ** package ‘sparsesvd’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-12) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpTgEndQ/R.INSTALL343263c67a2ba/sparsesvd/src' gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c las2.c -o las2.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c main.c -o main.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c svdlib.c -o svdlib.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c svdutil.c -o svdutil.o gcc-14 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o sparsesvd.so las2.o main.o svdlib.o svdutil.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpTgEndQ/R.INSTALL343263c67a2ba/sparsesvd/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-sparsesvd/00new/sparsesvd/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 (sparsesvd) * installing *source* package ‘Rcpp’ ... ** this is package ‘Rcpp’ version ‘1.0.14’ ** package ‘Rcpp’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-12) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpq9p9CM/R.INSTALL34326b3fb48341/Rcpp/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c api.cpp -o api.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c attributes.cpp -o attributes.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c barrier.cpp -o barrier.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c date.cpp -o date.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c module.cpp -o module.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c rcpp_init.cpp -o rcpp_init.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o Rcpp.so api.o attributes.o barrier.o date.o module.o rcpp_init.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpq9p9CM/R.INSTALL34326b3fb48341/Rcpp/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-Rcpp/00new/Rcpp/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 (Rcpp) begin installing package ‘GB2’ begin installing package ‘alphashape3d’ begin installing package ‘BayesX’ begin installing package ‘recosystem’ begin installing package ‘synchronicity’ begin installing package ‘wordspace’ begin installing package ‘scoringRules’ begin installing package ‘nat’ begin installing package ‘lme4’ * installing *source* package ‘BayesX’ ... ** this is package ‘BayesX’ version ‘0.3-3’ ** package ‘BayesX’ 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 (BayesX) * installing *source* package ‘alphashape3d’ ... ** this is package ‘alphashape3d’ version ‘1.3.2’ ** package ‘alphashape3d’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-12) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpt4lwwz/R.INSTALL343ab261a0d350/alphashape3d/src' gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c alphashape3d.c -o alphashape3d.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -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 gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c insideashape.c -o insideashape.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c surfaceNormals.c -o surfaceNormals.o gcc-14 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o alphashape3d.so alphashape3d.o init.o insideashape.o surfaceNormals.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpt4lwwz/R.INSTALL343ab261a0d350/alphashape3d/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-alphashape3d/00new/alphashape3d/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 (alphashape3d) * installing *source* package ‘ff’ ... ** this is package ‘ff’ version ‘4.5.2’ ** using staged installation 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 accepts -g... yes checking for gcc-14 option to accept ISO C89... none needed checking whether we are using the GNU C++ compiler... yes checking whether g++-14 -std=gnu++17 accepts -g... yes checking how to run the C++ preprocessor... g++-14 -std=gnu++17 -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking sys/vfs.h usability... yes checking sys/vfs.h presence... yes checking for sys/vfs.h... yes checking sys/mman.h usability... yes checking sys/mman.h presence... yes checking for sys/mman.h... yes checking sys/file.h usability... yes checking sys/file.h presence... yes checking for sys/file.h... yes checking for sys/stat.h... (cached) yes checking for unistd.h... (cached) yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking sys/mount.h usability... yes checking sys/mount.h presence... yes checking for sys/mount.h... yes checking for struct statfs.f_iosize... no checking sys/statfs.h usability... yes checking sys/statfs.h presence... yes checking for sys/statfs.h... yes checking for struct statfs.f_iosize... (cached) no checking sys/statvfs.h usability... yes checking sys/statvfs.h presence... yes checking for sys/statvfs.h... yes checking for off_t... yes checking for size_t... yes checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking for _LARGEFILE_SOURCE value needed for large files... no checking for fseeko... yes configure: creating ./config.status config.status: creating src/ac_config.h config.status: src/ac_config.h is unchanged ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-12) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-12) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpieb2Mn/R.INSTALL34327b7cd14bef/ff/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c Error.cpp -o Error.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c FSInfo_statfs.cpp -o FSInfo_statfs.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c FSInfo_win32.cpp -o FSInfo_win32.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c MMapFileMapping.cpp -o MMapFileMapping.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c Win32FileMapping.cpp -o Win32FileMapping.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c ff.cpp -o ff.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ordermerge.c -o ordermerge.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c r_ff.c -o r_ff.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c r_file_resize.cpp -o r_file_resize.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c utk_file_allocate_fseek.cpp -o utk_file_allocate_fseek.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c utk_file_resize.cpp -o utk_file_resize.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o ff.so Error.o FSInfo_statfs.o FSInfo_win32.o MMapFileMapping.o Win32FileMapping.o ff.o ordermerge.o r_ff.o r_file_resize.o utk_file_allocate_fseek.o utk_file_resize.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpieb2Mn/R.INSTALL34327b7cd14bef/ff/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-ff/00new/ff/libs ** R ** exec ** 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 (ff) begin installing package ‘symDMatrix’ * installing *source* package ‘GB2’ ... ** this is package ‘GB2’ version ‘2.1.1’ ** package ‘GB2’ 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 (GB2) begin installing package ‘sdPrior’ * installing *source* package ‘symDMatrix’ ... ** this is package ‘symDMatrix’ version ‘2.1.1’ ** package ‘symDMatrix’ 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 (symDMatrix) * installing *source* package ‘nat’ ... ** this is package ‘nat’ version ‘1.8.24’ ** package ‘nat’ 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 *** 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 (nat) * installing *source* package ‘synchronicity’ ... ** this is package ‘synchronicity’ version ‘1.3.10’ ** package ‘synchronicity’ successfully unpacked and MD5 sums checked ** using staged installation checking for Sun Studio compiler... no checking for OS... Linux ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-12) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpVGQYk5/R.INSTALL343ab6284f893f/synchronicity/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../inst -DLINUX -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/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/include" -DNDEBUG -I../inst -DLINUX -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/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 synchronicity.cpp -o synchronicity.o In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:17, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/shared_ptr.hpp:17, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/date_time/local_time/local_date_time.hpp:15, from synchronicity.cpp:4: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:326:33: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 326 | explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) ) | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/move/algorithm.hpp:32, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/move/move.hpp:32, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/interprocess/anonymous_shared_memory.hpp:25, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/interprocess/detail/managed_open_or_create_impl.hpp:31, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/interprocess/sync/named_upgradable_mutex.hpp:27, from synchronicity.cpp:3: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 354 | explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn() | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 365 | shared_ptr( std::auto_ptr && r ): px(r.get()), pn() | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 423 | shared_ptr & operator=( std::auto_ptr & r ) | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 430 | shared_ptr & operator=( std::auto_ptr && r ) | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 432 | this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this ); | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/iterator/iterator_categories.hpp:16, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/iterator/iterator_facade.hpp:13, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/range/iterator_range_core.hpp:27, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/algorithm/string/replace.hpp:16, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/date_time/date_facet.hpp:17, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/date_time/gregorian/gregorian_io.hpp:16, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/date_time/gregorian/gregorian.hpp:31, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/date_time/posix_time/time_formatters.hpp:12, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/date_time/posix_time/posix_time.hpp:24, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/date_time/local_time/local_date_time.hpp:18: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp: At global scope: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../inst -DLINUX -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/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 util.cpp -o util.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o synchronicity.so RcppExports.o synchronicity.o util.o -lrt -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpVGQYk5/R.INSTALL343ab6284f893f/synchronicity/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-synchronicity/00new/synchronicity/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 (synchronicity) begin installing package ‘BGData’ * installing *source* package ‘sdPrior’ ... ** this is package ‘sdPrior’ version ‘1.0-0’ ** package ‘sdPrior’ 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 (sdPrior) * installing *source* package ‘BGData’ ... ** this is package ‘BGData’ version ‘2.4.1’ ** package ‘BGData’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-12) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmprNW9Pk/R.INSTALL343f1756b02fa7/BGData/src' gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c fitLSYS.c -o fitLSYS.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c preprocess.c -o preprocess.o preprocess.c: In function ‘preprocess_int._omp_fn.0’: preprocess.c:40:31: warning: ‘mean’ may be used uninitialized [-Wmaybe-uninitialized] 40 | *cout = mean; | ~~~~~~^~~~~~ preprocess.c:11:16: note: ‘mean’ was declared here 11 | double mean; | ^~~~ preprocess.c: In function ‘preprocess_real._omp_fn.0’: preprocess.c:91:31: warning: ‘mean’ may be used uninitialized [-Wmaybe-uninitialized] 91 | *cout = mean; | ~~~~~~^~~~~~ preprocess.c:61:16: note: ‘mean’ was declared here 61 | double mean; | ^~~~ gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rayOLS.c -o rayOLS.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c summarize.c -o summarize.o gcc-14 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o BGData.so fitLSYS.o init.o preprocess.o rayOLS.o summarize.o -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmprNW9Pk/R.INSTALL343f1756b02fa7/BGData/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-BGData/00new/BGData/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 (BGData) * installing *source* package ‘wordspace’ ... ** this is package ‘wordspace’ version ‘0.2-8’ ** package ‘wordspace’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-12) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpzgp07B/R.INSTALL343aba122263a0/wordspace/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -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/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c wordspace.cpp -o wordspace.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o wordspace.so RcppExports.o wordspace.o -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpzgp07B/R.INSTALL343aba122263a0/wordspace/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-wordspace/00new/wordspace/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 (wordspace) * installing *source* package ‘recosystem’ ... ** this is package ‘recosystem’ version ‘0.5.1’ ** package ‘recosystem’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-12) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-12) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpmB3Pl0/R.INSTALL343ab82d9337e3/recosystem/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c mf.cpp -o mf.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c reco-output.cpp -o reco-output.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c reco-predict.cpp -o reco-predict.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c reco-read-data.cpp -o reco-read-data.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c reco-train.cpp -o reco-train.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c reco-tune.cpp -o reco-tune.o gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c register_routines.c -o register_routines.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o recosystem.so mf.o reco-output.o reco-predict.o reco-read-data.o reco-train.o reco-tune.o register_routines.o -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpmB3Pl0/R.INSTALL343ab82d9337e3/recosystem/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-recosystem/00new/recosystem/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 (recosystem) begin installing package ‘recommenderlab’ * installing *source* package ‘scoringRules’ ... ** this is package ‘scoringRules’ version ‘1.1.3’ ** package ‘scoringRules’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-12) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp2WKian/R.INSTALL343abd66ecb91b/scoringRules/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/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 -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/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 -DR_NO_REMAP -c mixn.cpp -o mixn.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/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 -DR_NO_REMAP -c procs_casestudy.cpp -o procs_casestudy.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/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 -DR_NO_REMAP -c procs_es.cpp -o procs_es.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o scoringRules.so RcppExports.o mixn.o procs_casestudy.o procs_es.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/Rtmp2WKian/R.INSTALL343abd66ecb91b/scoringRules/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-scoringRules/00new/scoringRules/libs ** 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 ** 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 (scoringRules) * installing *source* package ‘recommenderlab’ ... ** this is package ‘recommenderlab’ version ‘1.0.6’ ** package ‘recommenderlab’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** 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 (recommenderlab) * installing *source* package ‘lme4’ ... ** this is package ‘lme4’ version ‘1.1-36’ ** package ‘lme4’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-12) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp0eaVEV/R.INSTALL343abf5590e96b/lme4/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/R-d-gcc-14/library/Matrix/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DNDEBUG -DEIGEN_DONT_VECTORIZE -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c external.cpp -o external.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/R-d-gcc-14/library/Matrix/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DNDEBUG -DEIGEN_DONT_VECTORIZE -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c glmFamily.cpp -o glmFamily.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/R-d-gcc-14/library/Matrix/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DNDEBUG -DEIGEN_DONT_VECTORIZE -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c optimizer.cpp -o optimizer.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/R-d-gcc-14/library/Matrix/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DNDEBUG -DEIGEN_DONT_VECTORIZE -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c predModule.cpp -o predModule.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/R-d-gcc-14/library/Matrix/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DNDEBUG -DEIGEN_DONT_VECTORIZE -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c respModule.cpp -o respModule.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o lme4.so external.o glmFamily.o optimizer.o predModule.o respModule.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp0eaVEV/R.INSTALL343abf5590e96b/lme4/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-lme4/00new/lme4/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 (lme4) make: Target 'all' not remade because of errors. * installing *source* package ‘Rmpi’ ... ** this is package ‘Rmpi’ version ‘0.7-2.1’ ** package ‘Rmpi’ 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 we are using the GNU C compiler... yes checking whether gcc-14 accepts -g... yes checking for gcc-14 option to accept ISO C89... none needed checking for pkg-config... /usr/bin/pkg-config checking if pkg-config knows about OpenMPI... yes checking for orted... no configure: error: Cannot find orted. Rmpi needs orted to run. ERROR: configuration failed for package ‘Rmpi’ * removing ‘/home/hornik/tmp/CRAN_recheck/Library/Rmpi’ Warning in (function (pkgs, lib, repos = getOption("repos"), contriburl = contrib.url(repos, : installation of package ‘Rmpi’ failed Calls: -> do.call -> checking ff_4.5.2.tar.gz ... checking bootSVD_1.1.tar.gz ... checking BGData_2.4.1.tar.gz ... checking dualScale_1.0.0.tar.gz ... checking ETLUtils_1.5.tar.gz ... checking geoTS_0.1.8.tar.gz ... checking Haplin_7.3.2.tar.gz ... checking LOMAR_0.5.0.tar.gz ... checking omicwas_0.8.0.tar.gz ... checking propagate_1.0-6.tar.gz ... checking RecordLinkage_0.4-12.4.tar.gz ... checking rmgarch_1.3-9.tar.gz ... checking rmio_0.4.0.tar.gz ... checking rOCEAN_1.0.tar.gz ... checking SFtools_0.1.0.tar.gz ... checking symDMatrix_2.1.1.tar.gz ... checking bamlss_1.2-5.tar.gz ... checking bigchess_1.9.1.tar.gz ... checking bit_4.5.0.1.tar.gz ... checking credsubs_1.1.1.tar.gz ... checking future.tests_0.7.0.tar.gz ... checking LinkedMatrix_1.4.0.tar.gz ... checking nat.nblast_1.6.7.tar.gz ... checking RMOA_1.1.0.tar.gz ... Depends: Package: ff Depends: R (>= 3.4.0), bit (>= 4.0.0), utils Timings: user system elapsed ff 92.432 6.184 101.163 Results: Check status summary: NOTE OK Source packages 0 1 Reverse depends 6 17 Check results summary: ff ... OK rdepends_bamlss ... OK rdepends_BGData ... OK rdepends_bigchess ... OK rdepends_bit ... OK rdepends_bootSVD ... NOTE * checking Rd files ... [0s/0s] NOTE * checking Rd cross-references ... NOTE rdepends_credsubs ... OK rdepends_dualScale ... OK rdepends_ETLUtils ... OK rdepends_future.tests ... OK rdepends_geoTS ... NOTE * checking Rd cross-references ... NOTE rdepends_Haplin ... OK rdepends_LinkedMatrix ... OK rdepends_LOMAR ... OK rdepends_nat.nblast ... NOTE * checking Rd cross-references ... NOTE rdepends_omicwas ... OK rdepends_propagate ... NOTE * checking Rd cross-references ... NOTE rdepends_RecordLinkage ... NOTE * checking Rd cross-references ... NOTE rdepends_rmgarch ... NOTE * checking Rd files ... [0s/0s] NOTE * checking Rd cross-references ... NOTE rdepends_rmio ... OK rdepends_RMOA ... OK rdepends_rOCEAN ... OK rdepends_SFtools ... OK rdepends_symDMatrix ... OK Check results changes: Package: LOMAR Check: tests Old result: ERROR New result: OK