[ Started: 2022-10-15 20:20:38 CEST ] [ mistyR v1.5.1 for BioC-3.16 from https://github.com/saezlab/mistyR@devel ] [1] "Libraries: " "/home/omnipath/local/R/4.2-3.16" [3] "/home/omnipath/local/R/4.2" "/usr/lib/R/library" 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org Bioconductor version 3.16 (BiocManager 1.30.18), R 4.2.1 (2022-06-23) TeachingD... (NA -> 2.12 ) [CRAN] plotrix (NA -> 3.8-2 ) [CRAN] Formula (NA -> 1.2-4 ) [CRAN] prediction (NA -> 0.3.14 ) [CRAN] Metrics (NA -> 0.1.4 ) [CRAN] plotmo (NA -> 3.6.2 ) [CRAN] xgboost (NA -> 1.6.0.1) [CRAN] RSNNS (NA -> 0.4-14 ) [CRAN] iml (NA -> 0.11.1 ) [CRAN] earth (NA -> 5.3.1 ) [CRAN] Skipping 1 packages ahead of CRAN: BiocStyle Installing 10 packages: TeachingDemos, plotrix, Formula, prediction, Metrics, plotmo, xgboost, RSNNS, iml, earth trying URL 'https://cran.uni-muenster.de/src/contrib/TeachingDemos_2.12.tar.gz' Content type 'application/x-gzip' length 284717 bytes (278 KB) ================================================== downloaded 278 KB trying URL 'https://cran.uni-muenster.de/src/contrib/plotrix_3.8-2.tar.gz' Content type 'application/x-gzip' length 318217 bytes (310 KB) ================================================== downloaded 310 KB trying URL 'https://cran.uni-muenster.de/src/contrib/Formula_1.2-4.tar.gz' Content type 'application/x-gzip' length 164214 bytes (160 KB) ================================================== downloaded 160 KB trying URL 'https://cran.uni-muenster.de/src/contrib/prediction_0.3.14.tar.gz' Content type 'application/x-gzip' length 74182 bytes (72 KB) ================================================== downloaded 72 KB trying URL 'https://cran.uni-muenster.de/src/contrib/Metrics_0.1.4.tar.gz' Content type 'application/x-gzip' length 14898 bytes (14 KB) ================================================== downloaded 14 KB trying URL 'https://cran.uni-muenster.de/src/contrib/plotmo_3.6.2.tar.gz' Content type 'application/x-gzip' length 1287340 bytes (1.2 MB) ================================================== downloaded 1.2 MB trying URL 'https://cran.uni-muenster.de/src/contrib/xgboost_1.6.0.1.tar.gz' Content type 'application/x-gzip' length 1062074 bytes (1.0 MB) ================================================== downloaded 1.0 MB trying URL 'https://cran.uni-muenster.de/src/contrib/RSNNS_0.4-14.tar.gz' Content type 'application/x-gzip' length 974122 bytes (951 KB) ================================================== downloaded 951 KB trying URL 'https://cran.uni-muenster.de/src/contrib/iml_0.11.1.tar.gz' Content type 'application/x-gzip' length 509884 bytes (497 KB) ================================================== downloaded 497 KB trying URL 'https://cran.uni-muenster.de/src/contrib/earth_5.3.1.tar.gz' Content type 'application/x-gzip' length 1545068 bytes (1.5 MB) ================================================== downloaded 1.5 MB * installing *source* package ‘TeachingDemos’ ... ** package ‘TeachingDemos’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** 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 (TeachingDemos) * installing *source* package ‘plotrix’ ... ** package ‘plotrix’ 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 (plotrix) * installing *source* package ‘Formula’ ... ** package ‘Formula’ 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 (Formula) * installing *source* package ‘prediction’ ... ** package ‘prediction’ 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 ** 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 (prediction) * installing *source* package ‘Metrics’ ... ** package ‘Metrics’ 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 (Metrics) * installing *source* package ‘xgboost’ ... ** package ‘xgboost’ successfully unpacked and MD5 sums checked ** using staged installation checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking Backtrace lib... checking for backtrace in -lexecinfo... no checking endian... configure: creating ./config.status config.status: creating src/Makevars ** libs Makevars:17: -DXGBOOST_STRICT_R_MODE=1 Makevars:17: -DDMLC_LOG_BEFORE_THROW=0 Makevars:17: -DDMLC_ENABLE_STD_THREAD=1 Makevars:17: -DDMLC_DISABLE_STDIN=1 Makevars:17: -DDMLC_LOG_CUSTOMIZE=1 Makevars:17: -DXGBOOST_CUSTOMIZE_LOGGER=1 Makevars:17: -DRABIT_CUSTOMIZE_MSG_ g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=1 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -fopenmp -DDMLC_CMAKE_LITTLE_ENDIAN=1 -pthread -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c xgboost_R.cc -o xgboost_R.o g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=1 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -fopenmp -DDMLC_CMAKE_LITTLE_ENDIAN=1 -pthread -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c xgboost_custom.cc -o xgboost_custom.o gcc -I"/usr/share/R/include" -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=1 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c xgboost_assert.c -o xgboost_assert.o gcc -I"/usr/share/R/include" -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=1 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=1 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -fopenmp -DDMLC_CMAKE_LITTLE_ENDIAN=1 -pthread -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c amalgamation/xgboost-all0.cc -o amalgamation/xgboost-all0.o g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=1 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -fopenmp -DDMLC_CMAKE_LITTLE_ENDIAN=1 -pthread -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c amalgamation/dmlc-minimum0.cc -o amalgamation/dmlc-minimum0.o g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=1 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -fopenmp -DDMLC_CMAKE_LITTLE_ENDIAN=1 -pthread -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rabit/src/engine.cc -o rabit/src/engine.o g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=1 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -fopenmp -DDMLC_CMAKE_LITTLE_ENDIAN=1 -pthread -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rabit/src/rabit_c_api.cc -o rabit/src/rabit_c_api.o g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=1 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -fopenmp -DDMLC_CMAKE_LITTLE_ENDIAN=1 -pthread -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rabit/src/allreduce_base.cc -o rabit/src/allreduce_base.o g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o xgboost.so ./xgboost_R.o ./xgboost_custom.o ./xgboost_assert.o ./init.o ./amalgamation/xgboost-all0.o ./amalgamation/dmlc-minimum0.o ./rabit/src/engine.o ./rabit/src/rabit_c_api.o ./rabit/src/allreduce_base.o -fopenmp -DDMLC_CMAKE_LITTLE_ENDIAN=1 -pthread -L/usr/lib/R/lib -lR installing to /home/omnipath/local/R/4.2-3.16/00LOCK-xgboost/00new/xgboost/libs ** R ** data ** demo ** 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 (xgboost) * installing *source* package ‘RSNNS’ ... ** package ‘RSNNS’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c RSNNS_init.c -o RSNNS_init.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c SnnsCLib.cpp -o SnnsCLib.o gcc -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c SnnsCLibGenericR_util.c -o SnnsCLibGenericR_util.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c SnnsCLibWrapper.cpp -o SnnsCLibWrapper.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c art_ui.cpp -o art_ui.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c arttr_f.cpp -o arttr_f.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bn_JordElm.cpp -o bn_JordElm.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bn_art1.cpp -o bn_art1.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bn_art2.cpp -o bn_art2.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bn_artmap.cpp -o bn_artmap.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bn_assoz.cpp -o bn_assoz.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bn_kohonen.cpp -o bn_kohonen.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cc_display.cpp -o cc_display.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cc_glob.cpp -o cc_glob.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cc_learn.cpp -o cc_learn.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cc_modify.cpp -o cc_modify.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cc_prune.cpp -o cc_prune.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dlvq_learn.cpp -o dlvq_learn.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c func_tbl.cpp -o func_tbl.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init_f.cpp -o init_f.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kernel.cpp -o kernel.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kr_JordElm.cpp -o kr_JordElm.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kr_amap.cpp -o kr_amap.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kr_art.cpp -o kr_art.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kr_art1.cpp -o kr_art1.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kr_io.cpp -o kr_io.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kr_mem.cpp -o kr_mem.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kr_newpattern.cpp -o kr_newpattern.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kr_pat_parse.cpp -o kr_pat_parse.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kr_pat_scan.cpp -o kr_pat_scan.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kr_td.cpp -o kr_td.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kr_ui.cpp -o kr_ui.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c learn_f.cpp -o learn_f.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c matrix.cpp -o matrix.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c prun_f.cpp -o prun_f.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c remap_f.cpp -o remap_f.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c scaled_conj_grad.cpp -o scaled_conj_grad.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c stochastic_learn_f.cpp -o stochastic_learn_f.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c tacoma_learn.cpp -o tacoma_learn.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c tbl_func.cpp -o tbl_func.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c trans_f.cpp -o trans_f.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c u_lrand48.cpp -o u_lrand48.o g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -DR_USE_C99_IN_CXX -I'/home/omnipath/local/R/4.2-3.16/Rcpp/include' -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c update_f.cpp -o update_f.o g++ -std=gnu++11 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o RSNNS.so RSNNS_init.o SnnsCLib.o SnnsCLibGenericR_util.o SnnsCLibWrapper.o art_ui.o arttr_f.o bn_JordElm.o bn_art1.o bn_art2.o bn_artmap.o bn_assoz.o bn_kohonen.o cc_display.o cc_glob.o cc_learn.o cc_modify.o cc_prune.o dlvq_learn.o func_tbl.o init_f.o kernel.o kr_JordElm.o kr_amap.o kr_art.o kr_art1.o kr_art2.o kr_funcs.o kr_inversion.o kr_io.o kr_mem.o kr_newpattern.o kr_pat_parse.o kr_pat_scan.o kr_td.o kr_ui.o learn_f.o matrix.o prun_f.o remap_f.o scaled_conj_grad.o stochastic_learn_f.o tacoma_learn.o tbl_func.o trans_f.o u_lrand48.o update_f.o -L/usr/lib/R/lib -lR installing to /home/omnipath/local/R/4.2-3.16/00LOCK-RSNNS/00new/RSNNS/libs ** 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 ** 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 (RSNNS) * installing *source* package ‘plotmo’ ... ** package ‘plotmo’ 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 (plotmo) * installing *source* package ‘iml’ ... ** package ‘iml’ 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 (iml) * installing *source* package ‘earth’ ... ** package ‘earth’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c allowed.c -o allowed.o gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c earth.c -o earth.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -c leaps.f -o leaps.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -c leapshdr.f -o leapshdr.o gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-zYgbYq/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rentries.c -o rentries.o gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o earth.so allowed.o earth.o leaps.o leapshdr.o rentries.o -lblas -lgfortran -lm -lquadmath -lgfortran -lm -lquadmath -L/usr/lib/R/lib -lR installing to /home/omnipath/local/R/4.2-3.16/00LOCK-earth/00new/earth/libs ** R ** data *** moving datasets to lazyload DB ** 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 (earth) The downloaded source packages are in ‘/tmp/Rtmp6L8Ibm/downloaded_packages’ [ Finished: 2022-10-15 20:25:07 CEST ]