* installing *source* package ‘bigmemory’ ... ** using staged installation checking for Sun Studio compiler... no checking for OS... Linux ** libs using C++ compiler: ‘Debian clang version 17.0.6 (3)’ clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -I../inst/include -DLINUX -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/uuid/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c BigMatrix.cpp -o BigMatrix.o In file included from BigMatrix.cpp:11: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:128: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/routines.h:26: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/iostream/Rstreambuf.h:53:20: warning: field precision should have type 'int', but argument has type 'std::streamsize' (aka 'long') [-Wformat] 53 | Rprintf("%.*s", num, s); | ~~^~ ~~~ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/iostream/Rstreambuf.h:57:21: warning: field precision should have type 'int', but argument has type 'std::streamsize' (aka 'long') [-Wformat] 57 | REprintf("%.*s", num, s); | ~~^~ ~~~ In file included from BigMatrix.cpp:11: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:181: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/print.h:30:26: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 30 | Rf_warningcall(call, s.c_str()); | ^~~~~~~~~ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/print.h:30:26: note: treat the string as an argument to avoid this 30 | Rf_warningcall(call, s.c_str()); | ^ | "%s", 3 warnings generated. clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -I../inst/include -DLINUX -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/uuid/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c RcppExports.cpp -o RcppExports.o In file included from RcppExports.cpp:4: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:128: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/routines.h:26: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/iostream/Rstreambuf.h:53:20: warning: field precision should have type 'int', but argument has type 'std::streamsize' (aka 'long') [-Wformat] 53 | Rprintf("%.*s", num, s); | ~~^~ ~~~ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/iostream/Rstreambuf.h:57:21: warning: field precision should have type 'int', but argument has type 'std::streamsize' (aka 'long') [-Wformat] 57 | REprintf("%.*s", num, s); | ~~^~ ~~~ In file included from RcppExports.cpp:4: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:181: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/print.h:30:26: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 30 | Rf_warningcall(call, s.c_str()); | ^~~~~~~~~ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/print.h:30:26: note: treat the string as an argument to avoid this 30 | Rf_warningcall(call, s.c_str()); | ^ | "%s", 3 warnings generated. clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -I../inst/include -DLINUX -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/uuid/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c SharedCounter.cpp -o SharedCounter.o clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -I../inst/include -DLINUX -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/uuid/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c bigmemory.cpp -o bigmemory.o In file included from bigmemory.cpp:6: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:128: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/routines.h:26: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/iostream/Rstreambuf.h:53:20: warning: field precision should have type 'int', but argument has type 'std::streamsize' (aka 'long') [-Wformat] 53 | Rprintf("%.*s", num, s); | ~~^~ ~~~ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/iostream/Rstreambuf.h:57:21: warning: field precision should have type 'int', but argument has type 'std::streamsize' (aka 'long') [-Wformat] 57 | REprintf("%.*s", num, s); | ~~^~ ~~~ In file included from bigmemory.cpp:6: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:181: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/print.h:30:26: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 30 | Rf_warningcall(call, s.c_str()); | ^~~~~~~~~ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/print.h:30:26: note: treat the string as an argument to avoid this 30 | Rf_warningcall(call, s.c_str()); | ^ | "%s", bigmemory.cpp:898:22: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 898 | Rf_warning(ws.c_str()); | ^~~~~~~~~~ bigmemory.cpp:2390:20: note: in instantiation of function template specialization 'ReadMatrix>' requested here 2390 | return ReadMatrix >( | ^ bigmemory.cpp:898:22: note: treat the string as an argument to avoid this 898 | Rf_warning(ws.c_str()); | ^ | "%s", bigmemory.cpp:898:22: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 898 | Rf_warning(ws.c_str()); | ^~~~~~~~~~ bigmemory.cpp:2395:20: note: in instantiation of function template specialization 'ReadMatrix>' requested here 2395 | return ReadMatrix >( | ^ bigmemory.cpp:898:22: note: treat the string as an argument to avoid this 898 | Rf_warning(ws.c_str()); | ^ | "%s", bigmemory.cpp:898:22: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 898 | Rf_warning(ws.c_str()); | ^~~~~~~~~~ bigmemory.cpp:2400:11: note: in instantiation of function template specialization 'ReadMatrix>' requested here 2400 | return ReadMatrix >( | ^ bigmemory.cpp:898:22: note: treat the string as an argument to avoid this 898 | Rf_warning(ws.c_str()); | ^ | "%s", bigmemory.cpp:898:22: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 898 | Rf_warning(ws.c_str()); | ^~~~~~~~~~ bigmemory.cpp:2405:20: note: in instantiation of function template specialization 'ReadMatrix>' requested here 2405 | return ReadMatrix >( | ^ bigmemory.cpp:898:22: note: treat the string as an argument to avoid this 898 | Rf_warning(ws.c_str()); | ^ | "%s", bigmemory.cpp:898:22: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 898 | Rf_warning(ws.c_str()); | ^~~~~~~~~~ bigmemory.cpp:2410:20: note: in instantiation of function template specialization 'ReadMatrix>' requested here 2410 | return ReadMatrix >( | ^ bigmemory.cpp:898:22: note: treat the string as an argument to avoid this 898 | Rf_warning(ws.c_str()); | ^ | "%s", bigmemory.cpp:898:22: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 898 | Rf_warning(ws.c_str()); | ^~~~~~~~~~ bigmemory.cpp:2415:20: note: in instantiation of function template specialization 'ReadMatrix>' requested here 2415 | return ReadMatrix >( | ^ bigmemory.cpp:898:22: note: treat the string as an argument to avoid this 898 | Rf_warning(ws.c_str()); | ^ | "%s", bigmemory.cpp:898:22: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 898 | Rf_warning(ws.c_str()); | ^~~~~~~~~~ bigmemory.cpp:2426:20: note: in instantiation of function template specialization 'ReadMatrix>' requested here 2426 | return ReadMatrix >( | ^ bigmemory.cpp:898:22: note: treat the string as an argument to avoid this 898 | Rf_warning(ws.c_str()); | ^ | "%s", bigmemory.cpp:898:22: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 898 | Rf_warning(ws.c_str()); | ^~~~~~~~~~ bigmemory.cpp:2431:20: note: in instantiation of function template specialization 'ReadMatrix>' requested here 2431 | return ReadMatrix >( | ^ bigmemory.cpp:898:22: note: treat the string as an argument to avoid this 898 | Rf_warning(ws.c_str()); | ^ | "%s", bigmemory.cpp:898:22: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 898 | Rf_warning(ws.c_str()); | ^~~~~~~~~~ bigmemory.cpp:2436:20: note: in instantiation of function template specialization 'ReadMatrix>' requested here 2436 | return ReadMatrix >( | ^ bigmemory.cpp:898:22: note: treat the string as an argument to avoid this 898 | Rf_warning(ws.c_str()); | ^ | "%s", bigmemory.cpp:898:22: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 898 | Rf_warning(ws.c_str()); | ^~~~~~~~~~ bigmemory.cpp:2441:20: note: in instantiation of function template specialization 'ReadMatrix>' requested here 2441 | return ReadMatrix >( | ^ bigmemory.cpp:898:22: note: treat the string as an argument to avoid this 898 | Rf_warning(ws.c_str()); | ^ | "%s", bigmemory.cpp:898:22: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 898 | Rf_warning(ws.c_str()); | ^~~~~~~~~~ bigmemory.cpp:2446:20: note: in instantiation of function template specialization 'ReadMatrix>' requested here 2446 | return ReadMatrix >( | ^ bigmemory.cpp:898:22: note: treat the string as an argument to avoid this 898 | Rf_warning(ws.c_str()); | ^ | "%s", bigmemory.cpp:898:22: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 898 | Rf_warning(ws.c_str()); | ^~~~~~~~~~ bigmemory.cpp:2451:20: note: in instantiation of function template specialization 'ReadMatrix>' requested here 2451 | return ReadMatrix >( | ^ bigmemory.cpp:898:22: note: treat the string as an argument to avoid this 898 | Rf_warning(ws.c_str()); | ^ | "%s", 15 warnings generated. clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -I../inst/include -DLINUX -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/uuid/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c deepcopy.cpp -o deepcopy.o In file included from deepcopy.cpp:8: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:128: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/routines.h:26: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/iostream/Rstreambuf.h:53:20: warning: field precision should have type 'int', but argument has type 'std::streamsize' (aka 'long') [-Wformat] 53 | Rprintf("%.*s", num, s); | ~~^~ ~~~ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/iostream/Rstreambuf.h:57:21: warning: field precision should have type 'int', but argument has type 'std::streamsize' (aka 'long') [-Wformat] 57 | REprintf("%.*s", num, s); | ~~^~ ~~~ In file included from deepcopy.cpp:8: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:181: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/print.h:30:26: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 30 | Rf_warningcall(call, s.c_str()); | ^~~~~~~~~ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/print.h:30:26: note: treat the string as an argument to avoid this 30 | Rf_warningcall(call, s.c_str()); | ^ | "%s", deepcopy.cpp:115:18: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 115 | Rf_warning(warnMsg.c_str()); | ^~~~~~~~~~~~~~~ deepcopy.cpp:115:18: note: treat the string as an argument to avoid this 115 | Rf_warning(warnMsg.c_str()); | ^ | "%s", 4 warnings generated. clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -I../inst/include -DLINUX -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/uuid/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c util.cpp -o util.o In file included from util.cpp:4: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:128: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/routines.h:26: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/iostream/Rstreambuf.h:53:20: warning: field precision should have type 'int', but argument has type 'std::streamsize' (aka 'long') [-Wformat] 53 | Rprintf("%.*s", num, s); | ~~^~ ~~~ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/iostream/Rstreambuf.h:57:21: warning: field precision should have type 'int', but argument has type 'std::streamsize' (aka 'long') [-Wformat] 57 | REprintf("%.*s", num, s); | ~~^~ ~~~ In file included from util.cpp:4: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27: In file included from /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:181: /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/print.h:30:26: warning: format string is not a string literal (potentially insecure) [-Wformat-security] 30 | Rf_warningcall(call, s.c_str()); | ^~~~~~~~~ /home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/Rcpp/include/Rcpp/print.h:30:26: note: treat the string as an argument to avoid this 30 | Rf_warningcall(call, s.c_str()); | ^ | "%s", 3 warnings generated. clang++-17 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-clang-17/lib -Wl,-O1 -o bigmemory.so BigMatrix.o RcppExports.o SharedCounter.o bigmemory.o deepcopy.o util.o -lrt -lm -L/home/hornik/tmp/R-d-clang-17/lib -lR installing to /srv/hornik/tmp/CRAN/bigmemory.Rcheck/00LOCK-bigmemory/00new/bigmemory/libs ** R ** inst ** byte-compile and prepare package for lazy loading Creating a generic function for ‘ncol’ from package ‘base’ in package ‘bigmemory’ Creating a generic function for ‘nrow’ from package ‘base’ in package ‘bigmemory’ Creating a generic function for ‘typeof’ from package ‘base’ in package ‘bigmemory’ ** 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 (bigmemory)