* installing *source* package ‘pcaL1’ ... ** package ‘pcaL1’ successfully unpacked and MD5 sums checked ** using staged installation checking for gcc... /usr/local/clang18/bin/clang checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether /usr/local/clang18/bin/clang accepts -g... yes checking for /usr/local/clang18/bin/clang option to enable C11 features... none needed checking how to run the C preprocessor... /usr/local/clang18/bin/clang -E checking for pkg-config... /usr/bin/pkg-config configure: set compile and link flags according to pkg-config configure: compile flags are -I/usr/include/coin configure: link flags are -lClpSolver -lClp -lCoinUtils checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for stdbool.h... yes checking for Clp_C_Interface.h... yes checking for library containing Clp_newModel... none required checking for library containing Clp_setRowName... none required configure: creating ./config.status config.status: creating src/Makevars ** libs using C compiler: ‘clang version 18.1.4’ make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/pcaL1/src' /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o In file included from init.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c l1pca.c -o l1pca.o In file included from l1pca.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c l1pca_R.c -o l1pca_R.o In file included from l1pca_R.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c l1pcahp.c -o l1pcahp.o In file included from l1pcahp.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c l1pcahp_R.c -o l1pcahp_R.o In file included from l1pcahp_R.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c l1pcastar.c -o l1pcastar.o In file included from l1pcastar.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void l1pcastar.c:20:7: warning: variable 'numprojdim' set but not used [-Wunused-but-set-variable] 20 | int numprojdim = probleminfo->numprojdim; | ^ 2 warnings generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c l1pcastar_R.c -o l1pcastar_R.o In file included from l1pcastar_R.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c l1projection.c -o l1projection.o In file included from l1projection.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c l1projection_R.c -o l1projection_R.o In file included from l1projection_R.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pcal1.c -o pcal1.o In file included from pcal1.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pcal1_R.c -o pcal1_R.o In file included from pcal1_R.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pcalp.c -o pcalp.o In file included from pcalp.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pcalp_R.c -o pcalp_R.o In file included from pcalp_R.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sharpel1pca.c -o sharpel1pca.o In file included from sharpel1pca.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sharpel1pca_R.c -o sharpel1pca_R.o In file included from sharpel1pca_R.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sharpel1rs.c -o sharpel1rs.o In file included from sharpel1rs.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sharpel1rs_R.c -o sharpel1rs_R.o In file included from sharpel1rs_R.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sparsel1pca.c -o sparsel1pca.o In file included from sparsel1pca.c:4: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sparsel1pca_R.c -o sparsel1pca_R.o In file included from sparsel1pca_R.c:1: In file included from ./type.h:11: /usr/include/coin/Clp_C_Interface.h:77:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 77 | COINLIBAPI Clp_Solve *COINLINKAGE ClpSolve_new(); | ^ | void 1 warning generated. /usr/local/clang18/bin/clang -shared -L/usr/local/clang/lib64 -L/usr/local/clang18/lib -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -o pcaL1.so init.o l1pca.o l1pca_R.o l1pcahp.o l1pcahp_R.o l1pcastar.o l1pcastar_R.o l1projection.o l1projection_R.o pcal1.o pcal1_R.o pcalp.o pcalp_R.o sharpel1pca.o sharpel1pca_R.o sharpel1rs.o sharpel1rs_R.o sparsel1pca.o sparsel1pca_R.o -lClpSolver -lClp -lCoinUtils -L/data/gannet/ripley/R/R-clang/lib -lRlapack -L/data/gannet/ripley/R/R-clang/lib -lRblas -lFortran_main -lFortranRuntime -lFortranDecimal -lm make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/pcaL1/src' make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/pcaL1/src' make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/pcaL1/src' installing to /data/gannet/ripley/R/packages/tests-clang/pcaL1.Rcheck/00LOCK-pcaL1/00new/pcaL1/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 (pcaL1)