* installing *source* package ‘pcaL1’ ...
** package ‘pcaL1’ successfully unpacked and MD5 sums checked
** using staged installation
checking for gcc... /usr/local/clang19/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/clang19/bin/clang accepts -g... yes
checking for /usr/local/clang19/bin/clang option to enable C11 features... none needed
checking how to run the C preprocessor... /usr/local/clang19/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 19.1.5’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/pcaL1/src'
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c l1pca.c -o l1pca.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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.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
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/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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.
1 warning generated.
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c l1projection_R.c -o l1projection_R.o
1 warning generated.
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/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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.
1 warning generated.
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sharpel1rs.c -o sharpel1rs.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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.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
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/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sparsel1pca.c -o sparsel1pca.o
1 warning generated.
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/coin -isystem /usr/local/clang19/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.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
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.
1 warning generated.
/usr/local/clang19/bin/clang -shared -L/usr/local/clang/lib64 -L/usr/local/clang19/lib -L/usr/local/clang19/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc14/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 -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)