* installing *source* package ‘bfp’ ...
** package ‘bfp’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 18.1.4’
using C++ compiler: ‘clang version 18.1.4’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/bfp/src'
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D R_NO_REMAP -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c hyp2f1.c -o hyp2f1.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D R_NO_REMAP -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c mtherr.c -o mtherr.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D R_NO_REMAP -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Inewmat -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c bayesMfp.cpp -o bayesMfp.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D R_NO_REMAP -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Inewmat -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c dataStructure.cpp -o dataStructure.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D R_NO_REMAP -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Inewmat -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c hyperg.cpp -o hyperg.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D R_NO_REMAP -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Inewmat -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c combinatorics.cpp -o combinatorics.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D R_NO_REMAP -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Inewmat -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c RnewMat.cpp -o RnewMat.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D R_NO_REMAP -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -Inewmat -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c conversions.cpp -o conversions.o
rm: cannot remove '*.a': No such file or directory
make[1]: [Makevars:31: subclean] Error 1 (ignored)
(cd newmat && MkInclude="/data/gannet/ripley/R/R-clang/etc/Makeconf" make clean) || exit 1;
make[2]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/bfp/src/newmat'
rm -f -r .libs _libs libnewmat.a
rm -f newmat1.o newmat2.o newmat3.o newmat4.o newmat5.o newmat6.o newmat7.o newmat8.o newmatex.o bandmat.o submat.o myexcept.o cholesky.o evalue.o fft.o hholder.o jacobi.o newfft.o sort.o svd.o nm_misc.o newmatrm.o newmat9.o
make[2]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/bfp/src/newmat'
(cd newmat && CFLAGS="-O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 " CXXFLAGS="-O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 " MAKE="make -f \"/data/gannet/ripley/R/R-clang/etc/Makeconf\" -f Makefile" make -f "/data/gannet/ripley/R/R-clang/etc/Makeconf" -f Makefile library) || exit 1;
make[2]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/bfp/src/newmat'
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c newmat1.cpp -o newmat1.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c newmat2.cpp -o newmat2.o
In file included from dataStructure.cpp:1:
In file included from ./dataStructure.h:11:
In file included from ./rcppExport.h:11:
In file included from /data/gannet/ripley/R/test-clang/Rcpp/include/RcppCommon.h:30:
/data/gannet/ripley/R/test-clang/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
26 | #define R_NO_REMAP
| ^
<command line>:2:9: note: previous definition is here
2 | #define R_NO_REMAP 1
| ^
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c newmat3.cpp -o newmat3.o
In file included from bayesMfp.cpp:4:
In file included from ./dataStructure.h:11:
In file included from ./rcppExport.h:11:
In file included from /data/gannet/ripley/R/test-clang/Rcpp/include/RcppCommon.h:30:
/data/gannet/ripley/R/test-clang/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
26 | #define R_NO_REMAP
| ^
<command line>:2:9: note: previous definition is here
2 | #define R_NO_REMAP 1
| ^
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c newmat4.cpp -o newmat4.o
In file included from RnewMat.cpp:2:
In file included from ./dataStructure.h:11:
In file included from ./rcppExport.h:11:
In file included from /data/gannet/ripley/R/test-clang/Rcpp/include/RcppCommon.h:30:
/data/gannet/ripley/R/test-clang/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
26 | #define R_NO_REMAP
| ^
<command line>:2:9: note: previous definition is here
2 | #define R_NO_REMAP 1
| ^
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c newmat5.cpp -o newmat5.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c newmat6.cpp -o newmat6.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c newmat7.cpp -o newmat7.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c newmat8.cpp -o newmat8.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c newmatex.cpp -o newmatex.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c bandmat.cpp -o bandmat.o
bandmat.cpp:31:19: warning: unused function 'my_min' [-Wunused-function]
31 | static inline int my_min(int x, int y) { return x < y ? x : y; }
| ^~~~~~
bandmat.cpp:32:19: warning: unused function 'my_max' [-Wunused-function]
32 | static inline int my_max(int x, int y) { return x > y ? x : y; }
| ^~~~~~
2 warnings generated.
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c submat.cpp -o submat.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c myexcept.cpp -o myexcept.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c cholesky.cpp -o cholesky.o
bayesMfp.cpp:565:6: warning: implicit conversion from 'unsigned long' to 'double' changes value from 18446744073709551615 to 18446744073709551616 [-Wimplicit-const-int-float-conversion]
565 | if (ULONG_MAX < chainlength){
| ^~~~~~~~~ ~
/usr/local/clang18/lib/clang/18/include/limits.h:61:37: note: expanded from macro 'ULONG_MAX'
61 | #define ULONG_MAX (__LONG_MAX__ *2UL+1UL)
| ~~~~~~~~~~~~~~~~~^~~~
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c evalue.cpp -o evalue.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c fft.cpp -o fft.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c hholder.cpp -o hholder.o
1 warning generated.
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c jacobi.cpp -o jacobi.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c newfft.cpp -o newfft.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c sort.cpp -o sort.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c svd.cpp -o svd.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c nm_misc.cpp -o nm_misc.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c newmatrm.cpp -o newmatrm.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c newmat9.cpp -o newmat9.o
2 warnings generated.
1 warning generated.
ar -rucs libnewmat.a newmat1.o newmat2.o newmat3.o newmat4.o newmat5.o newmat6.o newmat7.o newmat8.o newmatex.o bandmat.o submat.o myexcept.o cholesky.o evalue.o fft.o hholder.o jacobi.o newfft.o sort.o svd.o nm_misc.o newmatrm.o newmat9.o
make[2]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/bfp/src/newmat'
/usr/local/clang18/bin/clang++ -std=gnu++17 -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 bfp.so hyp2f1.o mtherr.o bayesMfp.o dataStructure.o hyperg.o combinatorics.o RnewMat.o conversions.o -Lnewmat -lnewmat
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/bfp/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/bfp/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/bfp/src'
installing to /data/gannet/ripley/R/packages/tests-clang/bfp.Rcheck/00LOCK-bfp/00new/bfp/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 (bfp)