* installing *source* package ‘RNifti’ ...
** package ‘RNifti’ 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 for library containing inflate... -lz
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C compiler: ‘clang version 19.1.3’
using C++ compiler: ‘clang version 19.1.3’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/RNifti/src'
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_ZLIB -DUSING_R -DRNIFTI_NIFTILIB_DEDUPLICATE -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -DR_NO_REMAP -c main.cpp -o main.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_ZLIB -DUSING_R -DRNIFTI_NIFTILIB_DEDUPLICATE -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c zzz.c -o zzz.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_ZLIB -DUSING_R -DRNIFTI_NIFTILIB_DEDUPLICATE -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c znzlib/znzlib.c -o znzlib/znzlib.o
In file included from main.cpp:5:
In file included from ../inst/include/RNifti.h:46:
In file included from ../inst/include/niftilib/nifti2_io.h:27:
../inst/include/RNifti/NiftiImage_print.h:6:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
6 | #define R_NO_REMAP
| ^
<command line>:6:9: note: previous definition is here
6 | #define R_NO_REMAP 1
| ^
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_ZLIB -DUSING_R -DRNIFTI_NIFTILIB_DEDUPLICATE -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c niftilib/nifti1_io.c -o niftilib/nifti1_io.o
niftilib/nifti1_io.c:353:19: warning: unused variable 'gni_version' [-Wunused-const-variable]
353 | static const char gni_version[] = NIFTI1_IO_SOURCE_VERSION " (16 Jun, 2022)";
| ^~~~~~~~~~~
niftilib/nifti1_io.c:363:29: warning: unused variable 'nifti_type_list' [-Wunused-const-variable]
363 | static const nifti_type_ele nifti_type_list[] = {
| ^~~~~~~~~~~~~~~
niftilib/nifti1_io.c:3337:12: warning: unused function 'compare_strlist' [-Wunused-function]
3337 | static int compare_strlist(const char * str, char ** strlist, int len)
| ^~~~~~~~~~~~~~~
niftilib/nifti1_io.c:3292:12: warning: unused function 'is_mixedcase' [-Wunused-function]
3292 | static int is_mixedcase(const char * str)
| ^~~~~~~~~~~~
niftilib/nifti1_io.c:3276:12: warning: unused function 'is_uppercase' [-Wunused-function]
3276 | static int is_uppercase(const char * str)
| ^~~~~~~~~~~~
niftilib/nifti1_io.c:3323:12: warning: unused function 'make_lowercase' [-Wunused-function]
3323 | static int make_lowercase(char * str)
| ^~~~~~~~~~~~~~
niftilib/nifti1_io.c:3310:12: warning: unused function 'make_uppercase' [-Wunused-function]
3310 | static int make_uppercase(char * str)
| ^~~~~~~~~~~~~~
niftilib/nifti1_io.c:449:14: warning: unused function 'print_hex_vals' [-Wunused-function]
449 | static int print_hex_vals (const char * data, size_t nbytes, FILE * fp);
| ^~~~~~~~~~~~~~
niftilib/nifti1_io.c:6135:14: warning: unused function 'escapize_string' [-Wunused-function]
6135 | static char *escapize_string( const char * str )
| ^~~~~~~~~~~~~~~
9 warnings generated.
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -DHAVE_ZLIB -DUSING_R -DRNIFTI_NIFTILIB_DEDUPLICATE -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c niftilib/nifti2_io.c -o niftilib/nifti2_io.o
niftilib/nifti2_io.c:4468:12: warning: unused function 'print_hex_vals' [-Wunused-function]
4468 | static int print_hex_vals( const char * data, size_t nbytes, FILE * fp )
| ^~~~~~~~~~~~~~
niftilib/nifti2_io.c:8250:14: warning: unused function 'escapize_string' [-Wunused-function]
8250 | static char *escapize_string( const char * str )
| ^~~~~~~~~~~~~~~
2 warnings generated.
1 warning generated.
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -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 RNifti.so main.o zzz.o znzlib/znzlib.o niftilib/nifti1_io.o niftilib/nifti2_io.o -lz
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/RNifti/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/RNifti/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/RNifti/src'
installing to /data/gannet/ripley/R/packages/tests-clang/RNifti.Rcheck/00LOCK-RNifti/00new/RNifti/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 (RNifti)