* installing *source* package ‘HDCD’ ...
** package ‘HDCD’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 19.1.3’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/HDCD/src'
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c esac_code.c -o esac_code.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c helpfunctions.c -o helpfunctions.o
helpfunctions.c:296:9: warning: unused variable 'n' [-Wunused-variable]
296 | int n = e-s;
| ^
esac_code.c:92:9: warning: unused variable 'tmppos' [-Wunused-variable]
92 | int tmppos = 0;
| ^~~~~~
helpfunctions.c:488:9: warning: unused variable 'debug' [-Wunused-variable]
488 | int debug = *INTEGER(debugI);
| ^~~~~
helpfunctions.c:493:9: warning: variable 'minlen' set but not used [-Wunused-but-set-variable]
493 | int minlen = n;
| ^
esac_code.c:852:9: warning: variable 'minlen' set but not used [-Wunused-but-set-variable]
852 | int minlen = n;
| ^
esac_code.c:1091:9: warning: variable 'minlen' set but not used [-Wunused-but-set-variable]
1091 | int minlen = n;
| ^
esac_code.c:1535:9: warning: variable 'maxlen' set but not used [-Wunused-but-set-variable]
1535 | int maxlen = p;
| ^
esac_code.c:1536:9: warning: variable 'minlen' set but not used [-Wunused-but-set-variable]
1536 | int minlen = n;
| ^
esac_code.c:1602:9: warning: unused variable 'debug' [-Wunused-variable]
1602 | int debug = *INTEGER(debugI);
| ^~~~~
esac_code.c:1607:9: warning: variable 'minlen' set but not used [-Wunused-but-set-variable]
1607 | int minlen = n;
| ^
esac_code.c:1643:12: warning: unused variable 'tmpmax' [-Wunused-variable]
1643 | double tmpmax = 0;
| ^~~~~~
esac_code.c:1644:9: warning: unused variable 'tmppos' [-Wunused-variable]
1644 | int tmppos = 0;
| ^~~~~~
esac_code.c:1645:9: warning: unused variable 'tmpapos' [-Wunused-variable]
1645 | int tmpapos = 0;
| ^~~~~~~
esac_code.c:1653:9: warning: unused variable 'localdetected' [-Wunused-variable]
1653 | int localdetected = 0;
| ^~~~~~~~~~~~~
esac_code.c:1878:9: warning: variable 'minlen' set but not used [-Wunused-but-set-variable]
1878 | int minlen = n;
| ^
3 warnings generated.
12 warnings generated.
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c inspect_code.c -o inspect_code.o
inspect_code.c:530:12: warning: unused variable 'xi' [-Wunused-variable]
530 | double xi = *(REAL(xiI));
| ^~
inspect_code.c:1144:9: warning: unused variable 's' [-Wunused-variable]
1144 | int s = -1;
| ^
inspect_code.c:1145:9: warning: unused variable 'e' [-Wunused-variable]
1145 | int e = n-1;
| ^
inspect_code.c:1148:9: warning: unused variable 'll' [-Wunused-variable]
1148 | int ll;
| ^~
inspect_code.c:1149:9: warning: unused variable 'hh' [-Wunused-variable]
1149 | int hh;
| ^~
5 warnings generated.
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pilliat_method.c -o pilliat_method.o
pilliat_method.c:262:9: warning: unused variable 'jj' [-Wunused-variable]
262 | int jj=0;
| ^~
pilliat_method.c:263:9: warning: variable 'jump' set but not used [-Wunused-but-set-variable]
263 | int jump = 0;
| ^
pilliat_method.c:266:9: warning: unused variable 'stop' [-Wunused-variable]
266 | int stop = 0;
| ^~~~
pilliat_method.c:270:9: warning: unused variable 't1' [-Wunused-variable]
270 | int t1 = 0;
| ^~
pilliat_method.c:271:9: warning: unused variable 't2' [-Wunused-variable]
271 | int t2 = 0;
| ^~
pilliat_method.c:896:9: warning: unused variable 'jj' [-Wunused-variable]
896 | int jj;
| ^~
pilliat_method.c:908:9: warning: unused variable 'stop' [-Wunused-variable]
908 | int stop;
| ^~~~
pilliat_method.c:1378:9: warning: variable 'minlen' set but not used [-Wunused-but-set-variable]
1378 | int minlen = n;
| ^
pilliat_method.c:1628:9: warning: variable 'minlen' set but not used [-Wunused-but-set-variable]
1628 | int minlen = n;
| ^
9 warnings generated.
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c registerDynamicSymbol.c -o registerDynamicSymbol.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sbs_single.c -o sbs_single.o
sbs_single.c:32:9: warning: variable 'minlen' set but not used [-Wunused-but-set-variable]
32 | int minlen = n;
| ^
sbs_single.c:151:9: warning: unused variable 'debug' [-Wunused-variable]
151 | int debug = *INTEGER(debugI);
| ^~~~~
sbs_single.c:172:9: warning: variable 'minlen' set but not used [-Wunused-but-set-variable]
172 | int minlen = n;
| ^
sbs_single.c:197:12: warning: unused variable 'tmp' [-Wunused-variable]
197 | double tmp = 0;
| ^~~
4 warnings generated.
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang19/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sorting.c -o sorting.o
/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 HDCD.so esac_code.o helpfunctions.o inspect_code.o pilliat_method.o registerDynamicSymbol.o sbs_single.o sorting.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/HDCD/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/HDCD/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/HDCD/src'
installing to /data/gannet/ripley/R/packages/tests-clang/HDCD.Rcheck/00LOCK-HDCD/00new/HDCD/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 (HDCD)