* installing *source* package ‘Phase12Compare’ ...
** package ‘Phase12Compare’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘clang version 18.1.4’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/Phase12Compare/src'
/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' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c RcppExports.cpp -o RcppExports.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' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c SPSOCODE.cpp -o SPSOCODE.o
In file included from SPSOCODE.cpp:3:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57:
In file included from /data/gannet/ripley/R/test-clang/RcppArmadillo/include/armadillo:26:
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/armadillo_bits/config.hpp:321:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages]
321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed")
| ^
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/armadillo_bits/config.hpp:326:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages]
326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead")
| ^
/data/gannet/ripley/R/test-clang/RcppArmadillo/include/armadillo_bits/config.hpp:329:11: warning: INFO: see the documentation for details [-W#pragma-messages]
329 | #pragma message ("INFO: see the documentation for details")
| ^
SPSOCODE.cpp:676:7: warning: unused variable 'm' [-Wunused-variable]
676 | int m=0;
| ^
SPSOCODE.cpp:1080:10: warning: unused variable 'p' [-Wunused-variable]
1080 | double p=0;
| ^
SPSOCODE.cpp:1081:10: warning: unused variable 'pu' [-Wunused-variable]
1081 | double pu=0;
| ^~
SPSOCODE.cpp:1082:10: warning: unused variable 'pl' [-Wunused-variable]
1082 | double pl=0;
| ^~
SPSOCODE.cpp:1083:10: warning: unused variable 'tol' [-Wunused-variable]
1083 | double tol=.005;
| ^~~
SPSOCODE.cpp:1109:7: warning: unused variable 'Count' [-Wunused-variable]
1109 | int Count=0;
| ^~~~~
SPSOCODE.cpp:1119:7: warning: unused variable 'nREP' [-Wunused-variable]
1119 | int nREP=0;
| ^~~~
SPSOCODE.cpp:1162:10: warning: unused variable 'min1' [-Wunused-variable]
1162 | double min1=0;
| ^~~~
SPSOCODE.cpp:1990:7: warning: unused variable 'Count' [-Wunused-variable]
1990 | int Count=0;
| ^~~~~
SPSOCODE.cpp:2000:7: warning: unused variable 'nREP' [-Wunused-variable]
2000 | int nREP=0;
| ^~~~
SPSOCODE.cpp:2043:10: warning: unused variable 'min1' [-Wunused-variable]
2043 | double min1=0;
| ^~~~
SPSOCODE.cpp:2821:10: warning: unused variable 'phivar' [-Wunused-variable]
2821 | double phivar=Hypervars[2]; //Variance parameter for frailty correlations
| ^~~~~~
SPSOCODE.cpp:2822:10: warning: variable 'phi' set but not used [-Wunused-but-set-variable]
2822 | double phi=0;
| ^
SPSOCODE.cpp:2893:10: warning: unused variable 'epprop' [-Wunused-variable]
2893 | double epprop = 0; //proposal values for epsilon
| ^~~~~~
SPSOCODE.cpp:2942:10: warning: unused variable 'epEC' [-Wunused-variable]
2942 | double epEC = 1;
| ^~~~
SPSOCODE.cpp:2943:10: warning: unused variable 'epTC' [-Wunused-variable]
2943 | double epTC = 1;
| ^~~~
SPSOCODE.cpp:2982:10: warning: unused variable 'holdmin' [-Wunused-variable]
2982 | double holdmin=1;
| ^~~~~~~
SPSOCODE.cpp:3744:7: warning: unused variable 'Stopped' [-Wunused-variable]
3744 | int Stopped=0;
| ^~~~~~~
SPSOCODE.cpp:3791:7: warning: unused variable 'Count' [-Wunused-variable]
3791 | int Count=0;
| ^~~~~
SPSOCODE.cpp:3801:7: warning: unused variable 'nREP' [-Wunused-variable]
3801 | int nREP=0;
| ^~~~
SPSOCODE.cpp:3824:7: warning: unused variable 'm' [-Wunused-variable]
3824 | int m=0;
| ^
SPSOCODE.cpp:3841:7: warning: variable 'STOPPED' set but not used [-Wunused-but-set-variable]
3841 | int STOPPED=0;
| ^
SPSOCODE.cpp:3842:7: warning: unused variable 'i' [-Wunused-variable]
3842 | int i=0;
| ^
SPSOCODE.cpp:3844:10: warning: unused variable 'min1' [-Wunused-variable]
3844 | double min1=0;
| ^~~~
SPSOCODE.cpp:3848:7: warning: unused variable 'nRep' [-Wunused-variable]
3848 | int nRep=0;
| ^~~~
SPSOCODE.cpp:4222:7: warning: unused variable 'Stopped' [-Wunused-variable]
4222 | int Stopped=0;
| ^~~~~~~
SPSOCODE.cpp:4240:10: warning: unused variable 'p' [-Wunused-variable]
4240 | double p=0;
| ^
SPSOCODE.cpp:4241:10: warning: unused variable 'pu' [-Wunused-variable]
4241 | double pu=0;
| ^~
SPSOCODE.cpp:4242:10: warning: unused variable 'pl' [-Wunused-variable]
4242 | double pl=0;
| ^~
SPSOCODE.cpp:4243:10: warning: unused variable 'tol' [-Wunused-variable]
4243 | double tol=.005;
| ^~~
SPSOCODE.cpp:4258:7: warning: unused variable 'Count' [-Wunused-variable]
4258 | int Count=0;
| ^~~~~
SPSOCODE.cpp:4268:7: warning: unused variable 'nREP' [-Wunused-variable]
4268 | int nREP=0;
| ^~~~
SPSOCODE.cpp:4294:7: warning: unused variable 'm' [-Wunused-variable]
4294 | int m=0;
| ^
SPSOCODE.cpp:4311:7: warning: variable 'STOPPED' set but not used [-Wunused-but-set-variable]
4311 | int STOPPED=0;
| ^
SPSOCODE.cpp:4312:7: warning: unused variable 'i' [-Wunused-variable]
4312 | int i=0;
| ^
SPSOCODE.cpp:4314:10: warning: unused variable 'min1' [-Wunused-variable]
4314 | double min1=0;
| ^~~~
SPSOCODE.cpp:4318:7: warning: unused variable 'nRep' [-Wunused-variable]
4318 | int nRep=0;
| ^~~~
40 warnings generated.
/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 Phase12Compare.so RcppExports.o SPSOCODE.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/Phase12Compare/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/Phase12Compare/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/Phase12Compare/src'
installing to /data/gannet/ripley/R/packages/tests-clang/Phase12Compare.Rcheck/00LOCK-Phase12Compare/00new/Phase12Compare/libs
** R
** 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 (Phase12Compare)