* installing *source* package ‘clustGLMM’ ...
** this is package ‘clustGLMM’ version ‘1.0’
** package ‘clustGLMM’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.8 (https://github.com/llvm/llvm-project ca7933e47d3a3451d81e72ac174dcb5aa28b59d1)’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/clustGLMM/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c Metropolis_within_Gibbs_MBC_NumPoiBinOrdCat.c -o Metropolis_within_Gibbs_MBC_NumPoiBinOrdCat.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c calculate_predictor.c -o calculate_predictor.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cholesky.c -o cholesky.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c gibbs_InvQ.c -o gibbs_InvQ.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c gibbs_InvSigma.c -o gibbs_InvSigma.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c gibbs_beta_num.c -o gibbs_beta_num.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c gibbs_naY.c -o gibbs_naY.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c gibbs_pUig.c -o gibbs_pUig.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c gibbs_prec_num.c -o gibbs_prec_num.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c matrmult.c -o matrmult.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c metrgibbs_a_ord.c -o metrgibbs_a_ord.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c metrgibbs_beta_bin.c -o metrgibbs_beta_bin.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c metrgibbs_beta_cat.c -o metrgibbs_beta_cat.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c metrgibbs_beta_ord.c -o metrgibbs_beta_ord.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c metrgibbs_beta_poi.c -o metrgibbs_beta_poi.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c metrgibbs_bi.c -o metrgibbs_bi.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c metrgibbs_e0.c -o metrgibbs_e0.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c metropolis.c -o metropolis.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c metropolis_le0.c -o metropolis_le0.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c my_math.c -o my_math.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c myrdirichlet.c -o myrdirichlet.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c myrwishart.c -o myrwishart.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c newton_raphson.c -o newton_raphson.o
newton_raphson.c:287:34: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
287 | *converged = (norm_shift + abs(loglik - loglik_max) < *((*tuning).tolerance));
| ^
newton_raphson.c:287:34: note: use function 'fabs' instead
287 | *converged = (norm_shift + abs(loglik - loglik_max) < *((*tuning).tolerance));
| ^~~
| fabs
1 warning generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c newton_raphson_bi_dev.c -o newton_raphson_bi_dev.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c newton_raphson_le0.c -o newton_raphson_le0.o
newton_raphson_bi_dev.c:272:56: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
272 | if((isfinite(loglik_new) == 1) & (norm_shift + abs(loglik_new - *max_value) < *tolerance)){
| ^
newton_raphson_bi_dev.c:272:56: note: use function 'fabs' instead
272 | if((isfinite(loglik_new) == 1) & (norm_shift + abs(loglik_new - *max_value) < *tolerance)){
| ^~~
| fabs
newton_raphson_bi_dev.c:293:32: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
293 | *converged = (norm_shift + abs(loglik_new - *max_value) < *tolerance);
| ^
newton_raphson_bi_dev.c:293:32: note: use function 'fabs' instead
293 | *converged = (norm_shift + abs(loglik_new - *max_value) < *tolerance);
| ^~~
| fabs
newton_raphson_le0.c:79:34: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
79 | if((isfinite(loglik)) & (abs(shift) + abs(loglik - *max_value) < *((*tuning).tolerance))){
| ^
newton_raphson_le0.c:79:34: note: use function 'fabs' instead
79 | if((isfinite(loglik)) & (abs(shift) + abs(loglik - *max_value) < *((*tuning).tolerance))){
| ^~~
| fabs
newton_raphson_le0.c:79:47: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
79 | if((isfinite(loglik)) & (abs(shift) + abs(loglik - *max_value) < *((*tuning).tolerance))){
| ^
newton_raphson_le0.c:79:47: note: use function 'fabs' instead
79 | if((isfinite(loglik)) & (abs(shift) + abs(loglik - *max_value) < *((*tuning).tolerance))){
| ^~~
| fabs
newton_raphson_le0.c:96:18: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
96 | norm_shift = abs(shift);
| ^
newton_raphson_le0.c:96:18: note: use function 'fabs' instead
96 | norm_shift = abs(shift);
| ^~~
| fabs
newton_raphson_le0.c:97:33: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
97 | *converged = ( norm_shift + abs(loglik - *max_value) < *((*tuning).tolerance));
| ^
newton_raphson_le0.c:97:33: note: use function 'fabs' instead
97 | *converged = ( norm_shift + abs(loglik - *max_value) < *((*tuning).tolerance));
| ^~~
| fabs
2 warnings generated.
4 warnings generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pUig_dev.c -o pUig_dev.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pdfs_derivatives_api_ord.c -o pdfs_derivatives_api_ord.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pdfs_derivatives_beta_bin.c -o pdfs_derivatives_beta_bin.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pdfs_derivatives_beta_cat.c -o pdfs_derivatives_beta_cat.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pdfs_derivatives_beta_ord.c -o pdfs_derivatives_beta_ord.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pdfs_derivatives_beta_poi.c -o pdfs_derivatives_beta_poi.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pdfs_derivatives_bi.c -o pdfs_derivatives_bi.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pdfs_derivatives_bi_dev.c -o pdfs_derivatives_bi_dev.o
pdfs_derivatives_bi_dev.c:63:7: warning: variable 'add_to_c' set but not used [-Wunused-but-set-variable]
63 | int add_to_c;
| ^
pdfs_derivatives_bi_dev.c:70:7: warning: variable 'cumKcat' set but not used [-Wunused-but-set-variable]
70 | int cumKcat;
| ^
pdfs_derivatives_bi_dev.c:595:7: warning: variable 'cumKcat' set but not used [-Wunused-but-set-variable]
595 | int cumKcat;
| ^
3 warnings generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pdfs_derivatives_le0.c -o pdfs_derivatives_le0.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pdfs_last.c -o pdfs_last.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o clustGLMM.so Metropolis_within_Gibbs_MBC_NumPoiBinOrdCat.o calculate_predictor.o cholesky.o gibbs_InvQ.o gibbs_InvSigma.o gibbs_beta_num.o gibbs_naY.o gibbs_pUig.o gibbs_prec_num.o init.o matrmult.o metrgibbs_a_ord.o metrgibbs_beta_bin.o metrgibbs_beta_cat.o metrgibbs_beta_ord.o metrgibbs_beta_poi.o metrgibbs_bi.o metrgibbs_e0.o metropolis.o metropolis_le0.o my_math.o myrdirichlet.o myrwishart.o newton_raphson.o newton_raphson_bi_dev.o newton_raphson_le0.o pUig_dev.o pdfs_derivatives_api_ord.o pdfs_derivatives_beta_bin.o pdfs_derivatives_beta_cat.o pdfs_derivatives_beta_ord.o pdfs_derivatives_beta_poi.o pdfs_derivatives_bi.o pdfs_derivatives_bi_dev.o pdfs_derivatives_le0.o pdfs_last.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/clustGLMM/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/clustGLMM/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/clustGLMM/src'
installing to /data/gannet/ripley/R/packages/tests-clang/clustGLMM.Rcheck/00LOCK-clustGLMM/00new/clustGLMM/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** 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 (clustGLMM)