* installing *source* package ‘BAS’ ...
** this is package ‘BAS’ version ‘2.0.2’
** package ‘BAS’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 21.1.8’
using Fortran compiler: ‘flang version 21.1.8’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/BAS/src'
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c E_ZS.c -o E_ZS.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c MH-funs.c -o MH-funs.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c ZS_approx_full_np.c -o ZS_approx_full_np.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c ZS_approx_null_np.c -o ZS_approx_null_np.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c amcmc-funs.c -o amcmc-funs.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c bayesglm.c -o bayesglm.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c bayesreg.c -o bayesreg.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c betapriorfamily.c -o betapriorfamily.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cch.c -o cch.o
/usr/local/clang21/bin/flang -fpic -O2 -pedantic -c dch1up.f -o dch1up.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c family.c -o family.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c glm_deterministic.c -o glm_deterministic.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c glm_fit.c -o glm_fit.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c glm_mcmc.c -o glm_mcmc.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c glm_mcmc_grow.c -o glm_mcmc_grow.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c glm_mcmcbas.c -o glm_mcmcbas.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c glm_sampleworep.c -o glm_sampleworep.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c glm_sampleworep_grow.c -o glm_sampleworep_grow.o
glm_deterministic.c:67:16: warning: unused variable 'shrinkage_m' [-Wunused-variable]
67 | double *probs,shrinkage_m,logmargy;
| ^~~~~~~~~~~
glm_deterministic.c:67:28: warning: unused variable 'logmargy' [-Wunused-variable]
67 | double *probs,shrinkage_m,logmargy;
| ^~~~~~~~
glm_sampleworep_grow.c:101:16: warning: variable 'logmargy' set but not used [-Wunused-but-set-variable]
101 | double *probs,logmargy, shrinkage_m;
| ^
glm_sampleworep_grow.c:101:26: warning: variable 'shrinkage_m' set but not used [-Wunused-but-set-variable]
101 | double *probs,logmargy, shrinkage_m;
| ^
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c hg_approx_null_np.c -o hg_approx_null_np.o
2 warnings generated.
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c hyp1F1.c -o hyp1F1.o
glm_mcmc_grow.c:117:38: warning: variable 'shrinkage_m' set but not used [-Wunused-but-set-variable]
117 | double *probs, MH=0.0, prior_m=1.0, shrinkage_m, logmarg_m, postold, postnew;
| ^
betapriorfamily.c:239:38: warning: unused variable 'u' [-Wunused-variable]
239 | double a, b, s, r, v, theta, n, p, u, shrinkage;
| ^
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c hyp2f1.c -o hyp2f1.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c hypergeometric1F1.c -o hypergeometric1F1.o
glm_mcmcbas.c:54:37: warning: variable 'shrinkage_m' set but not used [-Wunused-but-set-variable]
54 | double *probs, MH=0.0, prior_m=1.0,shrinkage_m, logmargy, postold, postnew;
| ^
2 warnings generated.
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c hypergeometric2F1.c -o hypergeometric2F1.o
1 warning generated.
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lm_amcmc.c -o lm_amcmc.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lm_amcmc_growable.c -o lm_amcmc_growable.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lm_deterministic.c -o lm_deterministic.o
1 warning generated.
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lm_mcmc.c -o lm_mcmc.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lm_mcmc_grow.c -o lm_mcmc_grow.o
bayesglm.c:62:17: warning: variable 'betapriorfamily' set but not used [-Wunused-but-set-variable]
62 | betapriorptr *betapriorfamily;
| ^
glm_mcmc.c:17:39: warning: variable 'shrinkage_m' set but not used [-Wunused-but-set-variable]
17 | double *probs, MH=0.0, prior_m=1.0, shrinkage_m, logmargy, postold, postnew;
| ^
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lm_mcmcbas.c -o lm_mcmcbas.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lm_sampleworep-grow.c -o lm_sampleworep-grow.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lm_sampleworep.c -o lm_sampleworep.o
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c mem.c -o mem.o
glm_sampleworep.c:121:16: warning: variable 'logmargy' set but not used [-Wunused-but-set-variable]
121 | double *probs,logmargy, shrinkage_m;
| ^
glm_sampleworep.c:121:26: warning: variable 'shrinkage_m' set but not used [-Wunused-but-set-variable]
121 | double *probs,logmargy, shrinkage_m;
| ^
1 warning generated.
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c model_probabilities.c -o model_probabilities.o
lm_mcmc.c:137:6: warning: unused variable 'k' [-Wunused-variable]
137 | int k = LENGTH(modelprobs);
| ^
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c mtherr.c -o mtherr.o
1 warning generated.
2 warnings generated.
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c resizeVectors.c -o resizeVectors.o
1 warning generated.
/usr/local/clang21/bin/clang -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang21/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tree_structures.c -o tree_structures.o
1 warning generated.
model_probabilities.c:127:22: warning: unused variable 'n' [-Wunused-variable]
127 | int m, j, *model, *n;
| ^
model_probabilities.c:129:17: warning: unused variable 'probNotInS' [-Wunused-variable]
129 | double *beta, probNotInS = 1.0;
| ^~~~~~~~~~
model_probabilities.c:129:11: warning: unused variable 'Rf_beta' [-Wunused-variable]
129 | double *beta, probNotInS = 1.0;
| ^~~~
/data/gannet/ripley/R/R-clang/include/Rmath.h:221:15: note: expanded from macro 'beta'
221 | #define beta Rf_beta
| ^~~~~~~
resizeVectors.c:86:5: warning: misleading indentation; statement is not part of the previous 'for' [-Wmisleading-indentation]
86 | break;
| ^
resizeVectors.c:78:3: note: previous statement is here
78 | for (i = 0; i < len_new; i++)
| ^
resizeVectors.c:94:5: warning: misleading indentation; statement is not part of the previous 'for' [-Wmisleading-indentation]
94 | break;
| ^
resizeVectors.c:88:3: note: previous statement is here
88 | for (i = 0; i < len_new; i++)
| ^
resizeVectors.c:106:5: warning: misleading indentation; statement is not part of the previous 'for' [-Wmisleading-indentation]
106 | break;
| ^
resizeVectors.c:102:3: note: previous statement is here
102 | for (i = 0; i < len_new; i++)
| ^
resizeVectors.c:114:5: warning: misleading indentation; statement is not part of the previous 'for' [-Wmisleading-indentation]
114 | break;
| ^
resizeVectors.c:108:3: note: previous statement is here
108 | for (i = 0; i < len_new; i++)
| ^
4 warnings generated.
3 warnings generated.
/usr/local/clang21/bin/clang -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang21/lib -L/usr/local/clang21/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o BAS.so E_ZS.o MH-funs.o ZS_approx_full_np.o ZS_approx_null_np.o amcmc-funs.o bayesglm.o bayesreg.o betapriorfamily.o cch.o dch1up.o family.o glm_deterministic.o glm_fit.o glm_mcmc.o glm_mcmc_grow.o glm_mcmcbas.o glm_sampleworep.o glm_sampleworep_grow.o hg_approx_null_np.o hyp1F1.o hyp2f1.o hypergeometric1F1.o hypergeometric2F1.o init.o lm_amcmc.o lm_amcmc_growable.o lm_deterministic.o lm_mcmc.o lm_mcmc_grow.o lm_mcmcbas.o lm_sampleworep-grow.o lm_sampleworep.o mem.o model_probabilities.o mtherr.o resizeVectors.o tree_structures.o -L/data/gannet/ripley/R/R-clang/lib -lRlapack -L/data/gannet/ripley/R/R-clang/lib -lRblas -lflang_rt.runtime -lm
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/BAS/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/BAS/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/BAS/src'
installing to /data/gannet/ripley/R/packages/tests-clang/BAS.Rcheck/00LOCK-BAS/00new/BAS/libs
** R
** data
** demo
** 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 (BAS)