Install log for 'BAS'

* installing *source* package ‘BAS’ ...
** package ‘BAS’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (GCC) 14.2.0’
using Fortran compiler: ‘GNU Fortran (GCC) 14.2.0’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/BAS/src'
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c E_ZS.c -o E_ZS.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c MH-funs.c -o MH-funs.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c ZS_approx_full_np.c -o ZS_approx_full_np.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c ZS_approx_null_np.c -o ZS_approx_null_np.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c amcmc-funs.c -o amcmc-funs.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c bayesglm.c -o bayesglm.o
bayesglm.c: In function 'glm_fit':
bayesglm.c:219:17: warning: 'disp' may be used uninitialized [-Wmaybe-uninitialized]
  219 |         se[j] = sqrt(se[j]*disp);
      |                 ^~~~~~~~~~~~~~~~
bayesglm.c:95:10: note: 'disp' was declared here
   95 |   double disp;
      |          ^~~~
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c bayesreg.c -o bayesreg.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c betapriorfamily.c -o betapriorfamily.o
betapriorfamily.c: In function 'intrinsic_glm_shrinkage':
betapriorfamily.c:239:38: warning: unused variable 'u' [-Wunused-variable]
  239 |   double a, b, s, r, v, theta, n, p, u, shrinkage;
      |                                      ^
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c cch.c -o cch.o
gfortran-14  -fpic  -g -O2 -mtune=native -Wall -pedantic  -c dch1up.f -o dch1up.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c family.c -o family.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c glm_deterministic.c -o glm_deterministic.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c glm_fit.c -o glm_fit.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c glm_lpy.c -o glm_lpy.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c glm_mcmc.c -o glm_mcmc.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c glm_mcmcbas.c -o glm_mcmcbas.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c glm_sampleworep.c -o glm_sampleworep.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c hg_approx_null_np.c -o hg_approx_null_np.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c hyp1F1.c -o hyp1F1.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c hyp2f1.c -o hyp2f1.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c hypergeometric1F1.c -o hypergeometric1F1.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c hypergeometric2F1.c -o hypergeometric2F1.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c init.c -o init.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c lm_amcmc.c -o lm_amcmc.o
lm_amcmc.c: In function 'amcmc':
lm_amcmc.c:260:34: warning: 'new_loc' may be used uninitialized [-Wmaybe-uninitialized]
  260 |                   INTEGER(counts)[old_loc] += 1;
      |                   ~~~~~~~~~~~~~~~^~~~~~~~~
lm_amcmc.c:165:13: note: 'new_loc' was declared here
  165 |         int new_loc;
      |             ^~~~~~~
lm_amcmc.c:357:34: warning: 'postold' may be used uninitialized [-Wmaybe-uninitialized]
  357 |       if (!IS) MH =  exp(postnew - postold + log(pigammaold) - log(pigammanew));
      |                          ~~~~~~~~^~~~~~~~~
lm_amcmc.c:50:46: note: 'postold' was declared here
   50 |                 R2_m, RSquareFull, logmargy, postold, postnew;
      |                                              ^~~~~~~
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c lm_deterministic.c -o lm_deterministic.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c lm_mcmc.c -o lm_mcmc.o
lm_mcmc.c: In function 'mcmc_new':
lm_mcmc.c:226:34: warning: 'new_loc' may be used uninitialized [-Wmaybe-uninitialized]
  226 |                   INTEGER(counts)[old_loc] += 1;
      |                   ~~~~~~~~~~~~~~~^~~~~~~~~
lm_mcmc.c:132:13: note: 'new_loc' was declared here
  132 |         int new_loc;
      |             ^~~~~~~
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c lm_mcmcbas.c -o lm_mcmcbas.o
lm_mcmcbas.c: In function 'mcmcbas':
lm_mcmcbas.c:283:22: warning: 'new_loc' may be used uninitialized [-Wmaybe-uninitialized]
  283 |       INTEGER(counts)[old_loc] += 1;
      |       ~~~~~~~~~~~~~~~^~~~~~~~~
lm_mcmcbas.c:181:9: note: 'new_loc' was declared here
  181 |     int new_loc;
      |         ^~~~~~~
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c lm_sampleworep.c -o lm_sampleworep.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c mem.c -o mem.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c model_probabilities.c -o model_probabilities.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c mtherr.c -o mtherr.o
gcc-14 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG   -I/usr/local/include -DC99_INLINE_SEMANTICS=0   -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c tree_structures.c -o tree_structures.o
gcc-14 -shared -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -fpic -L/usr/local/gcc14/lib64 -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_lpy.o glm_mcmc.o glm_mcmcbas.o glm_sampleworep.o hg_approx_null_np.o hyp1F1.o hyp2f1.o hypergeometric1F1.o hypergeometric2F1.o init.o lm_amcmc.o lm_deterministic.o lm_mcmc.o lm_mcmcbas.o lm_sampleworep.o mem.o model_probabilities.o mtherr.o tree_structures.o -llapack -L/data/gannet/ripley/R/R-devel/lib -lRblas -lgfortran -lm -lquadmath -lgfortran -lm -lquadmath
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/BAS/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/BAS/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/BAS/src'
installing to /data/gannet/ripley/R/packages/tests-devel/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)