* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘mixAK’ ...
** package ‘mixAK’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-13 (Debian 13.2.0-13) 13.2.0’
make[1]: Entering directory '/tmp/RtmpYXSxnq/R.INSTALL3d31c11647198d/mixAK/src'
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c 00mixAK_init.cpp -o 00mixAK_init.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c AK_BLAS.cpp -o AK_BLAS.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c AK_BSTAT.cpp -o AK_BSTAT.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c AK_LAPACK.cpp -o AK_LAPACK.o
AK_LAPACK.cpp: In function ‘void AK_LAPACK::MPpinvSP(double*, double*, int*, const int*)’:
AK_LAPACK.cpp:1001:17: warning: variable ‘LTp’ set but not used [-Wunused-but-set-variable]
1001 | static int i, LTp, p_p;
| ^~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c AK_Utils.cpp -o AK_Utils.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Dist_Dirichlet.cpp -o Dist_Dirichlet.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Dist_Discrete.cpp -o Dist_Discrete.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Dist_MVN.cpp -o Dist_MVN.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Dist_MVT.cpp -o Dist_MVT.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Dist_TMVN.cpp -o Dist_TMVN.o
Dist_TMVN.cpp: In function ‘void Dist::rTMVN2(double*, double*, const double*, const double*, const int*, const double*, const double*, const int*, const int*)’:
Dist_TMVN.cpp:84:33: warning: variable ‘aP’ set but not used [-Wunused-but-set-variable]
84 | static const double *alphaP, *aP, *bP, *GzP;
| ^~
Dist_TMVN.cpp:84:38: warning: variable ‘bP’ set but not used [-Wunused-but-set-variable]
84 | static const double *alphaP, *aP, *bP, *GzP;
| ^~
Dist_TMVN.cpp:84:43: warning: variable ‘GzP’ set but not used [-Wunused-but-set-variable]
84 | static const double *alphaP, *aP, *bP, *GzP;
| ^~~
Dist_TMVN.cpp:85:21: warning: variable ‘truncP’ set but not used [-Wunused-but-set-variable]
85 | static const int *truncP;
| ^~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Dist_TNorm.cpp -o Dist_TNorm.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Dist_TmixMVN.cpp -o Dist_TmixMVN.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Dist_TmixNorm.cpp -o Dist_TmixNorm.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Dist_Wishart.cpp -o Dist_Wishart.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Dist_mixMVN.cpp -o Dist_mixMVN.o
Dist_mixMVN.cpp: In function ‘void Dist::dmixMVN_R(double*, double*, double*, double*, int*, const double*, const int*, const double*, const int*, const int*)’:
Dist_mixMVN.cpp:212:13: warning: unused variable ‘LTnx’ [-Wunused-variable]
212 | const int LTnx = (*nx * (*nx + 1))/2;
| ^~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Dist_mixNorm.cpp -o Dist_mixNorm.o
Dist_mixNorm.cpp: In function ‘void Dist::dmixNorm_R(double*, const double*, const int*, const double*, const double*, const double*, const int*)’:
Dist_mixNorm.cpp:91:7: warning: unused variable ‘k’ [-Wunused-variable]
91 | int k, j;
| ^
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_Deviance.cpp -o GLMM_Deviance.o
GLMM_Deviance.cpp: In function ‘void GLMM::Deviance(double*, double*, double*, double*, double*, double*, double*, double**, int**, double**, double**, double**, double**, double**, int**, int*, double*, int*, double**, int**, double**, double**, double**, double**, double**, int**, const double*, const double*, const double*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const double*, const int*, const int*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const int*, const int*)’:
GLMM_Deviance.cpp:139:10: warning: unused variable ‘U2_g’ [-Wunused-variable]
139 | double U2_g[5];
| ^~~~
GLMM_Deviance.cpp:140:10: warning: unused variable ‘H2_g’ [-Wunused-variable]
140 | double H2_g[15];
| ^~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_Deviance2.cpp -o GLMM_Deviance2.o
GLMM_Deviance2.cpp: In function ‘void GLMM::Deviance2(double*, double*, double*, double*, double*, double*, double*, double*, double*, double*, double*, double*, int*, int*, int*, double*, double*, double**, int**, double**, double**, double**, double**, double**, int**, int*, double*, int*, double**, int**, double**, double**, double**, double**, double**, int**, const double*, const double*, const double*, const double*, const double*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const double*, const int*, const int*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const int*)’:
GLMM_Deviance2.cpp:103:28: warning: unused variable ‘bDb’ [-Wunused-variable]
103 | static double log_det_R, bDb, loglik_ik, max_log_pi_ik;
| ^~~
GLMM_Deviance2.cpp:129:18: warning: unused variable ‘bscaled_hatP’ [-Wunused-variable]
129 | static double *bscaled_hatP;
| ^~~~~~~~~~~~
GLMM_Deviance2.cpp:159:10: warning: unused variable ‘U2_g’ [-Wunused-variable]
159 | double U2_g[5];
| ^~~~
GLMM_Deviance2.cpp:160:10: warning: unused variable ‘H2_g’ [-Wunused-variable]
160 | double H2_g[15];
| ^~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_Deviance2Pr_obs.cpp -o GLMM_Deviance2Pr_obs.o
GLMM_Deviance2Pr_obs.cpp: In function ‘void GLMM::Deviance2Pr_obs(double*, const double*, const double*, const double*, const int*, const int*)’:
GLMM_Deviance2Pr_obs.cpp:34:17: warning: unused variable ‘sum_w_L_ik’ [-Wunused-variable]
34 | static double sum_w_L_ik;
| ^~~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_MCMC.cpp -o GLMM_MCMC.o
GLMM_MCMC.cpp: In function ‘void GLMM_MCMC(double*, int*, const int*, int*, const double*, double*, const int*, const double*, const double*, const int*, const double*, const double*, const double*, double*, double*, int*, double*, double*, double*, double*, double*, double*, double*, int*, int*, double*, double*, double*, double*, double*, int*, double*, double*, double*, double*, double*, double*, double*, int*, int*, double*, double*, double*, double*, double*, double*, int*, int*, double*, double*, double*, double*, double*, double*, double*, double*, double*, double*, double*, double*, double*, int*, double*, int*, int*)’:
GLMM_MCMC.cpp:96:13: warning: unused variable ‘DEBUG’ [-Wunused-variable]
96 | const int DEBUG = 0;
| ^~~~~
GLMM_MCMC.cpp:253:17: warning: unused variable ‘h_df’ [-Wunused-variable]
253 | const double *h_df = g_df + 1;
| ^~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_NMixRelabel.cpp -o GLMM_NMixRelabel.o
GLMM_NMixRelabel.cpp:346:1: warning: "/*" within comment [-Wcomment]
346 | /***** %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% *****/
|
GLMM_NMixRelabel.cpp: In function ‘void GLMM_NMixRelabel(const int*, const int*, const int*, double*, int*, const int*, const int*, const int*, int*, const double*, double*, const int*, const double*, const int*, const int*, const double*, const double*, const int*, const int*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, int*, int*, double*, int*, int*, double*, double*, double*, double*, double*, int*, double*, double*, double*, double*, int*, int*, int*)’:
GLMM_NMixRelabel.cpp:543:5: warning: ‘simpleType’ may be used uninitialized [-Wmaybe-uninitialized]
543 | switch (simpleType){
| ^~~~~~
GLMM_NMixRelabel.cpp:392:7: note: ‘simpleType’ was declared here
392 | int simpleType;
| ^~~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_PED.cpp -o GLMM_PED.o
GLMM_PED.cpp: In function ‘void GLMM_PED(double*, double*, double*, double*, int*, int*, int*, double*, double*, double*, double*, double*, double*, double*, int*, double*, int*, const int*, int*, const double*, double*, const int*, const int*, const double*, const double*, const int*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const int*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const int*, const double*, const double*)’:
GLMM_PED.cpp:123:7: warning: unused variable ‘LT_max_p_fi’ [-Wunused-variable]
123 | int LT_max_p_fi = (max_p_fi * (max_p_fi + 1)) / 2;
| ^~~~~~~~~~~
GLMM_PED.cpp:355:7: warning: unused variable ‘max_N_s’ [-Wunused-variable]
355 | int max_N_s = AK_Basic::maxArray(N_s, R);
| ^~~~~~~
GLMM_PED.cpp:512:12: warning: unused variable ‘eta_zsrespP’ [-Wunused-variable]
512 | double **eta_zsrespP = Calloc(R, double*);
| ^~~~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_copy_shift_eta_meanY_Zresp.cpp -o GLMM_copy_shift_eta_meanY_Zresp.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_create_SZitZiS.cpp -o GLMM_create_SZitZiS.o
GLMM_create_SZitZiS.cpp: In function ‘void GLMM::create_SZitZiS(double*, double**, double**, const double*, const int*, const int*, const int*, const int*, const int*, const int*)’:
GLMM_create_SZitZiS.cpp:129:21: warning: ‘SZitZiS_is’ may be used uninitialized [-Wmaybe-uninitialized]
129 | SZitZiS_is++;
| ~~~~~~~~~~^~
GLMM_create_SZitZiS.cpp:34:11: note: ‘SZitZiS_is’ was declared here
34 | double *SZitZiS_is, *SZitZiSP;
| ^~~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_create_SZitZiS_4longitDA.cpp -o GLMM_create_SZitZiS_4longitDA.o
GLMM_create_SZitZiS_4longitDA.cpp: In function ‘void GLMM::create_SZitZiS_4longitDA(double*, double*, double**, double**, const double*, const int*, const int*, const int*, const int*, const int*, const int*)’:
GLMM_create_SZitZiS_4longitDA.cpp:34:41: warning: unused variable ‘SZitZiSP’ [-Wunused-variable]
34 | double *SZitZiS_c_is, *SZitZiS_d_is, *SZitZiSP, *SZitZiS_prev;
| ^~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_create_XtX.cpp -o GLMM_create_XtX.o
GLMM_create_XtX.cpp: In function ‘void GLMM::create_XtX(double*, const double*, const int*, const int*, const int*, const int*, const int*, const int*)’:
GLMM_create_XtX.cpp:109:16: warning: ‘XtX_s’ may be used uninitialized [-Wmaybe-uninitialized]
109 | XtX_s++;
| ~~~~~^~
GLMM_create_XtX.cpp:31:11: note: ‘XtX_s’ was declared here
31 | double *XtX_s, *XtXP;
| ^~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_create_ZS.cpp -o GLMM_create_ZS.o
GLMM_create_ZS.cpp: In function ‘void GLMM::create_ZS(double*, double**, int**, double**, int**, const double*, const int*, const int*, const int*, const int*)’:
GLMM_create_ZS.cpp:33:26: warning: unused variable ‘scaleP2’ [-Wunused-variable]
33 | const double *scaleP, *scaleP2;
| ^~~~~~~
GLMM_create_ZS.cpp:42:7: warning: unused variable ‘iZS’ [-Wunused-variable]
42 | int iZS = 0;
| ^~~
GLMM_create_ZS.cpp:96:31: warning: ‘ZP’ may be used uninitialized [-Wmaybe-uninitialized]
96 | if (*qP) ZrespP[s] = ZP - (*qP - 1);
| ~~~^~~~~~~~~~~
GLMM_create_ZS.cpp:31:26: note: ‘ZP’ was declared here
31 | double *ZSP, *Zstart, *ZP;
| ^~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_create_ZiS.cpp -o GLMM_create_ZiS.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_dY_meanY.cpp -o GLMM_dY_meanY.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_eta_fixed_random2eta_meanY.cpp -o GLMM_eta_fixed_random2eta_meanY.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_fitted_Bernoulli_Logit.cpp -o GLMM_fitted_Bernoulli_Logit.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_fitted_Poisson_Log.cpp -o GLMM_fitted_Poisson_Log.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_linear_predictors.cpp -o GLMM_linear_predictors.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_longitDA.cpp -o GLMM_longitDA.o
GLMM_longitDA.cpp: In function ‘void GLMM_longitDA(double*, const int*, int*, const int*, const int*, const int*, const int*, const int*, const double*, const int*, const int*, double*, const int*, const int*, const double*, const int*, const int*, const int*, const double*, const int*, const double*, const double*, const double*, const double*, double*, double*, double*, int*)’:
GLMM_longitDA.cpp:63:13: warning: unused variable ‘DEBUG’ [-Wunused-variable]
63 | const int DEBUG = 0;
| ^~~~~
GLMM_longitDA.cpp:66:14: warning: unused variable ‘m’ [-Wunused-variable]
66 | int s, cl, m, i, j, k;
| ^
GLMM_longitDA.cpp:66:20: warning: unused variable ‘j’ [-Wunused-variable]
66 | int s, cl, m, i, j, k;
| ^
GLMM_longitDA.cpp:70:13: warning: unused variable ‘R_I’ [-Wunused-variable]
70 | const int R_I = R * *I;
| ^~~
GLMM_longitDA.cpp:162:7: warning: unused variable ‘backs’ [-Wunused-variable]
162 | int backs = 1;
| ^~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_longitDA2.cpp -o GLMM_longitDA2.o
GLMM_longitDA2.cpp: In function ‘void GLMM_longitDA2(const int*, double*, const int*, int*, const int*, const int*, const int*, const int*, int*, const double*, const int*, const int*, double*, const int*, const int*, const double*, const int*, const int*, const int*, const int*, const int*, const double*, const int*, const double*, const double*, const double*, const double*, double*, double*, double*, double*, double*, double*, double*, double*, double*, double*, int*, int*, int*, int*)’:
GLMM_longitDA2.cpp:435:22: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses]
435 | if (*nonSilent && !(iter_lC % *info) || iter_lC == *keepMCMC_cl){
| ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
GLMM_longitDA2.cpp:85:14: warning: unused variable ‘m’ [-Wunused-variable]
85 | int s, cl, m, i, j, k;
| ^
GLMM_longitDA2.cpp:290:7: warning: unused variable ‘backs’ [-Wunused-variable]
290 | int backs = 1;
| ^~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_longitPred_nmix_gauss.cpp -o GLMM_longitPred_nmix_gauss.o
GLMM_longitPred_nmix_gauss.cpp: In function ‘void GLMM::longitPred_nmix_gauss(double*, double*, double*, double**, double*, double*, double*, int*, double**, int**, double**, double**, double**, int*, double**, int**, double**, const double*, double**, const double*, const double*, const double*, const double*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const double*, const double*, const int*, const double*, const double*, const double*)’:
GLMM_longitPred_nmix_gauss.cpp:82:31: warning: unused variable ‘eta_randomP’ [-Wunused-variable]
82 | static double *eta_fixedP, *eta_randomP, *eta_zsP;
| ^~~~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_newData.cpp -o GLMM_newData.o
GLMM_newData.cpp: In function ‘void GLMM::newData(double*, int*, double*, double*, double*, double*, double*, double*, double*, const double*, const double*, const int*, const int*, const int*, const double*, const int*, const int*, const int*, const int*, const int*, const int*, const double*, const double*, const double*, const double*, const double*, const double*)’:
GLMM_newData.cpp:47:15: warning: unused variable ‘fname’ [-Wunused-variable]
47 | const char *fname = "GLMM::newData";
| ^~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_scale_ZitZi.cpp -o GLMM_scale_ZitZi.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_updateFixEf.cpp -o GLMM_updateFixEf.o
GLMM_updateFixEf.cpp: In function ‘void GLMM::updateFixEf(double*, double*, double*, double*, double*, double*, int*, int*, const double*, const int*, const double*, const double*, const double*, const double*, const double*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const double*, const double*, const double*, const double*, const double*, const double*)’:
GLMM_updateFixEf.cpp:72:40: warning: unused variable ‘dworkP’ [-Wunused-variable]
72 | static double *mu_fullP, *Li_fullP, *dworkP, *beta_propP;
| ^~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_updateHyperVars_eps.cpp -o GLMM_updateHyperVars_eps.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_updateRanEf.cpp -o GLMM_updateRanEf.o
GLMM_updateRanEf.cpp:498:5: warning: "/*" within comment [-Wcomment]
498 | /*** +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ ***/
|
GLMM_updateRanEf.cpp: In function ‘void GLMM::updateRanEf(double*, double*, double**, double**, double**, double*, double*, double**, int**, double**, double**, double**, double**, double**, double**, double**, int**, int*, int*, double**, int**, double**, double**, double**, double**, const double*, const double*, const double*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, int**, const int*, const double*, const int*, const double*, const double*, const double*, const double*, const int*, const double*, const double*)’:
GLMM_updateRanEf.cpp:76:32: warning: unused variable ‘row’ [-Wunused-variable]
76 | static int s, i, j, k, itmp, row, col;
| ^~~
GLMM_updateRanEf.cpp:76:37: warning: unused variable ‘col’ [-Wunused-variable]
76 | static int s, i, j, k, itmp, row, col;
| ^~~
GLMM_updateRanEf.cpp:82:88: warning: unused variable ‘Li_full_backupP’ [-Wunused-variable]
82 | static double *bP, *bscaledP, *bscaled_i, *b_i, *eta_random_propP, *mean_Y_d_propP, *Li_full_backupP, *Li_fullP;
| ^~~~~~~~~~~~~~~
GLMM_updateRanEf.cpp:82:106: warning: unused variable ‘Li_fullP’ [-Wunused-variable]
82 | static double *bP, *bscaledP, *bscaled_i, *b_i, *eta_random_propP, *mean_Y_d_propP, *Li_full_backupP, *Li_fullP;
| ^~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_updateRanEf_QR.cpp -o GLMM_updateRanEf_QR.o
GLMM_updateRanEf_QR.cpp: In function ‘void GLMM::updateRanEf_QR(double*, double*, double**, double**, double**, double*, int*, double*, double**, int**, double**, double**, double**, double**, double**, double**, int**, int*, int*, double**, int**, double**, double**, double**, const double*, const double*, const double*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, const int*, int**, const int*, const int*, const int*, const double*, const double*, const double*, const double*, const int*, const double*, const double*)’:
GLMM_updateRanEf_QR.cpp:73:20: warning: unused variable ‘j’ [-Wunused-variable]
73 | static int s, i, j, k, l;
| ^
GLMM_updateRanEf_QR.cpp:73:23: warning: unused variable ‘k’ [-Wunused-variable]
73 | static int s, i, j, k, l;
| ^
GLMM_updateRanEf_QR.cpp:73:26: warning: unused variable ‘l’ [-Wunused-variable]
73 | static int s, i, j, k, l;
| ^
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GLMM_updateVars_eps.cpp -o GLMM_updateVars_eps.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c LogLik_Bernoulli_Logit.cpp -o LogLik_Bernoulli_Logit.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c LogLik_Gauss_Identity.cpp -o LogLik_Gauss_Identity.o
LogLik_Gauss_Identity.cpp: In function ‘void LogLik::Gauss_Identity1(double*, const double*, const double*, const double*, const double*, const double*, const double*, const int*, const int*, const int*)’:
LogLik_Gauss_Identity.cpp:32:48: warning: unused variable ‘log_y_factorP’ [-Wunused-variable]
32 | static const double *offsetP, *xP, *thetaP, *log_y_factorP;
| ^~~~~~~~~~~~~
LogLik_Gauss_Identity.cpp: In function ‘void LogLik::Gauss_Identity_sqrt_w_phi1(double*, double*, const double*, const double*, const double*, const double*, const double*, const double*, const int*, const int*, const int*)’:
LogLik_Gauss_Identity.cpp:106:48: warning: unused variable ‘log_y_factorP’ [-Wunused-variable]
106 | static const double *offsetP, *xP, *thetaP, *log_y_factorP;
| ^~~~~~~~~~~~~
LogLik_Gauss_Identity.cpp: In function ‘void LogLik::Gauss_Identity_sqrt_w_phi_stres1(double*, double*, double*, double*, double*, const double*, const double*, const double*, const double*, const double*, const double*, const int*, const int*, const int*)’:
LogLik_Gauss_Identity.cpp:188:48: warning: unused variable ‘log_y_factorP’ [-Wunused-variable]
188 | static const double *offsetP, *xP, *thetaP, *log_y_factorP;
| ^~~~~~~~~~~~~
LogLik_Gauss_Identity.cpp: In function ‘void LogLik::Gauss_Identity3(double*, double*, const double*, const double*, const double*, const double*, const double*, const int*, const int*, const int*)’:
LogLik_Gauss_Identity.cpp:460:20: warning: unused variable ‘k’ [-Wunused-variable]
460 | static int i, j, k;
| ^
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c LogLik_Poisson_Log.cpp -o LogLik_Poisson_Log.o
LogLik_Poisson_Log.cpp: In function ‘void LogLik::Poisson_Log_sqrt_w_phi_stres2(double*, double*, double*, const double*, const double*, const double*, const double*, const int*, const double*, const int*)’:
LogLik_Poisson_Log.cpp:295:17: warning: unused variable ‘eta_now’ [-Wunused-variable]
295 | static double eta_now, ll_now;
| ^~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c MCMC_Moments_NormalApprox.cpp -o MCMC_Moments_NormalApprox.o
MCMC_Moments_NormalApprox.cpp: In function ‘void MCMC::Moments_NormalApprox(double*, double*, const double*, const double*, const double*, const int*)’:
MCMC_Moments_NormalApprox.cpp:96:27: warning: unused variable ‘QP’ [-Wunused-variable]
96 | static double *cmeanP, *QP;
| ^~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c MCMC_Moments_NormalApprox_QR.cpp -o MCMC_Moments_NormalApprox_QR.o
MCMC_Moments_NormalApprox_QR.cpp: In function ‘void MCMC::Moments_NormalApprox_QR(double*, double*, int*, int*, double*, double*, int*, const double*, const double*, const int*, const int*, const char*)’:
MCMC_Moments_NormalApprox_QR.cpp:180:14: warning: unused variable ‘one’ [-Wunused-variable]
180 | static int one = 1;
| ^~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c MCMC_loglik_Zwork1_stres.cpp -o MCMC_loglik_Zwork1_stres.o
MCMC_loglik_Zwork1_stres.cpp: In function ‘void MCMC::loglik(double*, double*, int*, double**, double**, double**, int**, int**, double**, const double*, const double*, const double*, const double*, const int*, const int*, const int*, const int*, const int*, const int*)’:
MCMC_loglik_Zwork1_stres.cpp:476:17: warning: unused variable ‘s2’ [-Wunused-variable]
476 | static int s, s2, l;
| ^~
MCMC_loglik_Zwork1_stres.cpp: In function ‘void MCMC::loglik(double*, int*, double**, double**, double**, int**, int**, double**, const double*, const double*, const int*, const int*, const int*, const int*, const int*, const int*)’:
MCMC_loglik_Zwork1_stres.cpp:577:17: warning: unused variable ‘s2’ [-Wunused-variable]
577 | static int s, s2, l;
| ^~
MCMC_loglik_Zwork1_stres.cpp:577:21: warning: unused variable ‘l’ [-Wunused-variable]
577 | static int s, s2, l;
| ^
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Misc_findIndexOfPermutation.cpp -o Misc_findIndexOfPermutation.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Misc_generatePermutations.cpp -o Misc_generatePermutations.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_ChainsDerived.cpp -o NMix_ChainsDerived.o
NMix_ChainsDerived.cpp: In function ‘void NMix_ChainsDerived(double*, double*, int*, const int*, const double*, const int*, const double*, const double*, const double*, const int*, const int*)’:
NMix_ChainsDerived.cpp:37:11: warning: unused variable ‘dP’ [-Wunused-variable]
37 | double *dP;
| ^~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_Deviance.cpp -o NMix_Deviance.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_MCMC.cpp -o NMix_MCMC.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_NMixRelabel.cpp -o NMix_NMixRelabel.o
NMix_NMixRelabel.cpp: In function ‘void NMix_NMixRelabel(const int*, const int*, const double*, const double*, const int*, const int*, const int*, const int*, const int*, const int*, const double*, const double*, const double*, const double*, const double*, int*, int*, double*, int*, double*, double*, double*, double*, double*, int*, double*, double*, int*, int*, int*)’:
NMix_NMixRelabel.cpp:212:11: warning: unused variable ‘hatPr_yP’ [-Wunused-variable]
212 | double *hatPr_yP = NULL;
| ^~~~~~~~
NMix_NMixRelabel.cpp:329:5: warning: ‘simpleType’ may be used uninitialized [-Wmaybe-uninitialized]
329 | switch (simpleType){
| ^~~~~~
NMix_NMixRelabel.cpp:207:7: note: ‘simpleType’ was declared here
207 | int simpleType;
| ^~~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_PED.cpp -o NMix_PED.o
NMix_PED.cpp: In function ‘void NMix_PED(double*, double*, double*, double*, int*, int*, int*, double*, int*, const double*, const double*, const int*, const int*, const int*, const int*, const double*, const double*, const double*, const int*, const double*, const double*, const double*, const int*, const int*, const int*, const double*, const double*)’:
NMix_PED.cpp:56:15: warning: unused variable ‘fname’ [-Wunused-variable]
56 | const char *fname = "NMix_PED";
| ^~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_PED_coreMulti.cpp -o NMix_PED_coreMulti.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_PED_coreUni.cpp -o NMix_PED_coreUni.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_PosterMeanMixParam.cpp -o NMix_PosterMeanMixParam.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_Pr_y_and_cum_Pr_y.cpp -o NMix_Pr_y_and_cum_Pr_y.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_PredCDFMarg.cpp -o NMix_PredCDFMarg.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_PredCondDensCDFMarg.cpp -o NMix_PredCondDensCDFMarg.o
NMix_PredCondDensCDFMarg.cpp: In function ‘void NMix_PredCondDensCDFMarg(double*, double*, int*, const int*, const int*, const double*, const int*, const double*, const int*, const int*, const int*, const double*, const double*, const double*, const int*)’:
NMix_PredCondDensCDFMarg.cpp:70:17: warning: unused variable ‘wP’ [-Wunused-variable]
70 | const double *wP = NULL;
| ^~
NMix_PredCondDensCDFMarg.cpp:71:17: warning: unused variable ‘muP’ [-Wunused-variable]
71 | const double *muP = NULL;
| ^~~
NMix_PredCondDensCDFMarg.cpp:72:17: warning: unused variable ‘LiP’ [-Wunused-variable]
72 | const double *LiP = NULL;
| ^~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_PredCondDensJoint2.cpp -o NMix_PredCondDensJoint2.o
NMix_PredCondDensJoint2.cpp: In function ‘void NMix_PredCondDensJoint2(double*, double*, int*, const int*, const double*, const int*, const int*, const int*, const double*, const double*, const double*, const int*)’:
NMix_PredCondDensJoint2.cpp:56:17: warning: unused variable ‘wP’ [-Wunused-variable]
56 | const double *wP = NULL;
| ^~
NMix_PredCondDensJoint2.cpp:57:17: warning: unused variable ‘muP’ [-Wunused-variable]
57 | const double *muP = NULL;
| ^~~
NMix_PredCondDensJoint2.cpp:58:17: warning: unused variable ‘LiP’ [-Wunused-variable]
58 | const double *LiP = NULL;
| ^~~
NMix_PredCondDensJoint2.cpp:105:29: warning: ‘lcgrid’ may be used uninitialized [-Wmaybe-uninitialized]
105 | dens_numer = dens_denom + lcgrid; /** space to store numerator when computing conditional densities **/
| ^~~~~~
NMix_PredCondDensJoint2.cpp:72:7: note: ‘lcgrid’ was declared here
72 | int lcgrid;
| ^~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_PredDA.cpp -o NMix_PredDA.o
NMix_PredDA.cpp: In function ‘void NMix_PredDA(const double*, const double*, const int*, const int*, const int*, const int*, const int*, const double*, const double*, const double*, const double*, const int*, double*, int*, int*, double*, int*)’:
NMix_PredDA.cpp:39:13: warning: unused variable ‘debug’ [-Wunused-variable]
39 | const int debug = 0;
| ^~~~~
NMix_PredDA.cpp:40:15: warning: unused variable ‘fname’ [-Wunused-variable]
40 | const char *fname = "NMix_PredDA";
| ^~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_PredDensJoint2.cpp -o NMix_PredDensJoint2.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_PredDensMarg.cpp -o NMix_PredDensMarg.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_RJMCMC_aux_vector_u.cpp -o NMix_RJMCMC_aux_vector_u.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_RJMCMC_logJacLambdaVSigma.cpp -o NMix_RJMCMC_logJacLambdaVSigma.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_RJMCMC_logJac_part3.cpp -o NMix_RJMCMC_logJac_part3.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_RJMCMCbirth.cpp -o NMix_RJMCMCbirth.o
NMix_RJMCMCbirth.cpp: In function ‘void NMix::RJMCMCbirth(int*, double*, int*, double*, double*, double*, double*, double*, double*, double*, int*, int*, int*, double*, int*, const int*, const int*, const int*, const double*, const double*, const int*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const int*)’:
NMix_RJMCMCbirth.cpp:54:39: warning: variable ‘dwork_orderComp’ set but not used [-Wunused-but-set-variable]
54 | static double *dwork_misc, *Li4mu, *dwork_orderComp;
| ^~~~~~~~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_RJMCMCcombine.cpp -o NMix_RJMCMCcombine.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_RJMCMCdeath.cpp -o NMix_RJMCMCdeath.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_RJMCMCsplit.cpp -o NMix_RJMCMCsplit.o
NMix_RJMCMCsplit.cpp: In function ‘void NMix::RJMCMCsplit(int*, double*, int*, double*, double*, double*, double*, double*, double*, double*, int*, int*, int*, int*, int**, double*, double*, double*, double*, int*, int*, const double*, const int*, const int*, const int*, const double*, const double*, const int*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const double*, const int*, const double*, void (*)(double*, double*, const double*, const int*))’:
NMix_RJMCMCsplit.cpp:68:18: warning: variable ‘dlambdaV_dSigma’ set but not used [-Wunused-but-set-variable]
68 | static double *dlambdaV_dSigma;
| ^~~~~~~~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_Stephens_costMatrix.cpp -o NMix_Stephens_costMatrix.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_Stephens_step1.cpp -o NMix_Stephens_step1.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_Stephens_step2_search.cpp -o NMix_Stephens_step2_search.o
NMix_Stephens_step2_search.cpp: In function ‘void NMix::Stephens_step2_search(int*, int*, int*, int*, const double*, const double*, const int*, const int*, const int*, const int*, const int*)’:
NMix_Stephens_step2_search.cpp:37:37: warning: unused variable ‘pij_q’ [-Wunused-variable]
37 | static double minLoss, Loss, pij, pij_q;
| ^~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_Stephens_step2_transport.cpp -o NMix_Stephens_step2_transport.o
NMix_Stephens_step2_transport.cpp: In function ‘void NMix::Stephens_step2_transport(int*, int*, int*, double*, double*, int*, double*, int*, double*, int*, const double*, const double*, const int*, const int*, const int*)’:
NMix_Stephens_step2_transport.cpp:37:15: warning: variable ‘orderP’ set but not used [-Wunused-but-set-variable]
37 | static int *orderP, *rankP;
| ^~~~~~
NMix_Stephens_step2_transport.cpp:37:24: warning: variable ‘rankP’ set but not used [-Wunused-but-set-variable]
37 | static int *orderP, *rankP;
| ^~~~~
NMix_Stephens_step2_transport.cpp:39:17: warning: unused variable ‘minLoss’ [-Wunused-variable]
39 | static double minLoss[1];
| ^~~~~~~
NMix_Stephens_step2_transport.cpp:40:14: warning: unused variable ‘lp_status’ [-Wunused-variable]
40 | static int lp_status[1];
| ^~~~~~~~~
NMix_Stephens_step2_transport.cpp:42:17: warning: unused variable ‘IZERO’ [-Wunused-variable]
42 | static int IZERO[1] = {0};
| ^~~~~
NMix_Stephens_step2_transport.cpp:43:17: warning: unused variable ‘DZERO’ [-Wunused-variable]
43 | static double DZERO[1] = {0};
| ^~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_Utils.cpp -o NMix_Utils.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_fullCondMean_WeightsMeansVars.cpp -o NMix_fullCondMean_WeightsMeansVars.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_orderComp.cpp -o NMix_orderComp.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_reorder_Pr_y.cpp -o NMix_reorder_Pr_y.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_sum_Ir.cpp -o NMix_sum_Ir.o
NMix_sum_Ir.cpp: In function ‘void NMix::sum_Ir(int*, const int*, const int*, const int*, const int*, const int*)’:
NMix_sum_Ir.cpp:26:17: warning: unused variable ‘j’ [-Wunused-variable]
26 | static int l, j, m;
| ^
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_updateAlloc.cpp -o NMix_updateAlloc.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_updateCensObs.cpp -o NMix_updateCensObs.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_updateHyperVars.cpp -o NMix_updateHyperVars.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_updateMeansVars.cpp -o NMix_updateMeansVars.o
NMix_updateMeansVars.cpp: In function ‘void NMix::updateMeansVars_IC_homoscedastic(double*, double*, double*, double*, double*, int*, int*, double*, int*, const double*, const int*, const int*, const int*, const int*, const int*, const double*, const double*, const double*, const double*, const double*, const double*, const double*)’:
NMix_updateMeansVars.cpp:477:38: warning: unused variable ‘log_detsP’ [-Wunused-variable]
477 | static double *QP, *SigmaP, *LiP, *log_detsP, *muP, *mixSSmP, *dP;
| ^~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_updateWeights.cpp -o NMix_updateWeights.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c NMix_update_sum_Ir_and_sum_Pr_y.cpp -o NMix_update_sum_Ir_and_sum_Pr_y.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Rand_RotationMatrix.cpp -o Rand_RotationMatrix.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Rand_SamplePair.cpp -o Rand_SamplePair.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Stat_BLA.cpp -o Stat_BLA.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Stat_Quantile.cpp -o Stat_Quantile.o
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o mixAK.so 00mixAK_init.o AK_BLAS.o AK_BSTAT.o AK_LAPACK.o AK_Utils.o Dist_Dirichlet.o Dist_Discrete.o Dist_MVN.o Dist_MVT.o Dist_TMVN.o Dist_TNorm.o Dist_TmixMVN.o Dist_TmixNorm.o Dist_Wishart.o Dist_mixMVN.o Dist_mixNorm.o GLMM_Deviance.o GLMM_Deviance2.o GLMM_Deviance2Pr_obs.o GLMM_MCMC.o GLMM_NMixRelabel.o GLMM_PED.o GLMM_copy_shift_eta_meanY_Zresp.o GLMM_create_SZitZiS.o GLMM_create_SZitZiS_4longitDA.o GLMM_create_XtX.o GLMM_create_ZS.o GLMM_create_ZiS.o GLMM_dY_meanY.o GLMM_eta_fixed_random2eta_meanY.o GLMM_fitted_Bernoulli_Logit.o GLMM_fitted_Poisson_Log.o GLMM_linear_predictors.o GLMM_longitDA.o GLMM_longitDA2.o GLMM_longitPred_nmix_gauss.o GLMM_newData.o GLMM_scale_ZitZi.o GLMM_updateFixEf.o GLMM_updateHyperVars_eps.o GLMM_updateRanEf.o GLMM_updateRanEf_QR.o GLMM_updateVars_eps.o LogLik_Bernoulli_Logit.o LogLik_Gauss_Identity.o LogLik_Poisson_Log.o MCMC_Moments_NormalApprox.o MCMC_Moments_NormalApprox_QR.o MCMC_loglik_Zwork1_stres.o Misc_findIndexOfPermutation.o Misc_generatePermutations.o NMix_ChainsDerived.o NMix_Deviance.o NMix_MCMC.o NMix_NMixRelabel.o NMix_PED.o NMix_PED_coreMulti.o NMix_PED_coreUni.o NMix_PosterMeanMixParam.o NMix_Pr_y_and_cum_Pr_y.o NMix_PredCDFMarg.o NMix_PredCondDensCDFMarg.o NMix_PredCondDensJoint2.o NMix_PredDA.o NMix_PredDensJoint2.o NMix_PredDensMarg.o NMix_RJMCMC_aux_vector_u.o NMix_RJMCMC_logJacLambdaVSigma.o NMix_RJMCMC_logJac_part3.o NMix_RJMCMCbirth.o NMix_RJMCMCcombine.o NMix_RJMCMCdeath.o NMix_RJMCMCsplit.o NMix_Stephens_costMatrix.o NMix_Stephens_step1.o NMix_Stephens_step2_search.o NMix_Stephens_step2_transport.o NMix_Utils.o NMix_fullCondMean_WeightsMeansVars.o NMix_orderComp.o NMix_reorder_Pr_y.o NMix_sum_Ir.o NMix_updateAlloc.o NMix_updateCensObs.o NMix_updateHyperVars.o NMix_updateMeansVars.o NMix_updateWeights.o NMix_update_sum_Ir_and_sum_Pr_y.o Rand_RotationMatrix.o Rand_SamplePair.o Stat_BLA.o Stat_Quantile.o -llapack -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpYXSxnq/R.INSTALL3d31c11647198d/mixAK/src'
make[1]: Entering directory '/tmp/RtmpYXSxnq/R.INSTALL3d31c11647198d/mixAK/src'
make[1]: Leaving directory '/tmp/RtmpYXSxnq/R.INSTALL3d31c11647198d/mixAK/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-mixAK/00new/mixAK/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘mixAK’
finding HTML links ... done
Acidity html
BLA html
BsBasis html
Dirichlet html
Enzyme html
Faithful html
GLMMMCMC html
GLMMMCMCdata html
GLMMMCMCifit html
GLMMMCMCinit.alpha html
GLMMMCMCinit.b html
GLMMMCMCinit.eps html
GLMMMCMCprior.alpha html
GLMMMCMCprior.b html
GLMMMCMCprior.eps html
GLMMMCMCscale.b html
GLMMMCMCwrapper html
GLMMlongitDA html
GLMMlongitDA2 html
Galaxy html
MVN html
MVNmixture html
MVT html
MatMPpinv html
MatSqrt html
NMixChainComp html
NMixChainsDerived html
NMixCluster html
NMixEM html
NMixMCMC html
NMixMCMCdata html
NMixMCMCinitr html
NMixMCMCinity html
NMixMCMCwrapper html
NMixPlugCondDensJoint2 html
NMixPlugCondDensMarg html
NMixPlugDA html
NMixPlugDensJoint2 html
NMixPlugDensMarg html
NMixPredCDFMarg html
NMixPredCondCDFMarg html
NMixPredCondDensJoint2 html
NMixPredCondDensMarg html
NMixPredDA html
NMixPredDensJoint2 html
NMixPredDensMarg html
NMixPseudoGOF html
NMixRelabel html
NMixRelabelAlgorithm html
NMixSummComp html
PBC910 html
PBCseq html
SP2Rect html
SimData html
TMVN html
TNorm html
Tandmob html
TandmobEmer html
Wishart html
Y2T html
autolayout html
cbplot html
fitted.GLMMMCMC html
generatePermutations html
getProfiles html
plot.NMixPlugCondDensJoint2 html
plot.NMixPlugCondDensMarg html
plot.NMixPlugDensJoint2 html
plot.NMixPlugDensMarg html
plot.NMixPredCDFMarg html
plot.NMixPredCondCDFMarg html
plot.NMixPredCondDensJoint2 html
plot.NMixPredCondDensMarg html
plot.NMixPredDensJoint2 html
plot.NMixPredDensMarg html
plotProfiles html
rRotationMatrix html
rSamplePair html
summaryDiff html
tracePlots html
** 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 (mixAK)