* installing *source* package ‘mixAK’ ... ** package ‘mixAK’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘clang version 18.1.4’ make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/mixAK/src' /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c 00mixAK_init.cpp -o 00mixAK_init.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c AK_BLAS.cpp -o AK_BLAS.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c AK_BSTAT.cpp -o AK_BSTAT.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c AK_LAPACK.cpp -o AK_LAPACK.o AK_LAPACK.cpp:1001:17: warning: variable 'LTp' set but not used [-Wunused-but-set-variable] 1001 | static int i, LTp, p_p; | ^ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c AK_Utils.cpp -o AK_Utils.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Dist_Dirichlet.cpp -o Dist_Dirichlet.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Dist_Discrete.cpp -o Dist_Discrete.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Dist_MVN.cpp -o Dist_MVN.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Dist_MVT.cpp -o Dist_MVT.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Dist_TMVN.cpp -o Dist_TMVN.o Dist_TMVN.cpp:83:18: warning: variable 'zP' set but not used [-Wunused-but-set-variable] 83 | static double *zP, *z, *Gz; | ^ Dist_TMVN.cpp:84:24: warning: variable 'alphaP' set but not used [-Wunused-but-set-variable] 84 | static const double *alphaP, *aP, *bP, *GzP; | ^ 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; | ^ 6 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Dist_TNorm.cpp -o Dist_TNorm.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Dist_TmixMVN.cpp -o Dist_TmixMVN.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Dist_TmixNorm.cpp -o Dist_TmixNorm.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Dist_Wishart.cpp -o Dist_Wishart.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Dist_mixMVN.cpp -o Dist_mixMVN.o Dist_mixMVN.cpp:212:13: warning: unused variable 'LTnx' [-Wunused-variable] 212 | const int LTnx = (*nx * (*nx + 1))/2; | ^~~~ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Dist_mixNorm.cpp -o Dist_mixNorm.o Dist_mixNorm.cpp:91:7: warning: unused variable 'k' [-Wunused-variable] 91 | int k, j; | ^ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_Deviance.cpp -o GLMM_Deviance.o GLMM_Deviance.cpp:85:24: warning: variable 'w_k' set but not used [-Wunused-but-set-variable] 85 | static const double *w_k, *df_k, *logw_k, *mu_k, *Li_k, *Q_k, *log_dets_k; | ^ 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]; | ^~~~ 3 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_Deviance2.cpp -o GLMM_Deviance2.o GLMM_Deviance2.cpp:95:24: warning: variable 'w_k' set but not used [-Wunused-but-set-variable] 95 | static const double *w_k, *df_k, *logw_k, *mu_k, *Li_k, *Q_k, *log_dets_k; | ^ 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]; | ^~~~ 5 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_Deviance2Pr_obs.cpp -o GLMM_Deviance2Pr_obs.o GLMM_Deviance2Pr_obs.cpp:34:17: warning: unused variable 'sum_w_L_ik' [-Wunused-variable] 34 | static double sum_w_L_ik; | ^~~~~~~~~~ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_MCMC.cpp -o GLMM_MCMC.o 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; | ^~~~ 2 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_NMixRelabel.cpp -o GLMM_NMixRelabel.o GLMM_NMixRelabel.cpp:346:1: warning: '/*' within block comment [-Wcomment] 346 | /***** %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% *****/ | ^ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_PED.cpp -o GLMM_PED.o 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*); | ^~~~~~~~~~~ 3 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_copy_shift_eta_meanY_Zresp.cpp -o GLMM_copy_shift_eta_meanY_Zresp.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_create_SZitZiS.cpp -o GLMM_create_SZitZiS.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_create_SZitZiS_4longitDA.cpp -o GLMM_create_SZitZiS_4longitDA.o GLMM_create_SZitZiS_4longitDA.cpp:34:41: warning: unused variable 'SZitZiSP' [-Wunused-variable] 34 | double *SZitZiS_c_is, *SZitZiS_d_is, *SZitZiSP, *SZitZiS_prev; | ^~~~~~~~ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_create_XtX.cpp -o GLMM_create_XtX.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_create_ZS.cpp -o GLMM_create_ZS.o 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; | ^~~ 2 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_create_ZiS.cpp -o GLMM_create_ZiS.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_dY_meanY.cpp -o GLMM_dY_meanY.o GLMM_dY_meanY.cpp:36:17: warning: variable 'Y_cP' set but not used [-Wunused-but-set-variable] 36 | const double *Y_cP = Y_c; | ^ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_eta_fixed_random2eta_meanY.cpp -o GLMM_eta_fixed_random2eta_meanY.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_fitted_Bernoulli_Logit.cpp -o GLMM_fitted_Bernoulli_Logit.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_fitted_Poisson_Log.cpp -o GLMM_fitted_Poisson_Log.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_linear_predictors.cpp -o GLMM_linear_predictors.o GLMM_linear_predictors.cpp:495:14: warning: variable 'cumq_riP' set but not used [-Wunused-but-set-variable] 495 | const int *cumq_riP = cumq_ri; | ^ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_longitDA.cpp -o GLMM_longitDA.o 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; | ^~~~~ GLMM_longitDA.cpp:172:14: warning: variable 'p_fi_cl' set but not used [-Wunused-but-set-variable] 172 | const int *p_fi_cl = p_fi; | ^ 6 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_longitDA2.cpp -o GLMM_longitDA2.o GLMM_longitDA2.cpp:435:22: warning: '&&' within '||' [-Wlogical-op-parentheses] 435 | if (*nonSilent && !(iter_lC % *info) || iter_lC == *keepMCMC_cl){ | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ ~~ GLMM_longitDA2.cpp:435:22: note: place parentheses around the '&&' expression to silence this warning 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; | ^~~~~ GLMM_longitDA2.cpp:325:14: warning: variable 'p_fi_cl' set but not used [-Wunused-but-set-variable] 325 | const int *p_fi_cl = p_fi; | ^ 4 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_longitPred_nmix_gauss.cpp -o GLMM_longitPred_nmix_gauss.o GLMM_longitPred_nmix_gauss.cpp:82:31: warning: unused variable 'eta_randomP' [-Wunused-variable] 82 | static double *eta_fixedP, *eta_randomP, *eta_zsP; | ^~~~~~~~~~~ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_newData.cpp -o GLMM_newData.o GLMM_newData.cpp:47:15: warning: unused variable 'fname' [-Wunused-variable] 47 | const char *fname = "GLMM::newData"; | ^~~~~ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_scale_ZitZi.cpp -o GLMM_scale_ZitZi.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_updateFixEf.cpp -o GLMM_updateFixEf.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_updateHyperVars_eps.cpp -o GLMM_updateHyperVars_eps.o GLMM_updateFixEf.cpp:72:40: warning: unused variable 'dworkP' [-Wunused-variable] 72 | static double *mu_fullP, *Li_fullP, *dworkP, *beta_propP; | ^~~~~~ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_updateRanEf.cpp -o GLMM_updateRanEf.o GLMM_updateRanEf.cpp:498:5: warning: '/*' within block comment [-Wcomment] 498 | /*** +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ ***/ | ^ 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; | ^~~~~~~~ 5 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_updateRanEf_QR.cpp -o GLMM_updateRanEf_QR.o 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; | ^ 3 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c GLMM_updateVars_eps.cpp -o GLMM_updateVars_eps.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c LogLik_Bernoulli_Logit.cpp -o LogLik_Bernoulli_Logit.o LogLik_Bernoulli_Logit.cpp:610:24: warning: variable 'etaP' set but not used [-Wunused-but-set-variable] 610 | static const double *etaP, *offsetP, *piP, *scaleP, *xP, *SxxSP; | ^ LogLik_Bernoulli_Logit.cpp:610:31: warning: variable 'offsetP' set but not used [-Wunused-but-set-variable] 610 | static const double *etaP, *offsetP, *piP, *scaleP, *xP, *SxxSP; | ^ 2 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c LogLik_Gauss_Identity.cpp -o LogLik_Gauss_Identity.o 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:106:48: warning: unused variable 'log_y_factorP' [-Wunused-variable] 106 | static const double *offsetP, *xP, *thetaP, *log_y_factorP; | ^~~~~~~~~~~~~ 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:460:20: warning: unused variable 'k' [-Wunused-variable] 460 | static int i, j, k; | ^ 4 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c LogLik_Poisson_Log.cpp -o LogLik_Poisson_Log.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c MCMC_Moments_NormalApprox.cpp -o MCMC_Moments_NormalApprox.o LogLik_Poisson_Log.cpp:295:17: warning: unused variable 'eta_now' [-Wunused-variable] 295 | static double eta_now, ll_now; | ^~~~~~~ MCMC_Moments_NormalApprox.cpp:96:27: warning: unused variable 'QP' [-Wunused-variable] 96 | static double *cmeanP, *QP; | ^~ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c MCMC_Moments_NormalApprox_QR.cpp -o MCMC_Moments_NormalApprox_QR.o 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c MCMC_loglik_Zwork1_stres.cpp -o MCMC_loglik_Zwork1_stres.o MCMC_Moments_NormalApprox_QR.cpp:180:14: warning: unused variable 'one' [-Wunused-variable] 180 | static int one = 1; | ^~~ MCMC_loglik_Zwork1_stres.cpp:476:17: warning: unused variable 's2' [-Wunused-variable] 476 | static int s, s2, l; | ^~ 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; | ^ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Misc_findIndexOfPermutation.cpp -o Misc_findIndexOfPermutation.o 3 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Misc_generatePermutations.cpp -o Misc_generatePermutations.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_ChainsDerived.cpp -o NMix_ChainsDerived.o NMix_ChainsDerived.cpp:37:11: warning: unused variable 'dP' [-Wunused-variable] 37 | double *dP; | ^~ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_Deviance.cpp -o NMix_Deviance.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_MCMC.cpp -o NMix_MCMC.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_NMixRelabel.cpp -o NMix_NMixRelabel.o NMix_NMixRelabel.cpp:212:11: warning: unused variable 'hatPr_yP' [-Wunused-variable] 212 | double *hatPr_yP = NULL; | ^~~~~~~~ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_PED.cpp -o NMix_PED.o NMix_PED.cpp:56:15: warning: unused variable 'fname' [-Wunused-variable] 56 | const char *fname = "NMix_PED"; | ^~~~~ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_PED_coreMulti.cpp -o NMix_PED_coreMulti.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_PED_coreUni.cpp -o NMix_PED_coreUni.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_PosterMeanMixParam.cpp -o NMix_PosterMeanMixParam.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_Pr_y_and_cum_Pr_y.cpp -o NMix_Pr_y_and_cum_Pr_y.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_PredCDFMarg.cpp -o NMix_PredCDFMarg.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_PredCondDensCDFMarg.cpp -o NMix_PredCondDensCDFMarg.o 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; | ^~~ 3 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_PredCondDensJoint2.cpp -o NMix_PredCondDensJoint2.o 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; | ^~~ 3 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_PredDA.cpp -o NMix_PredDA.o 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"; | ^~~~~ 2 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_PredDensJoint2.cpp -o NMix_PredDensJoint2.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_PredDensMarg.cpp -o NMix_PredDensMarg.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_RJMCMC_aux_vector_u.cpp -o NMix_RJMCMC_aux_vector_u.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_RJMCMC_logJacLambdaVSigma.cpp -o NMix_RJMCMC_logJacLambdaVSigma.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_RJMCMC_logJac_part3.cpp -o NMix_RJMCMC_logJac_part3.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_RJMCMCbirth.cpp -o NMix_RJMCMCbirth.o 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; | ^ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_RJMCMCcombine.cpp -o NMix_RJMCMCcombine.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_RJMCMCdeath.cpp -o NMix_RJMCMCdeath.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_RJMCMCsplit.cpp -o NMix_RJMCMCsplit.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_Stephens_costMatrix.cpp -o NMix_Stephens_costMatrix.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_Stephens_step1.cpp -o NMix_Stephens_step1.o NMix_RJMCMCsplit.cpp:68:18: warning: variable 'dlambdaV_dSigma' set but not used [-Wunused-but-set-variable] 68 | static double *dlambdaV_dSigma; | ^ /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_Stephens_step2_search.cpp -o NMix_Stephens_step2_search.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_Stephens_step2_transport.cpp -o NMix_Stephens_step2_transport.o 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_Utils.cpp -o NMix_Utils.o NMix_Stephens_step2_search.cpp:37:37: warning: unused variable 'pij_q' [-Wunused-variable] 37 | static double minLoss, Loss, pij, pij_q; | ^~~~~ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_fullCondMean_WeightsMeansVars.cpp -o NMix_fullCondMean_WeightsMeansVars.o 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}; | ^~~~~ 6 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_orderComp.cpp -o NMix_orderComp.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_reorder_Pr_y.cpp -o NMix_reorder_Pr_y.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_sum_Ir.cpp -o NMix_sum_Ir.o NMix_sum_Ir.cpp:26:17: warning: unused variable 'j' [-Wunused-variable] 26 | static int l, j, m; | ^ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_updateAlloc.cpp -o NMix_updateAlloc.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_updateCensObs.cpp -o NMix_updateCensObs.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_updateHyperVars.cpp -o NMix_updateHyperVars.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_updateMeansVars.cpp -o NMix_updateMeansVars.o NMix_updateMeansVars.cpp:477:38: warning: unused variable 'log_detsP' [-Wunused-variable] 477 | static double *QP, *SigmaP, *LiP, *log_detsP, *muP, *mixSSmP, *dP; | ^~~~~~~~~ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_updateWeights.cpp -o NMix_updateWeights.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c NMix_update_sum_Ir_and_sum_Pr_y.cpp -o NMix_update_sum_Ir_and_sum_Pr_y.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Rand_RotationMatrix.cpp -o Rand_RotationMatrix.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Rand_SamplePair.cpp -o Rand_SamplePair.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Stat_BLA.cpp -o Stat_BLA.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c Stat_Quantile.cpp -o Stat_Quantile.o /usr/local/clang18/bin/clang++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang18/lib -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -o 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 -L/data/gannet/ripley/R/R-clang/lib -lRlapack -L/data/gannet/ripley/R/R-clang/lib -lRblas -lFortran_main -lFortranRuntime -lFortranDecimal -lm make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/mixAK/src' make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/mixAK/src' make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/mixAK/src' installing to /data/gannet/ripley/R/packages/tests-clang/mixAK.Rcheck/00LOCK-mixAK/00new/mixAK/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (mixAK)