downloading reverse dependencies ... downloading deident_1.0.0.tar.gz ... ok downloading exploratory_0.3.31.tar.gz ... ok downloading MIC_1.1.0.tar.gz ... ok downloading MultiGroupO_0.4.0.tar.gz ... ok downloading icpack_0.1.0.tar.gz ... ok downloading robustlmm_3.3-3.tar.gz ... ok downloading wcde_0.0.7.tar.gz ... ok installing dependencies ‘AMR’, ‘diffviewer’, ‘lemon’, ‘lm.beta’, ‘lqmm’, ‘mgm’, ‘plsgenomics’, ‘rlme’, ‘robustbase’, ‘robustvarComp’, ‘skewt’ also installing the dependencies ‘SparseGrid’, ‘GSE’ begin installing package ‘SparseGrid’ begin installing package ‘diffviewer’ begin installing package ‘lemon’ begin installing package ‘lm.beta’ begin installing package ‘AMR’ begin installing package ‘plsgenomics’ begin installing package ‘mgm’ begin installing package ‘skewt’ begin installing package ‘robustbase’ * installing *source* package ‘skewt’ ... ** this is package ‘skewt’ version ‘1.0’ ** package ‘skewt’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (skewt) * installing *source* package ‘diffviewer’ ... ** this is package ‘diffviewer’ version ‘0.1.2’ ** package ‘diffviewer’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (diffviewer) * installing *source* package ‘lm.beta’ ... ** this is package ‘lm.beta’ version ‘1.7-2’ ** package ‘lm.beta’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (lm.beta) * installing *source* package ‘SparseGrid’ ... ** this is package ‘SparseGrid’ version ‘0.8.2’ ** package ‘SparseGrid’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (SparseGrid) begin installing package ‘lqmm’ * installing *source* package ‘lqmm’ ... ** this is package ‘lqmm’ version ‘1.5.8’ ** package ‘lqmm’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-1) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmppP7cA9/R.INSTALLee260554ef420/lqmm/src' gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lqmm.c -o lqmm.o gcc-15 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o lqmm.so init.o lqmm.o -llapack -L/home/hornik/tmp/R-d-gcc-15/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmppP7cA9/R.INSTALLee260554ef420/lqmm/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-lqmm/00new/lqmm/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 (lqmm) * installing *source* package ‘lemon’ ... ** this is package ‘lemon’ version ‘0.5.2’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (lemon) * installing *source* package ‘plsgenomics’ ... ** this is package ‘plsgenomics’ version ‘1.5-3’ ** package ‘plsgenomics’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (plsgenomics) * installing *source* package ‘mgm’ ... ** this is package ‘mgm’ version ‘1.2-15’ ** package ‘mgm’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (mgm) * installing *source* package ‘robustbase’ ... ** this is package ‘robustbase’ version ‘0.99-6’ ** package ‘robustbase’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-1) 15.2.0’ using Fortran compiler: ‘GNU Fortran (Debian 15.2.0-1) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpIQgOhw/R.INSTALLee15632da92ee/robustbase/src' gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c R-rng4ftn.c -o R-rng4ftn.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c eigen.f -o eigen.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lmrob.c -o lmrob.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mc.c -o mc.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c monitor.c -o monitor.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c qn_sn.c -o qn_sn.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c rf-common.f -o rf-common.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c rffastmcd.f -o rffastmcd.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c rfltsreg.f -o rfltsreg.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c rllarsbi.f -o rllarsbi.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rob-utils.c -o rob-utils.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rowMedians.c -o rowMedians.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c wgt_himed.c -o wgt_himed.o gcc-15 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o robustbase.so R-rng4ftn.o eigen.o init.o lmrob.o mc.o monitor.o qn_sn.o rf-common.o rffastmcd.o rfltsreg.o rllarsbi.o rob-utils.o rowMedians.o wgt_himed.o -llapack -L/home/hornik/tmp/R-d-gcc-15/lib -lRblas -lgfortran -lm -lquadmath -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpIQgOhw/R.INSTALLee15632da92ee/robustbase/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-robustbase/00new/robustbase/libs ** R ** data *** moving datasets to lazyload DB ** demo ** inst ** byte-compile and prepare package for lazy loading Creating a generic function from function ‘chgDefaults’ in package ‘robustbase’ ** help *** installing help indices ** 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 (robustbase) begin installing package ‘GSE’ begin installing package ‘rlme’ * installing *source* package ‘AMR’ ... ** this is package ‘AMR’ version ‘3.0.0’ ** package ‘AMR’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (AMR) * installing *source* package ‘rlme’ ... ** this is package ‘rlme’ version ‘0.5’ ** package ‘rlme’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-15 (Debian 15.2.0-1) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpp4ms6R/R.INSTALLee3fa45ab83fe/rlme/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c bmat.cpp -o bmat.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pairup.cpp -o pairup.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c remove_k_smallest.cpp -o remove_k_smallest.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c rhosch.cpp -o rhosch.o g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o rlme.so RcppExports.o bmat.o pairup.o remove_k_smallest.o rhosch.o -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpp4ms6R/R.INSTALLee3fa45ab83fe/rlme/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-rlme/00new/rlme/libs ** R ** data *** moving datasets to lazyload DB ** 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 (rlme) * installing *source* package ‘GSE’ ... ** this is package ‘GSE’ version ‘4.2-1’ ** package ‘GSE’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-1) 15.2.0’ using C++ compiler: ‘g++-15 (Debian 15.2.0-1) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpd7XpsX/R.INSTALLee3f82724616b/GSE/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c cov-em.cpp -o cov-em.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo.h:29, from cov-em.h:4, from cov-em.cpp:1: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’ 71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.") | ^ g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c emve.cpp -o emve.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo.h:29, from emve.h:4, from emve.cpp:4: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’ 71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.") | ^ emve.cpp: In function ‘arma::cube emve_resamp(arma::mat, arma::umat, arma::vec, int, int, arma::vec, arma::mat, int, arma::uvec, arma::umat, arma::uvec, arma::umat, arma::umat, arma::uvec, int, int, int, arma::uvec, arma::vec, arma::vec, int)’: emve.cpp:193:20: warning: comparison of integer expressions of different signedness: ‘arma::uword’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 193 | if( rk == p){ | ~~~^~~~ emve.cpp:216:24: warning: comparison of integer expressions of different signedness: ‘arma::uword’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 216 | if( rk == p){ | ~~~^~~~ emve.cpp:153:16: warning: variable ‘max_cand_scale’ set but not used [-Wunused-but-set-variable] 153 | double max_cand_scale; | ^~~~~~~~~~~~~~ emve.cpp:154:16: warning: variable ‘min_cand_scale’ set but not used [-Wunused-but-set-variable] 154 | double min_cand_scale; | ^~~~~~~~~~~~~~ g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gse-rocke.cpp -o gse-rocke.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo.h:29, from gse-rocke.h:4, from gse-rocke.cpp:1: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’ 71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.") | ^ gse-rocke.cpp: In function ‘SEXPREC* GSE_Rocke(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’: gse-rocke.cpp:46:13: warning: unused variable ‘print_step’ [-Wunused-variable] 46 | int print_step = as(Print_step); | ^~~~~~~~~~ gse-rocke.cpp:131:13: warning: unused variable ‘ximp_update’ [-Wunused-variable] 131 | int ximp_update = update(x, Omega, Sigma0, false, mu0, stilde0, miss_group_unique, miss_group_counts, tuning_const_group, gamma_tune_group, wgts_mem, wgtsp_mem, ximp_mem); | ^~~~~~~~~~~ gse-rocke.cpp: In function ‘arma::mat iterS(arma::mat, arma::mat, arma::mat, bool, arma::mat, double, arma::umat, arma::uvec, arma::vec, arma::vec, double*, double*, double*, int*)’: gse-rocke.cpp:263:50: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 263 | for(int jj=0; jj < p; jj++) ximp(rowid_start + m, jj) = xpred(0, jj); // new July 28, 2014 for outputing the imputed data matrix | ~~~^~~ gse-rocke.cpp:162:13: warning: variable ‘error_code’ set but not used [-Wunused-but-set-variable] 162 | int error_code = *error_code_mem; // 0 = no error, 1 = non-positive scale, 2 = non-positive definite est scatter | ^~~~~~~~~~ gse-rocke.cpp: In function ‘arma::mat gradient(arma::mat, arma::mat, arma::mat, arma::mat, arma::mat, arma::mat, double, arma::umat, arma::uvec, arma::vec, arma::vec, double, int, double)’: gse-rocke.cpp:295:13: warning: unused variable ‘n’ [-Wunused-variable] 295 | int n = x.n_rows; | ^ gse-rocke.cpp: In function ‘int update(arma::mat, arma::mat, arma::mat, bool, arma::mat, double, arma::umat, arma::uvec, arma::vec, arma::vec, double*, double*, double*)’: gse-rocke.cpp:426:50: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 426 | for(int jj=0; jj < p; jj++) ximp(rowid_start + m, jj) = xpred(0, jj); // new July 28, 2014 for outputing the imputed data matrix | ~~~^~~ gse-rocke.cpp:416:40: warning: unused variable ‘weight2’ [-Wunused-variable] 416 | double weight2 = weight1 * (md / ppi); | ^~~~~~~ g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gse.cpp -o gse.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo.h:29, from gse.h:4, from gse.cpp:1: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’ 71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.") | ^ gse.cpp: In function ‘SEXPREC* GSE_Rcpp(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’: gse.cpp:41:9: warning: unused variable ‘print_step’ [-Wunused-variable] 41 | int print_step = as(Print_step); | ^~~~~~~~~~ gse.cpp:102:9: warning: unused variable ‘ximp_update’ [-Wunused-variable] 102 | int ximp_update = update(x, Omega, Sigma0, false, mu0, stilde0, miss_group_unique, miss_group_counts, tuning_const_group, wgts_mem, wgtsp_mem, ximp_mem); | ^~~~~~~~~~~ gse.cpp: In function ‘arma::mat iterS(arma::mat, arma::mat, arma::mat, bool, arma::mat, double, arma::umat, arma::uvec, arma::vec, double*, double*, double*, int*)’: gse.cpp:233:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 233 | for(int jj=0; jj < p; jj++) ximp(rowid_start + m, jj) = xpred(0, jj); // new July 28, 2014 for outputing the imputed data matrix | ~~~^~~ gse.cpp:132:9: warning: variable ‘error_code’ set but not used [-Wunused-but-set-variable] 132 | int error_code = *error_code_mem; // 0 = no error, 1 = non-positive scale, 2 = non-positive definite est scatter | ^~~~~~~~~~ gse.cpp: In function ‘int update(arma::mat, arma::mat, arma::mat, bool, arma::mat, double, arma::umat, arma::uvec, arma::vec, double*, double*, double*)’: gse.cpp:347:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 347 | for(int jj=0; jj < p; jj++) ximp(rowid_start + m, jj) = xpred(0, jj); // new July 28, 2014 for outputing the imputed data matrix | ~~~^~~ gse.cpp:337:24: warning: unused variable ‘weight2’ [-Wunused-variable] 337 | double weight2 = weight1 * (md / ppi); | ^~~~~~~ gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o GSE.so cov-em.o emve.o gse-rocke.o gse.o init.o -llapack -L/home/hornik/tmp/R-d-gcc-15/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpd7XpsX/R.INSTALLee3f82724616b/GSE/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-GSE/00new/GSE/libs ** R ** data ** 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 (GSE) begin installing package ‘robustvarComp’ * installing *source* package ‘robustvarComp’ ... ** this is package ‘robustvarComp’ version ‘0.1-7’ ** package ‘robustvarComp’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-1) 15.2.0’ using Fortran compiler: ‘GNU Fortran (Debian 15.2.0-1) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp3Rcwx4/R.INSTALLee4f533a6c8b8/robustvarComp/src' gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c Ainv.f -o Ainv.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c Sdet.f -o Sdet.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c det2.f -o det2.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c dmahal.f -o dmahal.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c dmahalN.f -o dmahalN.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c doSstep.f -o doSstep.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c doSsteppw.f -o doSsteppw.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c doSsteprocke.f -o doSsteprocke.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c doTausteppw.f -o doTausteppw.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c doTausteppwDet.f -o doTausteppwDet.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c optimChi.f -o optimChi.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c rSr.f -o rSr.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c rSstarr.f -o rSstarr.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c rVr.f -o rVr.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c rhostarpw.f -o rhostarpw.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c rockeChi.f -o rockeChi.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c tukeyChi.f -o tukeyChi.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c wrapper.c -o wrapper.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c xSstarx.f -o xSstarx.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c xSstary.f -o xSstary.o gcc-15 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o robustvarComp.so Ainv.o Sdet.o det2.o dmahal.o dmahalN.o doSstep.o doSsteppw.o doSsteprocke.o doTausteppw.o doTausteppwDet.o init.o optimChi.o rSr.o rSstarr.o rVr.o rhostarpw.o rockeChi.o tukeyChi.o wrapper.o xSstarx.o xSstary.o -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp3Rcwx4/R.INSTALLee4f533a6c8b8/robustvarComp/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-robustvarComp/00new/robustvarComp/libs ** R ** 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 (robustvarComp) checking lemon_0.5.2.tar.gz ... checking deident_1.0.0.tar.gz ... checking exploratory_0.3.31.tar.gz ... checking MIC_1.1.0.tar.gz ... checking MultiGroupO_0.4.0.tar.gz ... checking icpack_0.1.0.tar.gz ... checking robustlmm_3.3-3.tar.gz ... checking wcde_0.0.7.tar.gz ... Depends: Package: lemon Depends: R (>= 3.1.0) Imports: ggplot2 (>= 3.4.2), plyr, grid, gridExtra, gtable, knitr (>= 1.12), lattice, scales Timings: user system elapsed lemon 106.494 6.889 115.928 Results: Check status summary: NOTE OK Source packages 0 1 Reverse depends 1 6 Check results summary: lemon ... OK rdepends_deident ... NOTE * checking DESCRIPTION meta-information ... NOTE rdepends_exploratory ... OK rdepends_icpack ... OK rdepends_MIC ... OK rdepends_MultiGroupO ... OK rdepends_robustlmm ... OK rdepends_wcde ... OK