downloading reverse dependencies ... downloading PPtreeregViz_2.0.5.tar.gz ... ok downloading SEMdeep_0.1.0.tar.gz ... ok installing dependencies ‘cito’, ‘ggparty’, ‘NeuralNetTools’, ‘PPtreeViz’, ‘SEMgraph’, ‘shapr’, ‘waterfalls’ also installing the dependencies ‘cherry’, ‘someMTP’, ‘aspect’, ‘flip’, ‘protoclust’, ‘parabar’, ‘torchvision’ begin installing package ‘cherry’ begin installing package ‘aspect’ begin installing package ‘someMTP’ begin installing package ‘parabar’ begin installing package ‘protoclust’ begin installing package ‘torchvision’ begin installing package ‘shapr’ begin installing package ‘PPtreeViz’ begin installing package ‘ggparty’ begin installing package ‘waterfalls’ begin installing package ‘NeuralNetTools’ * installing *source* package ‘waterfalls’ ... ** this is package ‘waterfalls’ version ‘1.0.0’ ** package ‘waterfalls’ 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 (waterfalls) * installing *source* package ‘protoclust’ ... ** this is package ‘protoclust’ version ‘1.6.4’ ** package ‘protoclust’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-12) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpfJ96HM/R.INSTALL333a0b67b0b960/protoclust/src' gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c hier.c -o hier.o hier.c: In function ‘hier’: hier.c:194:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 194 | for(j = 0; j < imerge; j++) | ^~~ hier.c:204:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 204 | ii = lt(imerge+1,imerge,n); | ^~ hier.c: In function ‘minimaxpoint’: hier.c:442:10: warning: ‘mm’ may be used uninitialized [-Wmaybe-uninitialized] 442 | return mm; | ^~ hier.c:428:7: note: ‘mm’ was declared here 428 | int mm; | ^~ hier.c: In function ‘findNN’: hier.c:346:29: warning: ‘nn’ may be used uninitialized [-Wmaybe-uninitialized] 346 | mincomplete = completelink(dmax, n, clusters[nn], nn, clusters[i], i); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ hier.c:328:7: note: ‘nn’ was declared here 328 | int nn; | ^~ hier.c: In function ‘hier’: hier.c:274:26: warning: ‘imerge’ may be used uninitialized [-Wmaybe-uninitialized] 274 | Cluster *cur = clusters[imerge]; | ^ hier.c:28:20: note: ‘imerge’ was declared here 28 | int i, j, k, ii, imerge, jmerge, reverse; | ^~~~~~ gcc-14 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c protoclust_init.c -o protoclust_init.o gcc-14 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o protoclust.so hier.o protoclust_init.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpfJ96HM/R.INSTALL333a0b67b0b960/protoclust/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-protoclust/00new/protoclust/libs ** 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 ** 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 (protoclust) * installing *source* package ‘aspect’ ... ** this is package ‘aspect’ version ‘1.0-6’ ** package ‘aspect’ 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 (aspect) * installing *source* package ‘someMTP’ ... ** this is package ‘someMTP’ version ‘1.4.1.1’ ** package ‘someMTP’ 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 (someMTP) * installing *source* package ‘cherry’ ... ** this is package ‘cherry’ version ‘0.6-14’ ** package ‘cherry’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** 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 (cherry) begin installing package ‘flip’ * installing *source* package ‘NeuralNetTools’ ... ** this is package ‘NeuralNetTools’ version ‘1.5.3’ ** package ‘NeuralNetTools’ 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 (NeuralNetTools) * installing *source* package ‘torchvision’ ... ** this is package ‘torchvision’ version ‘0.6.0’ ** package ‘torchvision’ 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 (torchvision) * installing *source* package ‘ggparty’ ... ** this is package ‘ggparty’ version ‘1.0.0’ ** package ‘ggparty’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ggparty) * installing *source* package ‘parabar’ ... ** this is package ‘parabar’ version ‘1.4.2’ ** package ‘parabar’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (parabar) begin installing package ‘cito’ * installing *source* package ‘flip’ ... ** this is package ‘flip’ version ‘2.5.0’ ** package ‘flip’ successfully unpacked and MD5 sums checked ** using staged installation ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (flip) begin installing package ‘SEMgraph’ * installing *source* package ‘cito’ ... ** this is package ‘cito’ version ‘1.1’ ** package ‘cito’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (cito) * installing *source* package ‘SEMgraph’ ... ** this is package ‘SEMgraph’ version ‘1.2.2’ ** package ‘SEMgraph’ successfully unpacked and MD5 sums checked ** using staged installation ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (SEMgraph) * installing *source* package ‘PPtreeViz’ ... ** this is package ‘PPtreeViz’ version ‘2.0.4’ ** package ‘PPtreeViz’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-12) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpreufxE/R.INSTALL333a1216c77608/PPtreeViz/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/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 -DR_NO_REMAP -c PPoptimize.cpp -o PPoptimize.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/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 -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o PPtreeViz.so PPoptimize.o RcppExports.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpreufxE/R.INSTALL333a1216c77608/PPtreeViz/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-PPtreeViz/00new/PPtreeViz/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 (PPtreeViz) * installing *source* package ‘shapr’ ... ** this is package ‘shapr’ version ‘1.0.1’ ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-12) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpaHMTbr/R.INSTALL333a18473f0c80/shapr/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c AICc.cpp -o AICc.o AICc.cpp: In function ‘arma::mat hat_matrix_cpp(arma::mat, arma::mat, bool, double)’: AICc.cpp:52:28: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 52 | for(icol = 0; icol < nrows; icol++) | ~~~~~^~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c Copula.cpp -o Copula.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c Gaussian.cpp -o Gaussian.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c distance.cpp -o distance.o distance.cpp: In function ‘arma::cube mahalanobis_distance_cpp(Rcpp::List, arma::mat, arma::mat, arma::mat, bool)’: distance.cpp:78:32: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 78 | for(icol = 0; icol < ntrain; icol++) | ~~~~~^~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c features.cpp -o features.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c impute_data.cpp -o impute_data.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -DR_NO_REMAP -c weighted_matrix.cpp -o weighted_matrix.o weighted_matrix.cpp: In function ‘arma::mat weight_matrix_cpp(Rcpp::List, int, int, Rcpp::NumericVector)’: weighted_matrix.cpp:68:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 68 | for (int j = 0; j < Z.n_cols; j++) { | ~~^~~~~~~~~~ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o shapr.so AICc.o Copula.o Gaussian.o RcppExports.o distance.o features.o impute_data.o weighted_matrix.o -fopenmp -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpaHMTbr/R.INSTALL333a18473f0c80/shapr/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-shapr/00new/shapr/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (shapr) checking shapr_1.0.1.tar.gz ... checking PPtreeregViz_2.0.5.tar.gz ... checking SEMdeep_0.1.0.tar.gz ... Depends: Package: shapr Depends: R (>= 3.5.0) Imports: stats, data.table, Rcpp (>= 0.12.15), Matrix, future.apply, methods LinkingTo: RcppArmadillo, Rcpp Timings: user system elapsed shapr 390.957 9.185 384.53 Results: Check status summary: ERROR WARNING NOTE Source packages 0 0 1 Reverse depends 1 1 0 Check results summary: shapr ... NOTE * checking CRAN incoming feasibility ... [7s/9s] NOTE rdepends_PPtreeregViz ... ERROR * checking C++ specification ... NOTE * checking dependencies in R code ... WARNING * checking examples ... [4s/5s] ERROR * checking re-building of vignette outputs ... [16s/16s] ERROR rdepends_SEMdeep ... WARNING * checking dependencies in R code ... WARNING Check results changes: Package: PPtreeregViz Check: dependencies in R code New result: WARNING Package: PPtreeregViz Check: examples New result: ERROR Package: PPtreeregViz Check: re-building of vignette outputs New result: ERROR Package: SEMdeep Check: dependencies in R code New result: WARNING