installing dependencies ‘bc3net’, ‘GENIE3’, ‘minet’, ‘reactome.db’, ‘SeqNet’, ‘wCorr’ also installing the dependency ‘c3net’ begin installing package ‘c3net’ begin installing package ‘SeqNet’ begin installing package ‘wCorr’ begin installing package ‘minet’ begin installing package ‘GENIE3’ begin installing package ‘reactome.db’ * installing *source* package ‘c3net’ ... ** this is package ‘c3net’ version ‘1.1.1.1’ ** package ‘c3net’ 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 ** 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 (c3net) begin installing package ‘bc3net’ * installing *source* package ‘GENIE3’ ... ** this is package ‘GENIE3’ version ‘1.29.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-16) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp1NAiqs/R.INSTALL2ec419192f2f3d/GENIE3/src' gcc-14 -std=gnu23 -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 GENIE3.c -o GENIE3.o GENIE3.c: In function ‘find_the_best_threshold_multiregr’: GENIE3.c:1370:27: warning: ‘best_info’ may be used uninitialized [-Wmaybe-uninitialized] 1370 | current_threshold_info=best_info; | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ GENIE3.c:1328:31: note: ‘best_info’ was declared here 1328 | SCORE_TYPE best_score=-1.0, best_info, current_score, w; | ^~~~~~~~~ GENIE3.c:1368:24: warning: ‘best_threshold’ may be used uninitialized [-Wmaybe-uninitialized] 1368 | current_threshold.f=best_threshold; | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ GENIE3.c:1329:9: note: ‘best_threshold’ was declared here 1329 | float best_threshold; | ^~~~~~~~~~~~~~ GENIE3.c: In function ‘build_one_tree_ensemble’: GENIE3.c:1052:7: warning: ‘fp’ may be used uninitialized [-Wmaybe-uninitialized] 1052 | write_one_tree(current_tree, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ GENIE3.c:987:9: note: ‘fp’ was declared here 987 | FILE *fp; | ^~ GENIE3.c: In function ‘find_the_best_threshold_symb_multiregr’: GENIE3.c:1466:27: warning: ‘best_info’ may be used uninitialized [-Wmaybe-uninitialized] 1466 | current_threshold_info=best_info; | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ GENIE3.c:1412:31: note: ‘best_info’ was declared here 1412 | SCORE_TYPE best_score=-1.0, best_info, current_score; | ^~~~~~~~~ GENIE3.c: In function ‘compute_ltrees_variable_importance_multiregr_separate’: GENIE3.c:1753:6: warning: ‘flag_continue’ may be used uninitialized [-Wmaybe-uninitialized] 1753 | if (flag_continue == 1) { | ^ GENIE3.c:1725:7: note: ‘flag_continue’ was declared here 1725 | int flag_continue; | ^~~~~~~~~~~~~ gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o GENIE3.so GENIE3.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp1NAiqs/R.INSTALL2ec419192f2f3d/GENIE3/src' installing to /home/hornik/tmp/CRAN_special_noSuggests/Library/00LOCK-GENIE3/00new/GENIE3/libs ** R ** inst ** byte-compile and prepare package for lazy loading in method for ‘GENIE3’ with signature ‘"SummarizedExperiment"’: no definition for class “SummarizedExperiment” in method for ‘GENIE3’ with signature ‘"ExpressionSet"’: no definition for class “ExpressionSet” ** 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 (GENIE3) * installing *source* package ‘minet’ ... ** this is package ‘minet’ version ‘3.65.0’ ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-16) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpS8vHec/R.INSTALL2ec4153e123882/minet/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c aracne.cpp -o aracne.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c clr.cpp -o clr.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c minet.cpp -o minet.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c mrnet.cpp -o mrnet.o mrnet.cpp: In function ‘SEXPREC* mrnet(SEXP, SEXP)’: mrnet.cpp:190:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 190 | for( int l=0; l= 3.6) Imports: Rcpp (>= 1.0.1), corpcor, igraph, ggplot2, SeqNet, Rdpack, dplyr, tibble, stats, methods, curl, graphics, grDevices, gtools, utils, wCorr, parallel LinkingTo: Rcpp, RcppArmadillo Timings: user system elapsed dnapath 77.195 6.158 94.791 Results: Check status summary: NOTE Source packages 1 Check results summary: dnapath ... NOTE * checking CRAN incoming feasibility ... [4s/15s] NOTE