downloading reverse dependencies ... downloading MoTBFs_1.4.2.tar.gz ... ok downloading pcalg_2.7-12.tar.gz ... ok downloading pcgen_0.2.0.tar.gz ... ok downloading phylopath_1.3.0.tar.gz ... ok downloading pwSEM_1.0.0.tar.gz ... ok downloading SEMgraph_1.2.3.tar.gz ... ok downloading stablespec_0.3.0.tar.gz ... ok downloading TGS_1.0.1.tar.gz ... ok installing dependencies ‘aspect’, ‘bnstruct’, ‘flip’, ‘ggm’, ‘minet’, ‘nsga2R’, ‘poolr’, ‘protoclust’ also installing the dependencies ‘cherry’, ‘someMTP’ begin installing package ‘cherry’ begin installing package ‘poolr’ begin installing package ‘someMTP’ begin installing package ‘aspect’ begin installing package ‘protoclust’ begin installing package ‘nsga2R’ begin installing package ‘bnstruct’ begin installing package ‘minet’ begin installing package ‘ggm’ * installing *source* package ‘nsga2R’ ... ** this is package ‘nsga2R’ version ‘1.1’ ** package ‘nsga2R’ 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 (nsga2R) * 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 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp7ZYxIm/R.INSTALL25f4ab28eff9c6/protoclust/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 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 -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 protoclust_init.c -o protoclust_init.o gcc-14 -std=gnu23 -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/Rtmp7ZYxIm/R.INSTALL25f4ab28eff9c6/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 ‘1.0-7’ ** 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 ‘poolr’ ... ** this is package ‘poolr’ version ‘1.2-0’ ** package ‘poolr’ 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 (poolr) * 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 ‘0.6-15’ ** 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 ‘minet’ ... ** this is package ‘minet’ version ‘3.66.0’ ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp2mut2f/R.INSTALL25f4a6712c8f38/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= 3.6.0), methods Imports: BiocManager, graph, igraph Timings: user system elapsed ggm 55.14 4.384 61.568 Results: Check status summary: NOTE OK Source packages 0 1 Reverse depends 1 7 Check results summary: ggm ... OK rdepends_MoTBFs ... OK rdepends_pcalg ... OK rdepends_pcgen ... OK rdepends_phylopath ... NOTE * checking Rd cross-references ... NOTE rdepends_pwSEM ... OK rdepends_SEMgraph ... OK rdepends_stablespec ... OK rdepends_TGS ... OK Check results changes: Package: pcgen Check: CRAN incoming feasibility Old result: NOTE