downloading reverse dependencies ... downloading AurieLSHGaussian_0.2.0.tar.gz ... ok downloading biclust_2.0.3.1.tar.gz ... ok downloading bootcluster_0.4.1.tar.gz ... ok downloading clusTransition_1.0.tar.gz ... ok downloading dtwclust_6.0.0.tar.gz ... ok downloading mcen_1.2.1.tar.gz ... ok downloading miclust_1.2.8.tar.gz ... ok downloading ockc_1.1.tar.gz ... ok downloading RSKC_2.4.2.tar.gz ... ok downloading S4DM_0.0.1.tar.gz ... ok downloading semiArtificial_2.4.1.tar.gz ... ok downloading spconf_1.0.1.tar.gz ... ok downloading tidyclust_0.2.4.tar.gz ... ok downloading Xplortext_1.5.5.tar.gz ... ok downloading FCPS_1.3.4.tar.gz ... ok downloading fdm2id_0.9.9.tar.gz ... ok downloading FeatureImpCluster_0.1.5.tar.gz ... ok downloading MVA_1.0-9.tar.gz ... ok downloading OTclust_1.0.6.tar.gz ... ok downloading wrMisc_1.15.2.tar.gz ... ok installing dependencies ‘ABCanalysis’, ‘ADPclust’, ‘arulesViz’, ‘BIEN’, ‘cclust’, ‘CEC’, ‘clusterability’, ‘ClustImpute’, ‘clustrd’, ‘clustvarsel’, ‘DatabionicSwarm’, ‘densityClust’, ‘densratio’, ‘EMCluster’, ‘flexclust’, ‘GeneralizedUmatrix’, ‘genie’, ‘geodata’, ‘HDclassif’, ‘HDclust’, ‘HSAUR2’, ‘ibr’, ‘isa2’, ‘leiden’, ‘maxnet’, ‘MCL’, ‘meanShiftR’, ‘mixdist’, ‘mlpack’, ‘mstknnclust’, ‘NetworkToolbox’, ‘orclus’, ‘partitionComparison’, ‘PPCI’, ‘prclust’, ‘ProjectionBasedClustering’, ‘protoclust’, ‘RcppHungarian’, ‘som’, ‘sparcl’, ‘Spectrum’, ‘subspace’, ‘tclust’, ‘tsne’, ‘VarSelLCM’, ‘vsn’, ‘wrGraph’ also installing the dependencies ‘ggvis’, ‘genieclust’, ‘IsingFit’, ‘wrMisc’ begin installing package ‘ggvis’ begin installing package ‘genieclust’ begin installing package ‘IsingFit’ begin installing package ‘wrMisc’ begin installing package ‘isa2’ begin installing package ‘densratio’ begin installing package ‘maxnet’ begin installing package ‘geodata’ begin installing package ‘BIEN’ begin installing package ‘RcppHungarian’ begin installing package ‘mlpack’ begin installing package ‘cclust’ begin installing package ‘MCL’ begin installing package ‘ADPclust’ begin installing package ‘orclus’ begin installing package ‘ABCanalysis’ begin installing package ‘EMCluster’ begin installing package ‘GeneralizedUmatrix’ begin installing package ‘mstknnclust’ begin installing package ‘densityClust’ begin installing package ‘tclust’ begin installing package ‘Spectrum’ begin installing package ‘protoclust’ begin installing package ‘clusterability’ begin installing package ‘PPCI’ begin installing package ‘clustrd’ begin installing package ‘prclust’ begin installing package ‘CEC’ * installing *source* package ‘orclus’ ... ** this is package ‘orclus’ version ‘0.2-6’ ** package ‘orclus’ 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 (orclus) begin installing package ‘VarSelLCM’ * installing *source* package ‘maxnet’ ... ** this is package ‘maxnet’ version ‘0.1.4’ ** package ‘maxnet’ 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 (maxnet) begin installing package ‘sparcl’ * installing *source* package ‘densratio’ ... ** this is package ‘densratio’ version ‘0.2.1’ ** package ‘densratio’ 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 (densratio) begin installing package ‘HDclassif’ * installing *source* package ‘clusterability’ ... ** this is package ‘clusterability’ version ‘0.1.1.0’ ** package ‘clusterability’ 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 (clusterability) begin installing package ‘clustvarsel’ * installing *source* package ‘mstknnclust’ ... ** this is package ‘mstknnclust’ version ‘0.3.2’ ** package ‘mstknnclust’ 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 (mstknnclust) begin installing package ‘leiden’ * 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 14.2.0-16) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpLnGhV3/R.INSTALL18aff760228343/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/RtmpLnGhV3/R.INSTALL18aff760228343/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) begin installing package ‘partitionComparison’ * installing *source* package ‘ABCanalysis’ ... ** this is package ‘ABCanalysis’ version ‘1.2.1’ ** package ‘ABCanalysis’ 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 (ABCanalysis) begin installing package ‘arulesViz’ * installing *source* package ‘cclust’ ... ** this is package ‘cclust’ version ‘0.6-26’ ** package ‘cclust’ successfully unpacked and MD5 sums checked ** 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/Rtmp8hCQTG/R.INSTALL18afda2eb8709d/cclust/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 cclust.c -o cclust.o 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 count.c -o count.o 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 init.c -o init.o 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 median.c -o median.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o cclust.so cclust.o count.o init.o median.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp8hCQTG/R.INSTALL18afda2eb8709d/cclust/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-cclust/00new/cclust/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 (cclust) begin installing package ‘ibr’ * installing *source* package ‘ADPclust’ ... ** this is package ‘ADPclust’ version ‘0.7’ ** package ‘ADPclust’ 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 (ADPclust) begin installing package ‘meanShiftR’ * installing *source* package ‘isa2’ ... ** this is package ‘isa2’ version ‘0.3.6’ ** package ‘isa2’ successfully unpacked and MD5 sums checked ** 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/RtmpoWtd8z/R.INSTALL18afa863de716f/isa2/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 isa.c -o isa.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o isa2.so isa.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpoWtd8z/R.INSTALL18afa863de716f/isa2/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-isa2/00new/isa2/libs ** R ** byte-compile and prepare package for lazy loading Creating a new generic function for ‘isa’ in package ‘isa2’ ** 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 (isa2) begin installing package ‘ClustImpute’ * installing *source* package ‘sparcl’ ... ** this is package ‘sparcl’ version ‘1.0.4’ ** package ‘sparcl’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using Fortran compiler: ‘GNU Fortran (Debian 14.2.0-16) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpS76l5H/R.INSTALL18b25c766e4b47/sparcl/src' gfortran-14 -fpic -g -O2 -Wall -pedantic -mtune=native -c distfun.f -o distfun.o distfun.f:13:5: 13 | 23005 continue | 1 Warning: Label 23005 at (1) defined but not used [-Wunused-label] distfun.f:15:5: 15 | 23003 continue | 1 Warning: Label 23003 at (1) defined but not used [-Wunused-label] distfun.f:17:5: 17 | 23001 continue | 1 Warning: Label 23001 at (1) defined but not used [-Wunused-label] gfortran-14 -fpic -g -O2 -Wall -pedantic -mtune=native -c multfun.f -o multfun.o multfun.f:13:5: 13 | 23005 continue | 1 Warning: Label 23005 at (1) defined but not used [-Wunused-label] multfun.f:15:5: 15 | 23003 continue | 1 Warning: Label 23003 at (1) defined but not used [-Wunused-label] multfun.f:17:5: 17 | 23001 continue | 1 Warning: Label 23001 at (1) defined but not used [-Wunused-label] gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o sparcl.so distfun.o multfun.o -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpS76l5H/R.INSTALL18b25c766e4b47/sparcl/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-sparcl/00new/sparcl/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 (sparcl) begin installing package ‘HSAUR2’ * installing *source* package ‘MCL’ ... ** this is package ‘MCL’ version ‘1.0’ ** package ‘MCL’ 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 (MCL) begin installing package ‘tsne’ * installing *source* package ‘meanShiftR’ ... ** this is package ‘meanShiftR’ version ‘0.56’ ** package ‘meanShiftR’ successfully unpacked and MD5 sums checked ** 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/RtmpoPyq6g/R.INSTALL18b3941cccc57b/meanShiftR/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c kdtree.c -o kdtree.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c meanShift.c -o meanShift.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c median.c -o median.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o meanShiftR.so init.o kdtree.o meanShift.o median.o -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpoPyq6g/R.INSTALL18b3941cccc57b/meanShiftR/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-meanShiftR/00new/meanShiftR/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 (meanShiftR) begin installing package ‘HDclust’ * installing *source* package ‘ClustImpute’ ... ** this is package ‘ClustImpute’ version ‘0.2.4’ ** package ‘ClustImpute’ 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 (ClustImpute) begin installing package ‘mixdist’ * installing *source* package ‘Spectrum’ ... ** this is package ‘Spectrum’ version ‘1.1’ ** package ‘Spectrum’ 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 (Spectrum) begin installing package ‘som’ * installing *source* package ‘tsne’ ... ** this is package ‘tsne’ version ‘0.1-3.1’ ** package ‘tsne’ 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 (tsne) begin installing package ‘vsn’ * installing *source* package ‘partitionComparison’ ... ** this is package ‘partitionComparison’ version ‘0.2.6’ ** package ‘partitionComparison’ 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 (partitionComparison) begin installing package ‘flexclust’ * installing *source* package ‘HSAUR2’ ... ** this is package ‘HSAUR2’ version ‘1.1-20’ ** package ‘HSAUR2’ 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 (HSAUR2) * installing *source* package ‘mixdist’ ... ** this is package ‘mixdist’ version ‘0.5-5’ ** package ‘mixdist’ 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 (mixdist) * installing *source* package ‘ggvis’ ... ** this is package ‘ggvis’ version ‘0.4.9’ ** package ‘ggvis’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** demo ** 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 (ggvis) begin installing package ‘subspace’ * installing *source* package ‘PPCI’ ... ** this is package ‘PPCI’ version ‘0.1.5’ ** package ‘PPCI’ 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 (PPCI) * installing *source* package ‘som’ ... ** this is package ‘som’ version ‘0.3-5.2’ ** package ‘som’ successfully unpacked and MD5 sums checked ** 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/Rtmp2SCJmb/R.INSTALL18b69f15957be5/som/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I. -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c som.cc -o som.o In file included from tntsupp.h:8, from sub.h:1, from SomParam.h:2, from som.cc:4: tnt/fmat.h: In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘*this.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix::~Fortran_Matrix() [with T = double]’ at tnt/fmat.h:211:16, inlined from ‘double rect_dist(TNT::Region2D >, TNT::Region2D >)’ at SomParam.h:11:19: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix::~Fortran_Matrix() [with T = double]’ at tnt/fmat.h:211:16, inlined from ‘TNT::Subscript find_winner(TNT::DMatrix&, TNT::Subscript, TNT::DMatrix&)’ at som.cc:12:40: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix::~Fortran_Matrix() [with T = double]’ at tnt/fmat.h:211:16, inlined from ‘TNT::Subscript find_winner(TNT::DMatrix&, TNT::Subscript, TNT::DMatrix&)’ at som.cc:16:36: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix::~Fortran_Matrix() [with T = double]’ at tnt/fmat.h:211:16, inlined from ‘void visual(TNT::DMatrix&, TNT::DMatrix&, TNT::DMatrix&, TNT::DMatrix&)’ at som.cc:57:36: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix::~Fortran_Matrix() [with T = double]’ at tnt/fmat.h:211:16, inlined from ‘int update(TNT::DMatrix&, TNT::DMatrix&, TNT::Subscript, double, TNT::DVector&)’ at som.cc:32:24: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix& TNT::Fortran_Matrix::operator=(const TNT::Fortran_Matrix&) [with T = double]’ at tnt/fmat.h:227:20, inlined from ‘TNT::Fortran_Matrix& TNT::Fortran_Matrix::operator=(const TNT::Fortran_Matrix&) [with T = double]’ at tnt/fmat.h:217:24, inlined from ‘int update(TNT::DMatrix&, TNT::DMatrix&, TNT::Subscript, double, TNT::DVector&)’ at som.cc:34:17: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘*code.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix::~Fortran_Matrix() [with T = double]’ at tnt/fmat.h:211:16, inlined from ‘double qerror(TNT::DMatrix&, TNT::DMatrix&, TNT::DMatrix&, TNT::DMatrix&, SomParam&)’ at som.cc:76:38: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix::~Fortran_Matrix() [with T = double]’ at tnt/fmat.h:211:16, inlined from ‘void som_top(TNT::DMatrix&, TNT::DMatrix&, TNT::DMatrix&, SomParam&, SomParam&, double*)’ at som.cc:108:1: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘cord.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix::~Fortran_Matrix() [with T = double]’ at tnt/fmat.h:211:16, inlined from ‘SEXPREC* som_bat(SEXP, SEXP, SEXP, SEXP)’ at som.cc:225:3: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘Vis.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix::~Fortran_Matrix() [with T = double]’ at tnt/fmat.h:211:16, inlined from ‘SEXPREC* som_bat(SEXP, SEXP, SEXP, SEXP)’ at som.cc:225:3: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘Code.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix::~Fortran_Matrix() [with T = double]’ at tnt/fmat.h:211:16, inlined from ‘SEXPREC* som_bat(SEXP, SEXP, SEXP, SEXP)’ at som.cc:225:3: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘Data.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix::~Fortran_Matrix() [with T = double]’ at tnt/fmat.h:211:16, inlined from ‘SEXPREC* som(SEXP, SEXP, SEXP)’ at som.cc:198:3: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘Vis.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix::~Fortran_Matrix() [with T = double]’ at tnt/fmat.h:211:16, inlined from ‘SEXPREC* som(SEXP, SEXP, SEXP)’ at som.cc:198:3: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘Cord.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix::~Fortran_Matrix() [with T = double]’ at tnt/fmat.h:211:16, inlined from ‘SEXPREC* som(SEXP, SEXP, SEXP)’ at som.cc:198:3: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘Code.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ In member function ‘void TNT::Fortran_Matrix::destroy() [with T = double]’, inlined from ‘TNT::Fortran_Matrix::~Fortran_Matrix() [with T = double]’ at tnt/fmat.h:211:16, inlined from ‘SEXPREC* som(SEXP, SEXP, SEXP)’ at som.cc:198:3: tnt/fmat.h:161:9: warning: ‘void operator delete [](void*)’ called on pointer ‘Data.TNT::Fortran_Matrix::col_’ with nonzero offset 8 [-Wfree-nonheap-object] 161 | delete [] (col_); | ^~~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o som.so som.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp2SCJmb/R.INSTALL18b69f15957be5/som/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-som/00new/som/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 (som) * installing *source* package ‘RcppHungarian’ ... ** this is package ‘RcppHungarian’ version ‘0.3’ ** package ‘RcppHungarian’ successfully unpacked and MD5 sums checked ** 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/RtmpqyyD4Q/R.INSTALL18afd4d9de888/RcppHungarian/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../inst/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 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o In file included from RcppExports.cpp:4: ../inst/include/RcppHungarian.h: In member function ‘void HungarianAlgorithm::assignmentoptimal(int*, double*, double*, int, int)’: ../inst/include/RcppHungarian.h:169:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 169 | if (fabs(distMatrix[row + nOfRows*col]) < DBL_EPSILON) | ^~ ../inst/include/RcppHungarian.h:177:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 177 | for (row = 0; row& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o GeneralizedUmatrix.so Delta3DWeightsC.o RcppExports.o addRowWiseC.o trainstepC.o trainstepC2.o -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/RtmpBQfVVE/R.INSTALL18afed4cc59bcc/GeneralizedUmatrix/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-GeneralizedUmatrix/00new/GeneralizedUmatrix/libs ** 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 ** 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 (GeneralizedUmatrix) begin installing package ‘DatabionicSwarm’ begin installing package ‘ProjectionBasedClustering’ * installing *source* package ‘HDclust’ ... ** this is package ‘HDclust’ version ‘1.0.4’ ** package ‘HDclust’ successfully unpacked and MD5 sums checked ** using staged installation checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether g++-14 -std=gnu++17 accepts -g... yes checking how to run the C++ preprocessor... g++-14 -std=gnu++17 -E checking for g++-14 -std=gnu++17 option to support OpenMP... -fopenmp configure: creating ./config.status config.status: creating src/Makevars ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-16) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpOS3aSM/R.INSTALL18b519169d1f00/HDclust/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/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -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/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c cluster.cpp -o cluster.o cluster.cpp: In function ‘void centroid(double*, int, int, double*, int*, int)’: cluster.cpp:68:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 68 | if (numcdwd < 0 || numcdwd > SIZE_MAX) { | ^ cluster.cpp: In function ‘void encode(double*, int, int, double*, int*, int)’: cluster.cpp:166:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 166 | if (numcdwd < 0 || numcdwd > SIZE_MAX) { | ^ cluster.cpp: In function ‘double lloyd(double*, int, int, double*, int, double)’: cluster.cpp:222:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 222 | if (numdata<0 || numdata>SIZE_MAX || numcdwd*dim<0 || numcdwd*dim > SIZE_MAX){ | ^ cluster.cpp:222:69: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 222 | if (numdata<0 || numdata>SIZE_MAX || numcdwd*dim<0 || numcdwd*dim > SIZE_MAX){ | ^ 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/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c estimate.cpp -o estimate.o estimate.cpp: In function ‘void initialize(double*, int, int, HmmModel*, int)’: estimate.cpp:447:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 447 | if (nseq<0||nseq>SIZE_MAX) { | ^ estimate.cpp:451:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 451 | if (numst*dim <0|| numst*dim >SIZE_MAX) { | ^ estimate.cpp: In function ‘void initialize2(double*, int, int, HmmModel*, double*)’: estimate.cpp:623:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 623 | if (nseq<0||nseq>SIZE_MAX) { | ^ estimate.cpp: In function ‘void initial_ccm(double**, int, CondChain*)’: estimate.cpp:775:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 775 | if (nseq*m <0||nseq*m > SIZE_MAX) { | ^ estimate.cpp: In function ‘void initial_ccm1(double**, int, CondChain*, int)’: estimate.cpp:809:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 809 | if (nseq2*m<0||nseq2*m>SIZE_MAX || nseq<0 || nseq>SIZE_MAX) { | ^ estimate.cpp:809:52: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 809 | if (nseq2*m<0||nseq2*m>SIZE_MAX || nseq<0 || nseq>SIZE_MAX) { | ^ estimate.cpp: In function ‘void initial_ccm2(double**, int, CondChain*, int)’: estimate.cpp:858:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 858 | if (nseq*m<0||nseq*m>SIZE_MAX || n*m<0 || n*m>SIZE_MAX || nseq<0 || nseq>SIZE_MAX) { | ^ estimate.cpp:858:48: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 858 | if (nseq*m<0||nseq*m>SIZE_MAX || n*m<0 || n*m>SIZE_MAX || nseq<0 || nseq>SIZE_MAX) { | ^ estimate.cpp:858:75: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 858 | if (nseq*m<0||nseq*m>SIZE_MAX || n*m<0 || n*m>SIZE_MAX || nseq<0 || nseq>SIZE_MAX) { | ^ estimate.cpp: In function ‘double comploglike(CondChain*, double**, int, double*, double*)’: estimate.cpp:915:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 915 | if (m<0|| m>SIZE_MAX) { | ^ estimate.cpp: In function ‘double classlikehd(CondChain*, double**, int, double***, double*)’: estimate.cpp:953:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 953 | if (m<0||m>SIZE_MAX ) { | ^ estimate.cpp: In function ‘int baumwelch(double**, int, CondChain*, double*, double*, double, double*)’: estimate.cpp:1089:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 1089 | if (m<0|| m>SIZE_MAX ) { | ^ estimate.cpp: In function ‘void ordervar2(double**, double***, int, int, int*, int**)’: estimate.cpp:1401:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 1401 | if (nseq<0 || nseq>SIZE_MAX) { | ^ estimate.cpp: In function ‘void hmmfit(double**, int, int, int*, int**, int*, CondChain*, double*, double*, double, double*)’: estimate.cpp:1439:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 1439 | if (nseq<0 || nseq>SIZE_MAX) { | ^ estimate.cpp: In function ‘void hmmfit_minit(double**, int, int, int*, int**, int*, CondChain**, double*, double*, double, double*, int, int, int, int)’: estimate.cpp:1483:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 1483 | if (nseq*ninit<0||nseq*ninit>SIZE_MAX || nseq<0 || nseq>SIZE_MAX || ninit<0 || ninit>SIZE_MAX ) { | ^ estimate.cpp:1483:58: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 1483 | if (nseq*ninit<0||nseq*ninit>SIZE_MAX || nseq<0 || nseq>SIZE_MAX || ninit<0 || ninit>SIZE_MAX ) { | ^ estimate.cpp:1483:87: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 1483 | if (nseq*ninit<0||nseq*ninit>SIZE_MAX || nseq<0 || nseq>SIZE_MAX || ninit<0 || ninit>SIZE_MAX ) { | ^ estimate.cpp:1496:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 1496 | if (nseq<0||nseq>SIZE_MAX) { | ^ estimate.cpp: In function ‘void hmmfit_minit2(double**, int, int, int*, int**, int*, CondChain**, double*, double*, double, double*, int, int, int, int)’: estimate.cpp:1562:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 1562 | if (nseq*ninit<0||nseq*ninit>SIZE_MAX || nseq<0 || nseq>SIZE_MAX || ninit<0 || ninit>SIZE_MAX ) { | ^ estimate.cpp:1562:58: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 1562 | if (nseq*ninit<0||nseq*ninit>SIZE_MAX || nseq<0 || nseq>SIZE_MAX || ninit<0 || ninit>SIZE_MAX ) { | ^ estimate.cpp:1562:87: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 1562 | if (nseq*ninit<0||nseq*ninit>SIZE_MAX || nseq<0 || nseq>SIZE_MAX || ninit<0 || ninit>SIZE_MAX ) { | ^ estimate.cpp:1575:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 1575 | if (nseq<0||nseq>SIZE_MAX) { | ^ estimate.cpp: In function ‘void findbuddy(int*, int*, int*, int, int**, double*, int**, int, int, int)’: estimate.cpp:1758:25: warning: ‘v3’ may be used uninitialized [-Wmaybe-uninitialized] 1758 | if (skipped[i]==0 && lhsum[i]>v3) { | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ estimate.cpp:1747:10: note: ‘v3’ was declared here 1747 | double v3; | ^~ estimate.cpp: In function ‘void hmmfit_vb(double**, int, int, int*, int**, int***, int, int, int**, CondChain**, double*, double*, double, double*, int, int, int, int, int*, int, int, int)’: estimate.cpp:1986:17: warning: ‘v0’ may be used uninitialized [-Wmaybe-uninitialized] 1986 | lhsum1[k1]=v0; //no change occurred, record the best BIC | ~~~~~~~~~~^~~ estimate.cpp:1856:27: note: ‘v0’ was declared here 1856 | double *lhsum, *lhsum1, v0,v1; | ^~ 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/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c matrix.cpp -o matrix.o matrix.cpp: In function ‘unsigned char ludcmp_float(float**, int, int*, float*)’: matrix.cpp:946:5: warning: ‘imax’ may be used uninitialized [-Wmaybe-uninitialized] 946 | if (j!=imax) { | ^~ matrix.cpp:906:9: note: ‘imax’ was declared here 906 | int i,imax,j,k; | ^~~~ matrix.cpp: In function ‘unsigned char ludcmp_double(double**, int, int*, double*)’: matrix.cpp:1011:5: warning: ‘imax’ may be used uninitialized [-Wmaybe-uninitialized] 1011 | if (j!=imax) { | ^~ matrix.cpp:971:9: note: ‘imax’ was declared here 971 | int i,imax,j,k; | ^~~~ 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/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c modal.cpp -o modal.o modal.cpp: In function ‘void FindDifSeq(int**, int, int, int***, int*, int*)’: modal.cpp:871:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 871 | if (nseq<0||nseq>SIZE_MAX) { | ^ 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/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c prob.cpp -o prob.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/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c rcpp_findModes.cpp -o rcpp_findModes.o rcpp_findModes.cpp: In function ‘Rcpp::S4 rcpp_findModes(Rcpp::NumericMatrix, Rcpp::S4, Rcpp::IntegerVector)’: rcpp_findModes.cpp:60:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 60 | if (nseq<0||nseq>SIZE_MAX) { | ^ rcpp_findModes.cpp:132:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 132 | if (nseq<0 || nseq>SIZE_MAX){ | ^ rcpp_findModes.cpp:136:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 136 | if (nseq<0||nseq>SIZE_MAX|| md->nb < 0 || md->nb > SIZE_MAX) { | ^ rcpp_findModes.cpp:136:52: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 136 | if (nseq<0||nseq>SIZE_MAX|| md->nb < 0 || md->nb > SIZE_MAX) { | ^ rcpp_findModes.cpp:158:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 158 | if (md->maxnumst<0||md->maxnumst>SIZE_MAX) { | ^ rcpp_findModes.cpp:178:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 178 | if (nseq<0 || nseq>SIZE_MAX){ | ^ rcpp_findModes.cpp:186:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 186 | if (newnseq<0 || newnseq>SIZE_MAX){ | ^ rcpp_findModes.cpp:209:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 209 | if (dim<0 || dim>SIZE_MAX){ | ^ 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/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c rcpp_testsync.cpp -o rcpp_testsync.o rcpp_testsync.cpp: In function ‘void parseRefClust(const Rcpp::List&, double***, double**, int*, int*, int***, int**)’: rcpp_testsync.cpp:84:45: warning: comparison of integer expressions of different signedness: ‘R_xlen_t’ {aka ‘long int’} and ‘long unsigned int’ [-Wsign-compare] 84 | if (rvseqid.size()<0||rvseqid.size()>SIZE_MAX) { | ^ rcpp_testsync.cpp:91:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 91 | if (rmode.nrow()<0||rmode.nrow()>SIZE_MAX) { | ^ rcpp_testsync.cpp:96:43: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 96 | if (rmode.ncol()<0||rmode.ncol()>SIZE_MAX) { | ^ rcpp_testsync.cpp:105:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 105 | if (*rnseq<0||*rnseq>SIZE_MAX) { | ^ rcpp_testsync.cpp:115:43: warning: comparison of integer expressions of different signedness: ‘R_xlen_t’ {aka ‘long int’} and ‘long unsigned int’ [-Wsign-compare] 115 | if (rsigma.size()<0||rsigma.size()>SIZE_MAX) { | ^ rcpp_testsync.cpp: In function ‘Rcpp::List augmentrefcls(int, int, double**, double*, int**, int*, int, int, int, int*, int*, double**, int, int**, int*, int*, int, int*, double***)’: rcpp_testsync.cpp:239:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 239 | if (numcls<0|| numcls>SIZE_MAX || dim<0|| dim>SIZE_MAX ) { | ^ rcpp_testsync.cpp:239:48: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 239 | if (numcls<0|| numcls>SIZE_MAX || dim<0|| dim>SIZE_MAX ) { | ^ rcpp_testsync.cpp:303:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 303 | if (rnseq2<0||rnseq2>SIZE_MAX) { | ^ rcpp_testsync.cpp:317:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 317 | if (numcls+rncls<0||numcls+rncls>SIZE_MAX) { | ^ rcpp_testsync.cpp:330:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 330 | if (rnseq2<0||rnseq2>SIZE_MAX) { | ^ rcpp_testsync.cpp: In function ‘int AdjustCluster(int*, int, int, double**, double**, int, int)’: rcpp_testsync.cpp:374:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 374 | if (rncls<0||rncls>SIZE_MAX) { | ^ rcpp_testsync.cpp: In function ‘Rcpp::S4 rcpp_clust(Rcpp::NumericMatrix, Rcpp::S4, Rcpp::Nullable >, Rcpp::List, Rcpp::IntegerVector)’: rcpp_testsync.cpp:438:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 438 | if (nseq<0||nseq>SIZE_MAX) { | ^ rcpp_testsync.cpp:552:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 552 | if (nseq<0||nseq>SIZE_MAX || md->nb<0 || md->nb>SIZE_MAX) { | ^ rcpp_testsync.cpp:552:50: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 552 | if (nseq<0||nseq>SIZE_MAX || md->nb<0 || md->nb>SIZE_MAX) { | ^ rcpp_testsync.cpp:559:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 559 | if (md->nb < 0||md->nb > SIZE_MAX) { | ^ rcpp_testsync.cpp:582:40: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 582 | if (md->maxnumst<0 || md->maxnumst >SIZE_MAX) { | ^ rcpp_testsync.cpp:585:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 585 | if (md->maxnumst <0||md->maxnumst >SIZE_MAX) { | ^ rcpp_testsync.cpp:626:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 626 | if (nseq<0||nseq>SIZE_MAX) { | ^ rcpp_testsync.cpp:667:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 667 | if (rncls<0||rncls > SIZE_MAX) { | ^ rcpp_testsync.cpp:708:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 708 | if (nseq<0||nseq>SIZE_MAX) { | ^ rcpp_testsync.cpp:714:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 714 | if (noref<0||noref > SIZE_MAX) { | ^ rcpp_testsync.cpp:732:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 732 | if (noref<0||noref > SIZE_MAX) { | ^ rcpp_testsync.cpp:754:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 754 | if (newnseq<0||newnseq > SIZE_MAX) { | ^ rcpp_testsync.cpp:766:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 766 | if (dim<0||dim > SIZE_MAX) { | ^ rcpp_testsync.cpp:786:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 786 | if (newnseq<0||newnseq > SIZE_MAX) { | ^ rcpp_testsync.cpp:835:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 835 | if (rncls<0||rncls > SIZE_MAX) { | ^ rcpp_testsync.cpp:877:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 877 | if (norefmode<0||norefmode > SIZE_MAX || newnseq <0||newnseq > SIZE_MAX) { | ^ rcpp_testsync.cpp:877:64: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 877 | if (norefmode<0||norefmode > SIZE_MAX || newnseq <0||newnseq > SIZE_MAX) { | ^ rcpp_testsync.cpp:948:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 948 | if (rncls+numcls<0||rncls+numcls>SIZE_MAX) { | ^ 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/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c rcpp_trainmaster.cpp -o rcpp_trainmaster.o rcpp_trainmaster.cpp: In function ‘Rcpp::S4 rcpp_trainHmmVb(Rcpp::NumericMatrix, const Rcpp::RObject&, const Rcpp::List&, const Rcpp::List&, Rcpp::IntegerVector, Rcpp::Function, Rcpp::Function, Rcpp::Function, bool)’: rcpp_trainmaster.cpp:31:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 31 | if (nseq<0 || nseq>SIZE_MAX){ | ^ rcpp_trainmaster.cpp:98:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 98 | if (nb<0||nb>SIZE_MAX) { | ^ rcpp_trainmaster.cpp:157:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 157 | if (nperm0<0|| nperm0 > SIZE_MAX) { | ^ rcpp_trainmaster.cpp:200:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 200 | if (nseq<0 || nseq>SIZE_MAX){ | ^ rcpp_trainmaster.cpp:225:14: warning: ‘maxDim’ may be used uninitialized [-Wmaybe-uninitialized] 225 | hmmfit_vb(u, nseq, dim, &nb, &bdim, &var, nperm, nperm0, vlist0, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 226 | &md, loglikehd, &lhsum, (double)epsilon, wt, ninit0, ninit1,ninit2, randomseed, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 227 | Numst0, maxDim, minDim, relaxsearch); //output lhsum is BIC not loglikelihood | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rcpp_trainmaster.cpp:61:7: note: ‘maxDim’ was declared here 61 | int maxDim; | ^~~~~~ rcpp_trainmaster.cpp:225:14: warning: ‘minDim’ may be used uninitialized [-Wmaybe-uninitialized] 225 | hmmfit_vb(u, nseq, dim, &nb, &bdim, &var, nperm, nperm0, vlist0, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 226 | &md, loglikehd, &lhsum, (double)epsilon, wt, ninit0, ninit1,ninit2, randomseed, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 227 | Numst0, maxDim, minDim, relaxsearch); //output lhsum is BIC not loglikelihood | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rcpp_trainmaster.cpp:62:7: note: ‘minDim’ was declared here 62 | int minDim; | ^~~~~~ rcpp_trainmaster.cpp:225:14: warning: ‘relaxsearch’ may be used uninitialized [-Wmaybe-uninitialized] 225 | hmmfit_vb(u, nseq, dim, &nb, &bdim, &var, nperm, nperm0, vlist0, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 226 | &md, loglikehd, &lhsum, (double)epsilon, wt, ninit0, ninit1,ninit2, randomseed, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 227 | Numst0, maxDim, minDim, relaxsearch); //output lhsum is BIC not loglikelihood | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rcpp_trainmaster.cpp:63:7: note: ‘relaxsearch’ was declared here 63 | int relaxsearch; | ^~~~~~~~~~~ rcpp_trainmaster.cpp:220:17: warning: ‘numst’ may be used uninitialized [-Wmaybe-uninitialized] 220 | hmmfit_minit(u, nseq, nb, bdim, var, numst, &md, loglikehd, &lhsum, (double)epsilon, wt, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 221 | ninit0, ninit1, ninit2, randomseed); //lhsum is loglikelihood | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rcpp_trainmaster.cpp:72:8: note: ‘numst’ was declared here 72 | int *numst; // number of states in blocks | ^~~~~ 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/RcppProgress/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c utils_rcpp.cpp -o utils_rcpp.o utils_rcpp.cpp: In function ‘void parseVbStructure(const Rcpp::S4&, CondChain*)’: utils_rcpp.cpp:43:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 43 | if (md->nb<0 || md->nb>SIZE_MAX) { | ^ utils_rcpp.cpp:70:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 70 | if (md->nb <0 || md->nb>SIZE_MAX) { | ^ utils_rcpp.cpp: In function ‘void parseHmmChain(const Rcpp::List&, CondChain*)’: utils_rcpp.cpp:97:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 97 | if (md->nb <0 || md->nb>SIZE_MAX) { | ^ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o HDclust.so RcppExports.o cluster.o estimate.o matrix.o modal.o prob.o rcpp_findModes.o rcpp_testsync.o rcpp_trainmaster.o utils_rcpp.o -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpOS3aSM/R.INSTALL18b519169d1f00/HDclust/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-HDclust/00new/HDclust/libs ** 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 ** 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 (HDclust) * installing *source* package ‘tclust’ ... ** this is package ‘tclust’ version ‘2.1-0’ ** package ‘tclust’ successfully unpacked and MD5 sums checked ** 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/RtmpjNwuWS/R.INSTALL18aff2fab3be3/tclust/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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -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/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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c rlg.cpp -o rlg.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c tclust.cpp -o tclust.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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c tkmeans.cpp -o tkmeans.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o tclust.so RcppExports.o rlg.o tclust.o tkmeans.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/RtmpjNwuWS/R.INSTALL18aff2fab3be3/tclust/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-tclust/00new/tclust/libs ** 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 ** 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 (tclust) * installing *source* package ‘genie’ ... ** this is package ‘genie’ version ‘1.0.5’ ** package ‘genie’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-16) 14.2.0’ using C++11 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpcmwjBZ/R.INSTALL18be7f7b3da86/genie/src' g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -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 -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -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 -c disjoint_sets.cpp -o disjoint_sets.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -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 -c hclust2_common.cpp -o hclust2_common.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -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 -c hclust2_distance.cpp -o hclust2_distance.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -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 -c hclust2_mstbased_gini.cpp -o hclust2_mstbased_gini.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -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 -c hclust2_nnbased_single.cpp -o hclust2_nnbased_single.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -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 -c hclust2_rcpp_gini.cpp -o hclust2_rcpp_gini.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -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 -c hclust2_result.cpp -o hclust2_result.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -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 -c hclust2_vptree_single.cpp -o hclust2_vptree_single.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/include" -DNDEBUG -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 -c init.cpp -o init.o g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o genie.so RcppExports.o disjoint_sets.o hclust2_common.o hclust2_distance.o hclust2_mstbased_gini.o hclust2_nnbased_single.o hclust2_rcpp_gini.o hclust2_result.o hclust2_vptree_single.o init.o -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpcmwjBZ/R.INSTALL18be7f7b3da86/genie/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-genie/00new/genie/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 (genie) * installing *source* package ‘ProjectionBasedClustering’ ... ** this is package ‘ProjectionBasedClustering’ version ‘1.2.2’ ** package ‘ProjectionBasedClustering’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-16) 14.2.0’ using C++17 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpCFguHW/R.INSTALL18bf0927336560/ProjectionBasedClustering/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/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c DijkstraSSSP.cpp -o DijkstraSSSP.o DijkstraSSSP.cpp: In function ‘Rcpp::NumericVector DijkstraSSSP(Rcpp::NumericMatrix, Rcpp::NumericMatrix, int)’: DijkstraSSSP.cpp:38:3: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 38 | for(int i=0;i::run(double*, int, int, double*, int, double, double, int, int, int, int, bool, int, double, double, double*, bool, double) [with treeT = SplitTree; double (* dist_fn)(const DataPoint&, const DataPoint&) = euclidean_distance]’, inlined from ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’ at tsne.cpp:653:23: tsne.cpp:186:17: warning: ‘error_rc_prev’ may be used uninitialized [-Wmaybe-uninitialized] 186 | if (error_rc < error_rc_prev && iter > auto_iter_buffer_ee) { | ^~ tsne.cpp: In function ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’: tsne.cpp:159:12: note: ‘error_rc_prev’ was declared here 159 | double error_rc_prev; // to store previous iteration's error rate of change in auto_iter mode | ^~~~~~~~~~~~~ In member function ‘double TSNE::computeGradient(int*, int*, double*, double*, int, int, double*, double, bool) [with treeT = SplitTree; double (* dist_fn)(const DataPoint&, const DataPoint&) = euclidean_distance]’, inlined from ‘void TSNE::run(double*, int, int, double*, int, double, double, int, int, int, int, bool, int, double, double, double*, bool, double) [with treeT = SplitTree; double (* dist_fn)(const DataPoint&, const DataPoint&) = euclidean_distance]’ at tsne.cpp:180:39, inlined from ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’ at tsne.cpp:653:23: tsne.cpp:271:13: warning: ‘need_eval_error_algo’ may be used uninitialized [-Wmaybe-uninitialized] 271 | #pragma omp parallel for reduction(+:P_i_sum,C) | ^~~ tsne.cpp: In function ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’: tsne.cpp:169:14: note: ‘need_eval_error_algo’ was declared here 169 | bool need_eval_error_algo, need_eval_error_verbose = false; | ^~~~~~~~~~~~~~~~~~~~ In member function ‘void TSNE::run(double*, int, int, double*, int, double, double, int, int, int, int, bool, int, double, double, double*, bool, double) [with treeT = SplitTree; double (* dist_fn)(const DataPoint&, const DataPoint&) = euclidean_distance_squared]’, inlined from ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’ at tsne.cpp:649:23: tsne.cpp:186:17: warning: ‘error_rc_prev’ may be used uninitialized [-Wmaybe-uninitialized] 186 | if (error_rc < error_rc_prev && iter > auto_iter_buffer_ee) { | ^~ tsne.cpp: In function ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’: tsne.cpp:159:12: note: ‘error_rc_prev’ was declared here 159 | double error_rc_prev; // to store previous iteration's error rate of change in auto_iter mode | ^~~~~~~~~~~~~ In member function ‘double TSNE::computeGradient(int*, int*, double*, double*, int, int, double*, double, bool) [with treeT = SplitTree; double (* dist_fn)(const DataPoint&, const DataPoint&) = euclidean_distance_squared]’, inlined from ‘void TSNE::run(double*, int, int, double*, int, double, double, int, int, int, int, bool, int, double, double, double*, bool, double) [with treeT = SplitTree; double (* dist_fn)(const DataPoint&, const DataPoint&) = euclidean_distance_squared]’ at tsne.cpp:180:39, inlined from ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’ at tsne.cpp:649:23: tsne.cpp:271:13: warning: ‘need_eval_error_algo’ may be used uninitialized [-Wmaybe-uninitialized] 271 | #pragma omp parallel for reduction(+:P_i_sum,C) | ^~~ tsne.cpp: In function ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’: tsne.cpp:169:14: note: ‘need_eval_error_algo’ was declared here 169 | bool need_eval_error_algo, need_eval_error_verbose = false; | ^~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o ProjectionBasedClustering.so DijkstraSSSP.o NeRV.o RcppExports.o c_measure.o calculatedistancematrix.o conjugategradientopt.o conttrust.o datamatrix.o dataset.o distancematrix.o dynamicdouble.o euclidean.o euclideansquared.o exception.o goldensectionsearch.o inputprobentropy.o klmeasure.o klrank.o nervcostfunction.o nervoptstrat.o nervprobability.o randomdatagenerator.o rankmatrix.o recorder.o splittree.o tsne.o -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpCFguHW/R.INSTALL18bf0927336560/ProjectionBasedClustering/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-ProjectionBasedClustering/00new/ProjectionBasedClustering/libs ** 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 ** 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 (ProjectionBasedClustering) * installing *source* package ‘DatabionicSwarm’ ... ** this is package ‘DatabionicSwarm’ version ‘2.0.0’ ** package ‘DatabionicSwarm’ successfully unpacked and MD5 sums checked ** 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/Rtmp0ZOCPO/R.INSTALL18bf07358039bc/DatabionicSwarm/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'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Delta3DWeightsC.cpp -o Delta3DWeightsC.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'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c DijkstraSSSP.cpp -o DijkstraSSSP.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'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c PswarmRadiusParallel.cpp -o PswarmRadiusParallel.o In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/tbb.h:32, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/RcppParallel/TBB.h:10, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/RcppParallel.h:24, from PswarmRadiusParallel.cpp:3: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ 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'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c PswarmRadiusSequential.cpp -o PswarmRadiusSequential.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'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/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++-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'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c findPossiblePositionsCsingle.cpp -o findPossiblePositionsCsingle.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'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c rDistanceToroidCsingle.cpp -o rDistanceToroidCsingle.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'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c rcppPar_DistanceToroid.cpp -o rcppPar_DistanceToroid.o In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/tbb.h:32, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/RcppParallel/TBB.h:10, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/RcppParallel.h:24, from rcppPar_DistanceToroid.cpp:2: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ 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'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c sampleC.cpp -o sampleC.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'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c trainstepC.cpp -o trainstepC.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'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c trainstepC2.cpp -o trainstepC2.o In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/tbb.h:32, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/RcppParallel/TBB.h:10, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/RcppParallel.h:24, from trainstepC2.cpp:2: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o DatabionicSwarm.so Delta3DWeightsC.o DijkstraSSSP.o PswarmRadiusParallel.o PswarmRadiusSequential.o RcppExports.o findPossiblePositionsCsingle.o rDistanceToroidCsingle.o rcppPar_DistanceToroid.o sampleC.o trainstepC.o trainstepC2.o -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/Rtmp0ZOCPO/R.INSTALL18bf07358039bc/DatabionicSwarm/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-DatabionicSwarm/00new/DatabionicSwarm/libs ** 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 ** 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 (DatabionicSwarm) * installing *source* package ‘VarSelLCM’ ... ** this is package ‘VarSelLCM’ version ‘2.1.3.1’ ** package ‘VarSelLCM’ successfully unpacked and MD5 sums checked ** 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/Rtmpx0j46o/R.INSTALL18b23f7e14d742/VarSelLCM/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../inst/include -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 -c Algorithm.cpp -o Algorithm.o Algorithm.cpp: In member function ‘void Algorithm::Run(Rcpp::S4*)’: Algorithm.cpp:29:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 29 | for (int ini=0; inim_whotakewhat[j][h].n_rows; i++) nkjh(m_zCandCurrent(data_p->m_whotakewhat[j][h](i)), h)+=data_p->m_w(data_p->m_whotakewhat[j][h](i)); | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ AlgorithmCategorical.cpp: In member function ‘double AlgorithmCategorical::IntegreOneVariableCategoricalDiscrim(const int&, const arma::colvec&)’: AlgorithmCategorical.cpp:37:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 37 | for (int i=0; im_whotakewhat[j][h].n_rows; i++) nkjh(z(data_p->m_whotakewhat[j][h](i)), h)+=data_p->m_w(data_p->m_whotakewhat[j][h](i)); | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../inst/include -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 -c AlgorithmContinuous.cpp -o AlgorithmContinuous.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I../inst/include -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 -c AlgorithmInteger.cpp -o AlgorithmInteger.o AlgorithmInteger.cpp: In member function ‘double AlgorithmInteger::IntegreOneVariable(const arma::vec&, const int&)’: AlgorithmInteger.cpp:24:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 24 | for (int i=0; i dlogPoisson(const arma::Col&, const arma::Col&, double)’: XEMInteger.cpp:6:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 6 | for (int i=0; i dlogPoissonbis(const arma::Col&, const arma::Col&, double)’: XEMMixed.cpp:11:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 11 | for (int i=0; i dlogPoissonter(const arma::Col&, const arma::Col&, double)’: XEMPen.cpp:11:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 11 | for (int i=0; i= 2.14.0) Imports: graphics, grid, lattice, methods, modeltools, parallel, stats, stats4, class Timings: user system elapsed flexclust 54.429 5.359 63.118 Results: Check status summary: NOTE OK Source packages 0 1 Reverse depends 3 17 Check results summary: flexclust ... OK rdepends_AurieLSHGaussian ... OK rdepends_biclust ... NOTE * checking Rd cross-references ... NOTE rdepends_bootcluster ... OK rdepends_clusTransition ... OK rdepends_dtwclust ... OK rdepends_FCPS ... OK rdepends_fdm2id ... OK rdepends_FeatureImpCluster ... OK rdepends_mcen ... OK rdepends_miclust ... OK rdepends_MVA ... OK rdepends_ockc ... NOTE * checking Rd cross-references ... NOTE rdepends_OTclust ... OK rdepends_RSKC ... OK rdepends_S4DM ... NOTE * checking DESCRIPTION meta-information ... NOTE rdepends_semiArtificial ... OK rdepends_spconf ... OK rdepends_tidyclust ... OK rdepends_wrMisc ... OK rdepends_Xplortext ... OK