downloading reverse dependencies ‘AQEval’, ‘bioregion’, ‘ddiv’, ‘lactater’, ‘LadderFuelsR’, ‘mixtools’, ‘netSEM’, ‘PCRedux’, ‘PUPAK’, ‘PwePred’, ‘PWEXP’, ‘rcssci’, ‘ReliaGrowR’, ‘respirometry’, ‘respR’, ‘RHRV’, ‘seqinr’, ‘spatialwarnings’, ‘StructuralDecompose’, ‘SWTools’, ‘tidychangepoint’, ‘weibulltools’, ‘nlraa’, ‘REddyProc’ trying URL 'file:///data/Repositories/CRAN/src/contrib/AQEval_0.6.2.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/bioregion_1.2.0.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/ddiv_0.1.1.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/lactater_0.2.0.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/LadderFuelsR_0.0.7.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/mixtools_2.0.0.1.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/netSEM_0.6.2.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/PCRedux_1.2-1.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/PUPAK_0.1.1.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/PwePred_1.0.0.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/PWEXP_0.5.0.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/rcssci_0.4.0.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/ReliaGrowR_0.3.2.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/respirometry_2.0.2.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/respR_2.3.4.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/RHRV_5.0.0.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/seqinr_4.2-36.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/spatialwarnings_3.1.1.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/StructuralDecompose_0.1.1.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/SWTools_1.1.0.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/tidychangepoint_1.0.3.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/weibulltools_2.1.0.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/nlraa_1.9.10.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/REddyProc_1.3.4.tar.gz' installing dependencies ‘acss’, ‘acss.data’, ‘bigleaf’, ‘birk’, ‘changepointGA’, ‘chipPCR’, ‘datapasta’, ‘fastkmedoids’, ‘hydroTSM’, ‘loa’, ‘lognorm’, ‘lomb’, ‘marelac’, ‘MBmca’, ‘mlegp’, ‘NISTnls’, ‘prettymapr’, ‘qpcR’, ‘RDML’, ‘respirometry’, ‘roll’, ‘seacarb’, ‘segmented’, ‘shinyjs’, ‘solartime’, ‘wbs’ also installing the dependencies ‘OpenStreetMap’, ‘ptw’, ‘pipeR’, ‘SolveSAPHE’ begin installing package ‘OpenStreetMap’ begin installing package ‘ptw’ begin installing package ‘pipeR’ begin installing package ‘SolveSAPHE’ begin installing package ‘fastkmedoids’ begin installing package ‘datapasta’ begin installing package ‘qpcR’ begin installing package ‘birk’ begin installing package ‘lomb’ begin installing package ‘roll’ begin installing package ‘acss.data’ begin installing package ‘prettymapr’ begin installing package ‘hydroTSM’ begin installing package ‘changepointGA’ begin installing package ‘wbs’ begin installing package ‘NISTnls’ begin installing package ‘solartime’ begin installing package ‘mlegp’ begin installing package ‘lognorm’ begin installing package ‘segmented’ begin installing package ‘shinyjs’ * installing *source* package ‘birk’ ... ** this is package ‘birk’ version ‘2.1.2’ ** package ‘birk’ 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 (birk) * installing *source* package ‘NISTnls’ ... ** this is package ‘NISTnls’ version ‘0.9-13’ ** package ‘NISTnls’ successfully unpacked and MD5 sums checked ** using staged installation ** data *** moving datasets to lazyload DB ** inst ** 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 (NISTnls) * installing *source* package ‘pipeR’ ... ** this is package ‘pipeR’ version ‘0.6.1.3’ ** package ‘pipeR’ 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 (pipeR) begin installing package ‘RDML’ * installing *source* package ‘datapasta’ ... ** this is package ‘datapasta’ version ‘3.1.0’ ** package ‘datapasta’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (datapasta) * installing *source* package ‘shinyjs’ ... ** this is package ‘shinyjs’ version ‘2.1.1’ ** package ‘shinyjs’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (shinyjs) * installing *source* package ‘wbs’ ... ** this is package ‘wbs’ version ‘1.4.1’ ** package ‘wbs’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-12) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpxgAiFl/R.INSTALL62b6b601b836b/wbs/src' gcc-15 -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 wbs.c -o wbs.o gcc-15 -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 wbs_init.c -o wbs_init.o gcc-15 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o wbs.so wbs.o wbs_init.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpxgAiFl/R.INSTALL62b6b601b836b/wbs/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-wbs/00new/wbs/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 (wbs) * installing *source* package ‘prettymapr’ ... ** this is package ‘prettymapr’ version ‘0.2.5’ ** package ‘prettymapr’ 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 (prettymapr) * installing *source* package ‘solartime’ ... ** this is package ‘solartime’ version ‘0.0.4’ ** package ‘solartime’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (solartime) begin installing package ‘bigleaf’ * installing *source* package ‘SolveSAPHE’ ... ** this is package ‘SolveSAPHE’ version ‘2.1.0’ ** package ‘SolveSAPHE’ 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 (SolveSAPHE) begin installing package ‘seacarb’ * installing *source* package ‘ptw’ ... ** this is package ‘ptw’ version ‘1.9-16’ ** package ‘ptw’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-12) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpZBD2Dk/R.INSTALL62b3a73cb48a5/ptw/src' gcc-15 -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 approx.c -o approx.o gcc-15 -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 register.c -o register.o gcc-15 -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 smth.c -o smth.o gcc-15 -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 wcc.c -o wcc.o gcc-15 -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 wccStick.c -o wccStick.o gcc-15 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o ptw.so approx.o register.o smth.o wcc.o wccStick.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpZBD2Dk/R.INSTALL62b3a73cb48a5/ptw/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-ptw/00new/ptw/libs ** R ** data ** 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 ** 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 (ptw) begin installing package ‘chipPCR’ * installing *source* package ‘mlegp’ ... ** this is package ‘mlegp’ version ‘3.1.9’ ** package ‘mlegp’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-12) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp4yWKr2/R.INSTALL62b7a35ec551d/mlegp/src' gcc-15 -I"/home/hornik/tmp/R/include" -DNDEBUG -D__useR__ -DMEXP=607 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c SFMT.c -o SFMT.o gcc-15 -I"/home/hornik/tmp/R/include" -DNDEBUG -D__useR__ -DMEXP=607 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lbfgs.c -o lbfgs.o gcc-15 -I"/home/hornik/tmp/R/include" -DNDEBUG -D__useR__ -DMEXP=607 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mlegp.c -o mlegp.o In file included from mlegp.c:9: matrix_vector.h:360:13: warning: ‘printVector’ defined but not used [-Wunused-function] 360 | static void printVector(const char *fmt, const double *b, int m) | ^~~~~~~~~~~ matrix_vector.h:346:13: warning: ‘printPackedMatrix’ defined but not used [-Wunused-function] 346 | static void printPackedMatrix(const char *fmt, const double *a, int n) | ^~~~~~~~~~~~~~~~~ gcc-15 -I"/home/hornik/tmp/R/include" -DNDEBUG -D__useR__ -DMEXP=607 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mlegp_init.c -o mlegp_init.o gcc-15 -I"/home/hornik/tmp/R/include" -DNDEBUG -D__useR__ -DMEXP=607 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c nelder_mead_min.c -o nelder_mead_min.o gcc-15 -I"/home/hornik/tmp/R/include" -DNDEBUG -D__useR__ -DMEXP=607 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c print.c -o print.o gcc-15 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o mlegp.so SFMT.o lbfgs.o mlegp.o mlegp_init.o nelder_mead_min.o print.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/Rtmp4yWKr2/R.INSTALL62b7a35ec551d/mlegp/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-mlegp/00new/mlegp/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** 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 (mlegp) * installing *source* package ‘lognorm’ ... ** this is package ‘lognorm’ version ‘0.1.10’ ** package ‘lognorm’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (lognorm) * installing *source* package ‘bigleaf’ ... ** this is package ‘bigleaf’ version ‘0.8.2’ ** package ‘bigleaf’ 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 (bigleaf) * installing *source* package ‘lomb’ ... ** this is package ‘lomb’ version ‘2.5.0’ ** package ‘lomb’ 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 (lomb) * installing *source* package ‘hydroTSM’ ... ** this is package ‘hydroTSM’ version ‘0.7-0.1’ ** package ‘hydroTSM’ 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 (hydroTSM) * installing *source* package ‘qpcR’ ... ** this is package ‘qpcR’ version ‘1.4-2’ ** package ‘qpcR’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-12) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpuwggSJ/R.INSTALL62b656200f8e7/qpcR/src' gcc-15 -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 registerDynamicSymbol.c -o registerDynamicSymbol.o gcc-15 -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 smth.c -o smth.o 'LdFlags' has not been needed since 2013 (!!) and may get removed in 2027. Please update your 'Makevars'. 'RcppLdFlags' has not been needed since 2013 (!!) and may get removed in 2027. Please update your 'Makevars'. gcc-15 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o qpcR.so registerDynamicSymbol.o smth.o -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR 'LdFlags' has not been needed since 2013 (!!) and may get removed in 2027. Please update your 'Makevars'. 'RcppLdFlags' has not been needed since 2013 (!!) and may get removed in 2027. Please update your 'Makevars'. make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpuwggSJ/R.INSTALL62b656200f8e7/qpcR/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-qpcR/00new/qpcR/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 (qpcR) Warning: SystemRequirements specified C++11: support has been removed * installing *source* package ‘fastkmedoids’ ... ** this is package ‘fastkmedoids’ version ‘1.2’ ** package ‘fastkmedoids’ successfully unpacked and MD5 sums checked ** using staged installation ** libs specified C++11 using C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpGwSDSb/R.INSTALL62b5d7aa8f550/fastkmedoids/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pam.cpp -o pam.o In file included from pam.cpp:21: pam.h: In member function ‘int Xoroshiro128Random::nextInt(int)’: pam.h:57:55: warning: suggest parentheses around ‘-’ in operand of ‘&’ [-Wparentheses] 57 | int r = (int)((n & -n) == n ? nextLong() & n - 1 // power of two | ~~^~~ pam.h: In member function ‘std::vector Xoroshiro128Random::randomSample(int, int)’: pam.h:82:35: warning: comparison of integer expressions of different signedness: ‘std::unordered_map::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 82 | while (sample_dict.size() < samplesize) { | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ pam.h: At global scope: pam.h:465:25: warning: ‘virtual Assignment& Assignment::operator=(const Assignment&)’ was hidden [-Woverloaded-virtual=] 465 | virtual Assignment& operator=(const Assignment& other); | ^~~~~~~~ pam.h:533:7: note: by ‘FastAssignment& FastAssignment::operator=(const FastAssignment&)’ 533 | class FastAssignment : public Assignment | ^~~~~~~~~~~~~~ pam.cpp: In member function ‘double LAB::getMinDist(int, std::vector&, std::vector&)’: pam.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | for (int i=0; i LAB::run(const std::vector&, int)’: pam.cpp:166:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 166 | for (int j=0; j::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 191 | while(medids.size() < k) { | ~~~~~~~~~~~~~~^~~ pam.cpp:203:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 203 | for (int j=0; j&)’: pam.cpp:374:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 374 | for (int j=0; j&, std::vector&, std::vector&, std::vector&)’: pam.cpp:522:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 522 | for (int j=0; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 527 | for(int i = 0; i < cost.size(); i++) { | ~~^~~~~~~~~~~~~ pam.cpp: In member function ‘virtual void FastPAM::computeReassignmentCost(int, std::vector&)’: pam.cpp:566:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 566 | for(int pi = pj + 1; pi < cost.size(); pi++) { | ~~~^~~~~~~~~~~~~ pam.cpp: In member function ‘virtual double FastPAM::assignToNearestCluster(std::vector&)’: pam.cpp:608:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 608 | for (int h=0; h< means.size(); ++h) { | ~^~~~~~~~~~~~~~ pam.cpp: In member function ‘int FastPAM::argmin(const std::vector&)’: pam.cpp:639:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 639 | for(int i = 0; i < best.size(); i++) { | ~~^~~~~~~~~~~~~ pam.cpp: In member function ‘int FastPAM::updateSecondNearest(int, std::vector&, int, double, int)’: pam.cpp:716:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 716 | for (int i=0; i PAMUtils::randomSample(Xoroshiro128Random&, int, int, const std::vector&)’: pam.cpp:740:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 740 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 748 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 756 | if (sample_dict.size() < samplesize) { | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ pam.cpp:761:58: warning: comparison of integer expressions of different signedness: ‘std::unordered_map::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 761 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 822 | for (int k=0; k&, std::vector&, std::vector&, std::vector&)’: pam.cpp:844:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 844 | for (int j=0; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 856 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 916 | for (int k=0; k::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1119 | for(int i = 0; i < medoids.size(); i++) { | ~~^~~~~~~~~~~~~~~~ pam.cpp: In member function ‘virtual bool Assignment::hasMedoid(int)’: pam.cpp:1157:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1157 | for (int i=0; i&, int)’: pam.cpp:344:30: warning: ‘bestid’ may be used uninitialized [-Wmaybe-uninitialized] 344 | medoids[bestcluster] = bestid; pam.cpp:313:9: note: ‘bestid’ was declared here 313 | int bestid; | ^~~~~~ g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c rcpp_fastkmedoids.cpp -o rcpp_fastkmedoids.o In file included from rcpp_fastkmedoids.cpp:19: pam.h: In member function ‘int Xoroshiro128Random::nextInt(int)’: pam.h:57:55: warning: suggest parentheses around ‘-’ in operand of ‘&’ [-Wparentheses] 57 | int r = (int)((n & -n) == n ? nextLong() & n - 1 // power of two | ~~^~~ pam.h: In member function ‘std::vector Xoroshiro128Random::randomSample(int, int)’: pam.h:82:35: warning: comparison of integer expressions of different signedness: ‘std::unordered_map::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 82 | while (sample_dict.size() < samplesize) { | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ pam.h: At global scope: pam.h:465:25: warning: ‘virtual Assignment& Assignment::operator=(const Assignment&)’ was hidden [-Woverloaded-virtual=] 465 | virtual Assignment& operator=(const Assignment& other); | ^~~~~~~~ pam.h:533:7: note: by ‘FastAssignment& FastAssignment::operator=(const FastAssignment&)’ 533 | class FastAssignment : public Assignment | ^~~~~~~~~~~~~~ g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o fastkmedoids.so RcppExports.o pam.o rcpp_fastkmedoids.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpGwSDSb/R.INSTALL62b5d7aa8f550/fastkmedoids/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-fastkmedoids/00new/fastkmedoids/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 (fastkmedoids) * installing *source* package ‘seacarb’ ... ** this is package ‘seacarb’ version ‘3.3.3’ ** package ‘seacarb’ 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 (seacarb) begin installing package ‘marelac’ * installing *source* package ‘chipPCR’ ... ** this is package ‘chipPCR’ version ‘1.0-2’ ** package ‘chipPCR’ 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 Creating a generic function for ‘qqline’ from package ‘stats’ in package ‘chipPCR’ ** 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 (chipPCR) begin installing package ‘MBmca’ * installing *source* package ‘marelac’ ... ** this is package ‘marelac’ version ‘2.1.11’ ** package ‘marelac’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-12) 15.2.0’ using Fortran compiler: ‘GNU Fortran (Debian 15.2.0-12) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpHwFyua/R.INSTALL63120799b6233/marelac/src' gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c gsw_AbsSal.f -o gsw_AbsSal.o gcc-15 -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 registerRoutines.c -o registerRoutines.o gcc-15 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o marelac.so gsw_AbsSal.o registerRoutines.o -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpHwFyua/R.INSTALL63120799b6233/marelac/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-marelac/00new/marelac/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 (marelac) * installing *source* package ‘segmented’ ... ** this is package ‘segmented’ version ‘2.2-0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (segmented) begin installing package ‘respirometry’ * installing *source* package ‘MBmca’ ... ** this is package ‘MBmca’ version ‘1.1-0’ ** package ‘MBmca’ 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 (MBmca) * installing *source* package ‘OpenStreetMap’ ... ** this is package ‘OpenStreetMap’ version ‘0.4.1’ ** package ‘OpenStreetMap’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading in method for ‘raster’ with signature ‘"osmtile"’: no definition for class “osmtile” in method for ‘raster’ with signature ‘"OpenStreetMap"’: no definition for class “OpenStreetMap” ** 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 (OpenStreetMap) begin installing package ‘loa’ * installing *source* package ‘RDML’ ... ** this is package ‘RDML’ version ‘1.1’ ** package ‘RDML’ 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 (RDML) * installing *source* package ‘changepointGA’ ... ** this is package ‘changepointGA’ version ‘0.1.3’ ** package ‘changepointGA’ successfully unpacked and MD5 sums checked ** using staged installation ** libs specified C++17 using C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’ using C++17 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpsTpLhh/R.INSTALL62b7344e5853/changepointGA/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c ARIMA_BIC.cpp -o ARIMA_BIC.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c PopInitia.cpp -o PopInitia.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o changepointGA.so ARIMA_BIC.o PopInitia.o RcppExports.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/RtmpsTpLhh/R.INSTALL62b7344e5853/changepointGA/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-changepointGA/00new/changepointGA/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** 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 (changepointGA) * installing *source* package ‘respirometry’ ... ** this is package ‘respirometry’ version ‘2.0.2’ ** package ‘respirometry’ 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 (respirometry) * installing *source* package ‘loa’ ... ** this is package ‘loa’ version ‘0.3.1.1’ ** package ‘loa’ 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 (loa) * installing *source* package ‘roll’ ... ** this is package ‘roll’ version ‘1.2.0’ ** package ‘roll’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-12) 15.2.0’ using C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpjraER3/R.INSTALL62b669127591/roll/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../inst/include/ -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o gcc-15 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../inst/include/ -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c roll.cpp -o roll.o g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o roll.so RcppExports.o init.o roll.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/RtmpjraER3/R.INSTALL62b669127591/roll/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-roll/00new/roll/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 (roll) * installing *source* package ‘acss.data’ ... ** this is package ‘acss.data’ version ‘1.2’ ** package ‘acss.data’ successfully unpacked and MD5 sums checked ** using staged installation ** data *** moving datasets to lazyload DB ** 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 (acss.data) begin installing package ‘acss’ * installing *source* package ‘acss’ ... ** this is package ‘acss’ version ‘0.3-2’ ** package ‘acss’ 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 (acss) checking segmented_2.2-0.tar.gz ... checking AQEval_0.6.2.tar.gz ... checking bioregion_1.2.0.tar.gz ... checking ddiv_0.1.1.tar.gz ... checking lactater_0.2.0.tar.gz ... checking LadderFuelsR_0.0.7.tar.gz ... checking mixtools_2.0.0.1.tar.gz ... checking netSEM_0.6.2.tar.gz ... checking PCRedux_1.2-1.tar.gz ... checking PUPAK_0.1.1.tar.gz ... checking PwePred_1.0.0.tar.gz ... checking PWEXP_0.5.0.tar.gz ... checking rcssci_0.4.0.tar.gz ... checking ReliaGrowR_0.3.2.tar.gz ... checking respirometry_2.0.2.tar.gz ... checking respR_2.3.4.tar.gz ... checking RHRV_5.0.0.tar.gz ... checking seqinr_4.2-36.tar.gz ... checking spatialwarnings_3.1.1.tar.gz ... checking StructuralDecompose_0.1.1.tar.gz ... checking SWTools_1.1.0.tar.gz ... checking tidychangepoint_1.0.3.tar.gz ... checking weibulltools_2.1.0.tar.gz ... checking nlraa_1.9.10.tar.gz ... checking REddyProc_1.3.4.tar.gz ... Depends: Package: segmented Depends: R (>= 3.5.0), MASS, nlme Timings: user system elapsed segmented 110.548 4.614 116.613 Results: Check status summary: NOTE OK Source packages 0 1 Reverse depends 3 21 Check results summary: segmented ... OK rdepends_AQEval ... OK rdepends_bioregion ... OK rdepends_ddiv ... OK rdepends_lactater ... OK rdepends_LadderFuelsR ... NOTE * checking DESCRIPTION meta-information ... NOTE rdepends_mixtools ... OK rdepends_netSEM ... NOTE * checking Rd files ... [0s/0s] NOTE rdepends_nlraa ... OK rdepends_PCRedux ... OK rdepends_PUPAK ... OK rdepends_PwePred ... OK rdepends_PWEXP ... OK rdepends_rcssci ... OK rdepends_REddyProc ... OK rdepends_ReliaGrowR ... OK rdepends_respirometry ... OK rdepends_respR ... OK rdepends_RHRV ... NOTE * checking DESCRIPTION meta-information ... NOTE rdepends_seqinr ... OK rdepends_spatialwarnings ... OK rdepends_StructuralDecompose ... OK rdepends_SWTools ... OK rdepends_tidychangepoint ... OK rdepends_weibulltools ... OK Check results changes: Package: mixtools Check: CRAN incoming feasibility Old result: NOTE Package: PWEXP Check: CRAN incoming feasibility Old result: NOTE