* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’ * installing *source* package ‘treespace’ ... ** this is package ‘treespace’ version ‘1.1.4.3’ ** package ‘treespace’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpAffiH4/R.INSTALL30fc113c4afa21/treespace/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c CPP_update_combinations.cpp -o CPP_update_combinations.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o treespace.so CPP_update_combinations.o RcppExports.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpAffiH4/R.INSTALL30fc113c4afa21/treespace/src' make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpAffiH4/R.INSTALL30fc113c4afa21/treespace/src' make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpAffiH4/R.INSTALL30fc113c4afa21/treespace/src' installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-treespace/00new/treespace/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘treespace’ finding HTML links ... done DengueBEASTMCC html DengueSeqs html DengueTrees html dot-render.server.info html findGroves html findMRCIs html fluTrees html linearMrca html makeCollapsedTree html medTree html multiDist html plotGroves html Rd warning: plotGroves.Rd:57: missing link ‘s.class’ plotGrovesD3 html Rd warning: plotGrovesD3.Rd:36: missing link ‘scatterD3’ plotTreeDiff html Rd warning: plotTreeDiff.Rd:51: missing link ‘plot.phylo’ refTreeDist html relatedTreeDist html simulateIndTree html tipDiff html tipsMRCAdepths html treeConcordance html treeDist html treeVec html treespace html treespaceServer html wiwMedTree html wiwTreeDist html woodmiceTrees html ** 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 (treespace)