Install log for 'dodgr'

* installing to library ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages’
* installing *source* package ‘dodgr’ ...
** package ‘dodgr’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-13 (Debian 13.2.0-23) 13.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpKi8tiv/R.INSTALL1a3c22245be2e1/dodgr/src'
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c heaps/bheap.cpp -o heaps/bheap.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c heaps/fheap.cpp -o heaps/fheap.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c heaps/heap23.cpp -o heaps/heap23.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c heaps/triheap_ext.cpp -o heaps/triheap_ext.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c heaps/triheap.cpp -o heaps/triheap.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c centrality.cpp -o centrality.o
In file included from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel/TinyThread.h:7,
                 from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel.h:6,
                 from run_sp.h:13,
                 from centrality.cpp:1:
/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel/Common.h: In instantiation of ‘int RcppParallel::resolveValue(const char*, T, U) [with T = long unsigned int; U = int]’:
/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel.h:57:28:   required from ‘void RcppParallel::parallelReduce(std::size_t, std::size_t, Reducer&, std::size_t, int) [with Reducer = OneCentralityEdge; std::size_t = long unsigned int]’
centrality.cpp:452:38:   required from here
/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel/Common.h:16:23: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
   16 |    if (requestedValue != defaultValue && requestedValue > 0)
      |        ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c deduplicate.cpp -o deduplicate.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c dgraph.cpp -o dgraph.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c pathfinders.cpp -o pathfinders.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c dodgr-to-sf.cpp -o dodgr-to-sf.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c flows.cpp -o flows.o
In file included from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel/TinyThread.h:7,
                 from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel.h:6,
                 from run_sp.h:13,
                 from flows.cpp:2:
/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel/Common.h: In instantiation of ‘int RcppParallel::resolveValue(const char*, T, U) [with T = long unsigned int; U = int]’:
/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel.h:57:28:   required from ‘void RcppParallel::parallelReduce(std::size_t, std::size_t, Reducer&, std::size_t, int) [with Reducer = OneAggregate; std::size_t = long unsigned int]’
flows.cpp:598:34:   required from here
/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel/Common.h:16:23: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
   16 |    if (requestedValue != defaultValue && requestedValue > 0)
      |        ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c fund-cycles.cpp -o fund-cycles.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c graph-contract.cpp -o graph-contract.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c graph.cpp -o graph.o
graph.cpp: In function ‘Rcpp::List rcpp_get_component_vector(const Rcpp::DataFrame&)’:
graph.cpp:198:10: warning: variable ‘has_times’ set but not used [-Wunused-but-set-variable]
  198 |     bool has_times = graph::graph_from_df (graph, vertices, edge_map, vert2edge_map);
      |          ^~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c graph-sample.cpp -o graph-sample.o
graph-sample.cpp: In function ‘Rcpp::StringVector rcpp_sample_graph(Rcpp::DataFrame, size_t)’:
graph-sample.cpp:109:10: warning: variable ‘has_times’ set but not used [-Wunused-but-set-variable]
  109 |     bool has_times = graph::graph_from_df (graph, vertices, edge_map, vert2edge_map);
      |          ^~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c match-points.cpp -o match-points.o
match-points.cpp: In member function ‘virtual void OneEdgeIndex::operator()(std::size_t, std::size_t)’:
match-points.cpp:99:17: warning: variable ‘which_side’ set but not used [-Wunused-but-set-variable]
   99 |             int which_side = INFINITE_INT;
      |                 ^~~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c RcppExports.cpp -o RcppExports.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c run_sp.cpp -o run_sp.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c run_sp_categorical.cpp -o run_sp_categorical.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c sc-as-network.cpp -o sc-as-network.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c sf-as-network.cpp -o sf-as-network.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppThread/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c turn_penalty.cpp -o turn_penalty.o
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -Wl,-O1 -o dodgr.so heaps/bheap.o heaps/fheap.o heaps/heap23.o heaps/triheap_ext.o heaps/triheap.o centrality.o deduplicate.o dgraph.o pathfinders.o dodgr-to-sf.o flows.o fund-cycles.o graph-contract.o graph.o graph-sample.o match-points.o RcppExports.o run_sp.o run_sp_categorical.o sc-as-network.o sf-as-network.o turn_penalty.o -llapack -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpKi8tiv/R.INSTALL1a3c22245be2e1/dodgr/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpKi8tiv/R.INSTALL1a3c22245be2e1/dodgr/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpKi8tiv/R.INSTALL1a3c22245be2e1/dodgr/src'
installing to /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/00LOCK-dodgr/00new/dodgr/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 (dodgr)