* installing *source* package ‘epiworldR’ ...
** 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 the compiler supports GNU C++... yes
checking whether g++-14 -std=gnu++17 accepts -g... yes
checking for g++-14 -std=gnu++17 option to enable C++11 features... none needed
checking how to run the C++ preprocessor... g++-14 -std=gnu++17 -E
checking whether the compiler supports GNU C++... (cached) yes
checking whether g++-14 -std=gnu++17 accepts -g... (cached) yes
checking for g++-14 -std=gnu++17 option to enable C++11 features... (cached) none needed
checking whether we have a suitable tempdir... /home/hornik/tmp/scratch/RtmpWeIbR4/working_dir
checking whether R CMD SHLIB can already compile programs using OpenMP... yes
checking whether to build the dev version... configure: creating ./config.status
config.status: creating src/Makevars
config.status: creating R/epiworldR-package.R
** libs
using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’
g++-14  -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fopenmp -I../inst/include/  -Dprintf_epiworld=Rprintf -fpic  -g -O2 -Wall -pedantic -mtune=native  -DR_NO_REMAP -c actions.cpp -o actions.o
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11.hpp:3,
                 from actions.cpp:2:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:11:9: warning: "R_NO_REMAP" redefined
   11 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:12:9: warning: "STRICT_R_HEADERS" redefined
   12 | #define STRICT_R_HEADERS
      |         ^~~~~~~~~~~~~~~~
<command-line>: note: this is the location of the previous definition
g++-14  -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fopenmp -I../inst/include/  -Dprintf_epiworld=Rprintf -fpic  -g -O2 -Wall -pedantic -mtune=native  -DR_NO_REMAP -c agents.cpp -o agents.o
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11.hpp:3,
                 from agents.cpp:2:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:11:9: warning: "R_NO_REMAP" redefined
   11 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:12:9: warning: "STRICT_R_HEADERS" redefined
   12 | #define STRICT_R_HEADERS
      |         ^~~~~~~~~~~~~~~~
<command-line>: note: this is the location of the previous definition
g++-14  -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fopenmp -I../inst/include/  -Dprintf_epiworld=Rprintf -fpic  -g -O2 -Wall -pedantic -mtune=native  -DR_NO_REMAP -c cpp11.cpp -o cpp11.o
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11.hpp:3,
                 from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/declarations.hpp:13,
                 from cpp11.cpp:5:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:11:9: warning: "R_NO_REMAP" redefined
   11 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:12:9: warning: "STRICT_R_HEADERS" redefined
   12 | #define STRICT_R_HEADERS
      |         ^~~~~~~~~~~~~~~~
<command-line>: note: this is the location of the previous definition
g++-14  -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fopenmp -I../inst/include/  -Dprintf_epiworld=Rprintf -fpic  -g -O2 -Wall -pedantic -mtune=native  -DR_NO_REMAP -c db.cpp -o db.o
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11.hpp:3,
                 from db.cpp:2:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:11:9: warning: "R_NO_REMAP" redefined
   11 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:12:9: warning: "STRICT_R_HEADERS" redefined
   12 | #define STRICT_R_HEADERS
      |         ^~~~~~~~~~~~~~~~
<command-line>: note: this is the location of the previous definition
g++-14  -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fopenmp -I../inst/include/  -Dprintf_epiworld=Rprintf -fpic  -g -O2 -Wall -pedantic -mtune=native  -DR_NO_REMAP -c entities.cpp -o entities.o
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11.hpp:3,
                 from entities.cpp:2:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:11:9: warning: "R_NO_REMAP" redefined
   11 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:12:9: warning: "STRICT_R_HEADERS" redefined
   12 | #define STRICT_R_HEADERS
      |         ^~~~~~~~~~~~~~~~
<command-line>: note: this is the location of the previous definition
g++-14  -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fopenmp -I../inst/include/  -Dprintf_epiworld=Rprintf -fpic  -g -O2 -Wall -pedantic -mtune=native  -DR_NO_REMAP -c epimodels.cpp -o epimodels.o
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11.hpp:3,
                 from epimodels.cpp:2:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:11:9: warning: "R_NO_REMAP" redefined
   11 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:12:9: warning: "STRICT_R_HEADERS" redefined
   12 | #define STRICT_R_HEADERS
      |         ^~~~~~~~~~~~~~~~
<command-line>: note: this is the location of the previous definition
In file included from ../inst/include/epiworld/epiworld.hpp:40,
                 from epiworld-common.h:4,
                 from epimodels.cpp:5:
In member function ‘epiworld::UserData<int>& epiworld::UserData<int>::operator=(epiworld::UserData<int>&&)’,
    inlined from ‘void epiworld::DataBase<TSeq>::set_user_data(std::vector<std::__cxx11::basic_string<char> >) [with TSeq = int]’ at ../inst/include/epiworld/database-meat.hpp:1049:15,
    inlined from ‘void epiworld::Model<TSeq>::set_user_data(std::vector<std::__cxx11::basic_string<char> >) [with TSeq = int]’ at ../inst/include/epiworld/model-meat.hpp:2172:21,
    inlined from ‘epiworld::epimodels::ModelSURV<TSeq>::ModelSURV(epiworld::epimodels::ModelSURV<TSeq>&, const std::string&, long long unsigned int, float, float, float, float, float, float, float, float, float, float, float) [with TSeq = int]’ at ../inst/include/epiworld/models/surveillance.hpp:335:24:
../inst/include/epiworld/userdata-bones.hpp:16:7: warning: ‘<anonymous>.epiworld::UserData<int>::model’ may be used uninitialized [-Wmaybe-uninitialized]
   16 | class UserData
      |       ^~~~~~~~
In file included from ../inst/include/epiworld/epiworld.hpp:46:
../inst/include/epiworld/database-meat.hpp: In constructor ‘epiworld::epimodels::ModelSURV<TSeq>::ModelSURV(epiworld::epimodels::ModelSURV<TSeq>&, const std::string&, long long unsigned int, float, float, float, float, float, float, float, float, float, float, float) [with TSeq = int]’:
../inst/include/epiworld/database-meat.hpp:1049:17: note: ‘<anonymous>’ declared here
 1049 |     user_data = UserData<TSeq>(names);
      |                 ^~~~~~~~~~~~~~~~~~~~~
g++-14  -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fopenmp -I../inst/include/  -Dprintf_epiworld=Rprintf -fpic  -g -O2 -Wall -pedantic -mtune=native  -DR_NO_REMAP -c model.cpp -o model.o
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11.hpp:3,
                 from model.cpp:1:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:11:9: warning: "R_NO_REMAP" redefined
   11 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:12:9: warning: "STRICT_R_HEADERS" redefined
   12 | #define STRICT_R_HEADERS
      |         ^~~~~~~~~~~~~~~~
<command-line>: note: this is the location of the previous definition
g++-14  -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fopenmp -I../inst/include/  -Dprintf_epiworld=Rprintf -fpic  -g -O2 -Wall -pedantic -mtune=native  -DR_NO_REMAP -c tool.cpp -o tool.o
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11.hpp:3,
                 from tool.cpp:2:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:11:9: warning: "R_NO_REMAP" redefined
   11 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:12:9: warning: "STRICT_R_HEADERS" redefined
   12 | #define STRICT_R_HEADERS
      |         ^~~~~~~~~~~~~~~~
<command-line>: note: this is the location of the previous definition
g++-14  -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fopenmp -I../inst/include/  -Dprintf_epiworld=Rprintf -fpic  -g -O2 -Wall -pedantic -mtune=native  -DR_NO_REMAP -c virus.cpp -o virus.o
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11.hpp:3,
                 from virus.cpp:2:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:11:9: warning: "R_NO_REMAP" redefined
   11 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include/cpp11/R.hpp:12:9: warning: "STRICT_R_HEADERS" redefined
   12 | #define STRICT_R_HEADERS
      |         ^~~~~~~~~~~~~~~~
<command-line>: note: this is the location of the previous definition
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o epiworldR.so actions.o agents.o cpp11.o db.o entities.o epimodels.o model.o tool.o virus.o -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R-d-gcc-14/lib -lR
installing to /home/hornik/tmp/CRAN_recheck/epiworldR.Rcheck/00LOCK-epiworldR/00new/epiworldR/libs
** 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
** 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 (epiworldR)