* installing to library ‘/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages’
* installing *source* package ‘GeoAdjust’ ...
** package ‘GeoAdjust’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Debian clang version 17.0.5 (1)’
make[1]: Entering directory '/tmp/Rtmp6qGOfF/R.INSTALL3f51287a34643/GeoAdjust/src'
clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c GeoAdjust_init.cpp -o GeoAdjust_init.o
clang++-17 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c compute.cpp -o compute.o
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:41:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/Rstream.hpp:43:15: warning: field precision should have type 'int', but argument has type 'std::streamsize' (aka 'long') [-Wformat]
43 | Rprintf( "%.*s", num, s ) ;
| ~~^~ ~~~
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/Rstream.hpp:47:16: warning: field precision should have type 'int', but argument has type 'std::streamsize' (aka 'long') [-Wformat]
47 | REprintf( "%.*s", num, s ) ;
| ~~^~ ~~~
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/Rstream.hpp:51:34: warning: format specifies type 'char *' but the argument has type 'int *' [-Wformat]
51 | if (c != EOF) Rprintf( "%.1s", &c ) ;
| ~~~~ ^~
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/Rstream.hpp:55:35: warning: format specifies type 'char *' but the argument has type 'int *' [-Wformat]
55 | if (c != EOF) REprintf( "%.1s", &c ) ;
| ~~~~ ^~
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:83:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Dense:1:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Core:540:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
14 | #pragma clang diagnostic pop
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:83:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Dense:2:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/LU:47:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
14 | #pragma clang diagnostic pop
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:83:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Dense:3:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Cholesky:12:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Jacobi:29:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
14 | #pragma clang diagnostic pop
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:83:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Dense:3:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Cholesky:43:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
14 | #pragma clang diagnostic pop
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:83:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Dense:4:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/QR:15:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Householder:27:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
14 | #pragma clang diagnostic pop
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:83:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Dense:4:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/QR:48:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
14 | #pragma clang diagnostic pop
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:83:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Dense:5:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/SVD:48:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
14 | #pragma clang diagnostic pop
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:83:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Dense:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Geometry:58:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
14 | #pragma clang diagnostic pop
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:83:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Dense:7:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Eigenvalues:58:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
14 | #pragma clang diagnostic pop
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:87:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Sparse:26:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/SparseCore:61:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
273 | Index count = 0;
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:87:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Sparse:26:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/SparseCore:66:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
14 | #pragma clang diagnostic pop
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:87:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Sparse:27:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/OrderingMethods:71:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
14 | #pragma clang diagnostic pop
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:87:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Sparse:29:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/SparseCholesky:43:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
14 | #pragma clang diagnostic pop
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:87:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Sparse:31:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/SparseLU:33:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
78 | Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree
| ^
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
79 | Index nsuper_et = 0; // Number of relaxed snodes in the original etree
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:87:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Sparse:32:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/SparseQR:34:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
14 | #pragma clang diagnostic pop
| ^
In file included from compute.cpp:6:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:87:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/Sparse:33:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/IterativeLinearSolvers:46:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
14 | #pragma clang diagnostic pop
| ^
In file included from compute.cpp:6:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:166:51: warning: format string is not a string literal (potentially insecure) [-Wformat-security]
166 | void eigen_REprintf(const char* x)CSKIP({REprintf(x);})
| ^
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:25:20: note: expanded from macro 'CSKIP'
25 | #define CSKIP(...) __VA_ARGS__
| ^~~~~~~~~~~
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:166:51: note: treat the string as an argument to avoid this
166 | void eigen_REprintf(const char* x)CSKIP({REprintf(x);})
| ^
| "%s",
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/TMB.hpp:25:20: note: expanded from macro 'CSKIP'
25 | #define CSKIP(...) __VA_ARGS__
| ^
compute.cpp:100:17: warning: unused variable 'num_s' [-Wunused-variable]
100 | DATA_INTEGER( num_s );
| ^~~~~
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/TMB/include/tmb_core.hpp:260:32: note: expanded from macro 'DATA_INTEGER'
260 | #define DATA_INTEGER(name) int name(CppAD::Integer(asVector<Type>( \
| ^~~~
23 warnings generated.
clang++-17 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -Wl,-O1 -o GeoAdjust.so GeoAdjust_init.o compute.o -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -lR
make[1]: Leaving directory '/tmp/Rtmp6qGOfF/R.INSTALL3f51287a34643/GeoAdjust/src'
make[1]: Entering directory '/tmp/Rtmp6qGOfF/R.INSTALL3f51287a34643/GeoAdjust/src'
make[1]: Leaving directory '/tmp/Rtmp6qGOfF/R.INSTALL3f51287a34643/GeoAdjust/src'
installing to /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/00LOCK-GeoAdjust/00new/GeoAdjust/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 (GeoAdjust)