* installing *source* package ‘scorematchingad’ ...
** package ‘scorematchingad’ successfully unpacked and MD5 sums checked
** using staged installation
checking for cmake... /usr/bin/cmake
configure: Running CMake...
-- The C compiler identification is Clang 19.1.5
-- The CXX compiler identification is Clang 19.1.5
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/local/clang19/bin/clang - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/local/clang19/bin/clang++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- cmake_install_datadir = share
-- cmake_install_docdir = NOTFOUND
-- cmake_install_includedirs = include
-- cmake_install_libdirs = lib
-- cmake_defined_ok = TRUE
-- cppad_prefix = /usr/local
-- cppad_postfix = NOTFOUND
-- cppad_cxx_flags = 
-- cppad_profile_flag = NOTFOUND
-- cppad_testvector = cppad
-- cppad_max_num_threads = 48
-- cppad_tape_id_type = unsigned int
-- cppad_tape_addr_type = unsigned int
-- cppad_static_lib = FALSE
-- cppad_debug_and_release = TRUE
-- Performing Test minimal_cplusplus
-- Performing Test minimal_cplusplus - Success
-- minimal_cplusplus = 1
-- Performing Test use_cplusplus_2017_ok
-- Performing Test use_cplusplus_2017_ok - Success
-- use_cplusplus_2017_ok = 1
-- CMAKE_SYSTEM_NAME = Linux
-- cppad_debug_which = debug_none
-- CMAKE_BUILD_TYPE = minsizerel
-- make check: avialable
-- include_adolc = FALSE
-- include_ipopt = FALSE
-- CMAKE_CXX_FLAGS_RELEASE = -O3 -DNDEBUG
-- Found OpenMP_C: -fopenmp=libomp  
-- Found OpenMP_CXX: -fopenmp=libomp  
-- Found OpenMP: TRUE   
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
-- Found Threads: TRUE  
-- Found Boost: /usr/include (found version "1.76.0") found components: thread chrono date_time atomic 
-- boost_prefix = /usr
-- Found /usr/include
-- Found /usr/lib
-- is_cppad_lib_dynamic = 1
-- cppad_c_compiler_cmd = clang
-- c_compiler_msvc_clang = 0
-- cppad_c_compiler_msvc_flags = 0
-- cppad_c_compiler_gnu_flags = 1
-- Performing Test compiler_has_conversion_warn
-- Performing Test compiler_has_conversion_warn - Success
-- compiler_has_conversion_warn = 1
-- cppad_boostvector = 0
-- cppad_cppadvector = 1
-- cppad_eigenvector = 0
-- cppad_stdvector = 0
-- Performing Test cppad_has_gettimeofday
-- Performing Test cppad_has_gettimeofday - Success
-- cppad_has_gettimeofday = 1
-- Performing Test cppad_tape_id_type_is_unsigned
-- Performing Test cppad_tape_id_type_is_unsigned - Success
-- cppad_tape_id_type_is_unsigned = 1
-- Performing Test cppad_tape_addr_type_is_unsigned
-- Performing Test cppad_tape_addr_type_is_unsigned - Success
-- cppad_tape_addr_type_is_unsigned = 1
-- Performing Test cppad_has_mkstemp
-- Performing Test cppad_has_mkstemp - Success
-- cppad_has_mkstemp = 1
-- Performing Test cppad_has_tmpnam_s
-- Performing Test cppad_has_tmpnam_s - Failed
-- cppad_has_tmpnam_s = 0
-- Performing Test cppad_is_same_unsigned_int_size_t
-- Performing Test cppad_is_same_unsigned_int_size_t - Failed
-- cppad_is_same_unsigned_int_size_t = 0
-- Performing Test cppad_is_same_tape_addr_type_size_t
-- Performing Test cppad_is_same_tape_addr_type_size_t - Failed
-- cppad_is_same_tape_addr_type_size_t = 0
-- Performing Test first_block_t_mod_double_zero
-- Performing Test first_block_t_mod_double_zero - Success
-- first_block_t_mod_double_zero = 1
-- Performing Test second_block_t_mod_double_zero
-- Performing Test second_block_t_mod_double_zero - Success
-- second_block_t_mod_double_zero = 1
-- soversion = 1828.5
-- Not Windows system so building shared cppad_lib
-- make check_val_graph: available
-- make check_example_abs_normal: available
-- make check_example_atomic_four_lin_ode: available
-- make check_example_atomic_four_mat_mul: available
-- make check_example_atomic_four_vector: available
-- make check_example_atomic_four: available
-- make check_example_atomic_three: available
-- make check_example_atomic_two: available
-- make check_example_chkpoint_two: available
-- make check_example_compare_change: available
-- make check_example_general: available
-- make check_example_get_started: available
-- make check_example_graph: available
-- make check_example_jit: available
-- make check_example_json: available
-- make check_example_multi_thread_openmp: available
-- pthread library path = /usr/lib64/libpthread.a
-- Looking for pthread_barrier_wait in pthread
-- Looking for pthread_barrier_wait in pthread - found
-- make check_example_multi_thread_pthread: available
-- Performing Test boost_multi_thread_ok
-- Performing Test boost_multi_thread_ok - Failed
-- boost_multi_thread_ok = 0
-- make check_example_multi_thread: available
-- make check_example_optimize: available
-- make check_example_print_for: available
-- make check_example_sparse: available
-- make check_example_utility: available
-- make check_example: available
-- make check_introduction: available
-- make check_test_more_deprecated_atomic_two: available
-- make check_test_more_deprecated_chkpoint_one: available
-- make check_test_more_deprecated: available
-- make check_test_more_compare_c_c: available
-- make check_test_more_compare_c_cpp: available
-- make check_test_more_compare_c: available
-- make check_test_more_debug_rel: available
-- make check_test_more_cppad_for_tmb: available
-- make check_test_more_general: available
-- make check_test_more: available
-- make check_speed_cppad: available
-- make check_speed_cppad_jit: available
-- make check_speed_double: available
-- make check_speed_example: available
-- make check_speed_program: available
-- make check_speed_xpackage: available
-- make check_speed: available
-- Configuring done (39.1s)
-- Generating done (1.2s)
-- Build files have been written to: /data/gannet/ripley/R/packages/tests-clang/scorematchingad/inst/cppad/build
/data/gannet/ripley/R/packages/tests-clang/scorematchingad
[1] TRUE
[1] TRUE
configure: creating ./config.status
** libs
using C++ compiler: ‘clang version 19.1.5’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/scorematchingad/src'
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o
In file included from RcppExports.cpp:4:
In file included from ./../inst/include/scorematchingad.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61:
/data/gannet/ripley/R/test-clang/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 RcppExports.cpp:4:
In file included from ./../inst/include/scorematchingad.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35:
/data/gannet/ripley/R/test-clang/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 
      |         ^
/data/gannet/ripley/R/test-clang/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 RcppExports.cpp:4:
In file included from ./../inst/include/scorematchingad.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:31:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from RcppExports.cpp:4:
In file included from ./../inst/include/scorematchingad.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:37:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
5 warnings generated.
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c approxwrap.cpp -o approxwrap.o
In file included from approxwrap.cpp:1:
In file included from ./approxwrap.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61:
/data/gannet/ripley/R/test-clang/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 approxwrap.cpp:1:
In file included from ./approxwrap.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35:
/data/gannet/ripley/R/test-clang/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 
      |         ^
/data/gannet/ripley/R/test-clang/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 approxwrap.cpp:1:
In file included from ./approxwrap.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:31:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from approxwrap.cpp:1:
In file included from ./approxwrap.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:37:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
5 warnings generated.
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c cppad_interface.cpp -o cppad_interface.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c exposemanifold.cpp -o exposemanifold.o
In file included from cppad_interface.cpp:1:
In file included from ./cppad_interface.h:7:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61:
/data/gannet/ripley/R/test-clang/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 cppad_interface.cpp:1:
In file included from ./cppad_interface.h:7:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35:
/data/gannet/ripley/R/test-clang/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 
      |         ^
/data/gannet/ripley/R/test-clang/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 cppad_interface.cpp:1:
In file included from ./cppad_interface.h:7:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:31:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from cppad_interface.cpp:1:
In file included from ./cppad_interface.h:7:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:37:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
In file included from exposemanifold.cpp:1:
In file included from ./exposemanifold.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61:
/data/gannet/ripley/R/test-clang/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 exposemanifold.cpp:1:
In file included from ./exposemanifold.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35:
/data/gannet/ripley/R/test-clang/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 
      |         ^
/data/gannet/ripley/R/test-clang/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 exposemanifold.cpp:1:
In file included from ./exposemanifold.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:31:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from exposemanifold.cpp:1:
In file included from ./exposemanifold.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:37:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c tapebdryweight.cpp -o tapebdryweight.o
5 warnings generated.
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c tapell.cpp -o tapell.o
5 warnings generated.
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c tapesmd.cpp -o tapesmd.o
In file included from tapebdryweight.cpp:1:
In file included from ./tapebdryweight.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61:
/data/gannet/ripley/R/test-clang/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 tapebdryweight.cpp:1:
In file included from ./tapebdryweight.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35:
/data/gannet/ripley/R/test-clang/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 
      |         ^
/data/gannet/ripley/R/test-clang/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 tapebdryweight.cpp:1:
In file included from ./tapebdryweight.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:31:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from tapebdryweight.cpp:1:
In file included from ./tapebdryweight.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:37:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
In file included from tapebdryweight.cpp:1:
In file included from ./tapebdryweight.h:4:
In file included from ../inst/include/scorematchingad_forward.h:6:
In file included from /data/gannet/ripley/R/test-clang/Rcpp/include/RcppCommon.h:130:
/data/gannet/ripley/R/test-clang/Rcpp/include/Rcpp/exceptions.h:60:21: warning: inline function 'Rcpp::exception::record_stack_trace' is not defined [-Wundefined-inline]
   60 |         inline void record_stack_trace();
      |                     ^
/data/gannet/ripley/R/test-clang/Rcpp/include/Rcpp/exceptions.h:41:13: note: used here
   41 |             record_stack_trace();
      |             ^
/data/gannet/ripley/R/test-clang/Rcpp/include/Rcpp/exceptions.h:55:21: warning: inline function 'Rcpp::exception::copy_stack_trace_to_r' is not defined [-Wundefined-inline]
   55 |         inline void copy_stack_trace_to_r() const;
      |                     ^
/data/gannet/ripley/R/test-clang/Rcpp/include/Rcpp/exceptions.h:348:8: note: used here
  348 |     ex.copy_stack_trace_to_r();
      |        ^
In file included from tapebdryweight.cpp:1:
In file included from ./tapebdryweight.h:4:
In file included from ../inst/include/scorematchingad_forward.h:6:
In file included from /data/gannet/ripley/R/test-clang/Rcpp/include/RcppCommon.h:128:
In file included from /data/gannet/ripley/R/test-clang/Rcpp/include/Rcpp/protection/protection.h:23:
/data/gannet/ripley/R/test-clang/Rcpp/include/Rcpp/protection/Armor.h:38:23: warning: inline function 'Rcpp::Armor<SEXPREC *>::operator=<SEXPREC *>' is not defined [-Wundefined-inline]
   38 |         inline Armor& operator=( const U& x ) ;
      |                       ^
/data/gannet/ripley/R/test-clang/Rcpp/include/Rcpp/r_cast.h:35:21: note: used here
   35 |                 res = Rcpp_fast_eval(call, R_GlobalEnv);
      |                     ^
In file included from tapell.cpp:1:
In file included from ./tapell.h:4:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61:
/data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  273 |       Index count = 0;
      |             ^
8 warnings generated.
In file included from tapell.cpp:1:
In file included from ./tapell.h:4:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35:
/data/gannet/ripley/R/test-clang/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 
      |         ^
/data/gannet/ripley/R/test-clang/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 
      |         ^
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c temp_file.cpp -o temp_file.o
In file included from tapell.cpp:1:
In file included from ./tapell.h:4:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:31:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from tapell.cpp:1:
In file included from ./tapell.h:4:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:37:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
In file included from tapesmd.cpp:1:
In file included from ./tapesmd.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61:
/data/gannet/ripley/R/test-clang/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 tapesmd.cpp:1:
In file included from ./tapesmd.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35:
/data/gannet/ripley/R/test-clang/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 
      |         ^
/data/gannet/ripley/R/test-clang/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 tapesmd.cpp:1:
In file included from ./tapesmd.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:31:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from tapesmd.cpp:1:
In file included from ./tapesmd.h:4:
In file included from ../inst/include/scorematchingad_forward.h:12:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:37:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
5 warnings generated.
5 warnings generated.
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang19/lib -L/usr/local/clang19/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc14/lib64 -L/usr/local/lib64 -o scorematchingad.so RcppExports.o approxwrap.o cppad_interface.o exposemanifold.o tapebdryweight.o tapell.o tapesmd.o temp_file.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/scorematchingad/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/scorematchingad/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/scorematchingad/src'
installing to /data/gannet/ripley/R/packages/tests-clang/scorematchingad.Rcheck/00LOCK-scorematchingad/00new/scorematchingad/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 (scorematchingad)