* installing *source* package ‘TDA’ ...
** this is package ‘TDA’ version ‘1.9.4’
** package ‘TDA’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
specified C++17
expr: syntax error: unexpected argument ‘110003’
using C++ compiler: ‘clang version 23.1.0’
using C++17
make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-clang/TDA/src'
expr: syntax error: unexpected argument ‘110003’
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I. -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -DBOOST_DISABLE_THREADS -DCGAL_EIGEN3_ENABLED -DCGAL_HEADER_ONLY -DCGAL_DO_NOT_USE_BOOST_MP -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -D_LIBCPP_KEEP_TRANSITIVE_INCLUDES_LLVM23 -c RcppExports.cpp -o RcppExports.o
In file included from RcppExports.cpp:4:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61:
/data/localhost/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 /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35:
/data/localhost/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/localhost/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 /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:31:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/data/localhost/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 /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:37:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/data/localhost/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/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I. -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -DBOOST_DISABLE_THREADS -DCGAL_EIGEN3_ENABLED -DCGAL_HEADER_ONLY -DCGAL_DO_NOT_USE_BOOST_MP -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -D_LIBCPP_KEEP_TRANSITIVE_INCLUDES_LLVM23 -c diag.cpp -o diag.o
In file included from diag.cpp:6:
In file included from /data/localhost/ripley/R/test-clang/Rcpp/include/Rcpp.h:27:
In file included from /data/localhost/ripley/R/test-clang/Rcpp/include/RcppCommon.h:29:
/data/localhost/ripley/R/test-clang/Rcpp/include/Rcpp/r/check_r_headers.h:27:13: warning: R.h has been included before any Rcpp headers. This can lead to hard-to-debug errors, and is not necessary. See https://github.com/RcppCore/Rcpp/issues/1410 [-W#pragma-messages]
27 | #pragma message "R.h has been included before any Rcpp headers. This can lead to hard-to-debug errors, and is not necessary. See https://github.com/RcppCore/Rcpp/issues/1410"
| ^
In file included from RcppExports.cpp:4:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:28:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/Dense:3:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/Cholesky:32:
/data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/Cholesky/LLT.h:240:14: warning: unused function template 'llt_rank_update_lower' [-Wunused-template]
240 | static Index llt_rank_update_lower(MatrixType& mat, const VectorType& vec, const typename MatrixType::RealScalar& sigma)
| ^~~~~~~~~~~~~~~~~~~~~
In file included from RcppExports.cpp:4:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:28:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/Dense:7:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/Eigenvalues:39:
/data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:839:13: warning: unused function template 'tridiagonal_qr_step' [-Wunused-template]
839 | static void tridiagonal_qr_step(RealScalar* diag, RealScalar* subdiag, Index start, Index end, Scalar* matrixQ, Index n)
| ^~~~~~~~~~~~~~~~~~~
In file included from RcppExports.cpp:4:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:55:
/data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h:18:13: warning: unused function template 'conservative_sparse_sparse_product_impl' [-Wunused-template]
18 | static void conservative_sparse_sparse_product_impl(const Lhs& lhs, const Rhs& rhs, ResultType& res, bool sortedInsertion = false)
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h:270:13: warning: unused function template 'sparse_sparse_to_dense_product_impl' [-Wunused-template]
270 | static void sparse_sparse_to_dense_product_impl(const Lhs& lhs, const Rhs& rhs, ResultType& res)
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from RcppExports.cpp:4:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:56:
/data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/SparseCore/SparseSparseProductWithPruning.h:20:13: warning: unused function template 'sparse_sparse_product_with_pruning_impl' [-Wunused-template]
20 | static void sparse_sparse_product_with_pruning_impl(const Lhs& lhs, const Rhs& rhs, ResultType& res, const typename ResultType::RealScalar& tolerance)
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from RcppExports.cpp:4:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:27:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/OrderingMethods:66:
/data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/OrderingMethods/Amd.h:35:21: warning: unused function template 'cs_wclear' [-Wunused-template]
35 | static StorageIndex cs_wclear (StorageIndex mark, StorageIndex lemax, StorageIndex *w, StorageIndex n)
| ^~~~~~~~~
In file included from RcppExports.cpp:4:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:27:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/OrderingMethods:67:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/OrderingMethods/Ordering.h:16:
/data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/OrderingMethods/Eigen_Colamd.h:501:18: warning: unused function template 'init_rows_cols' [-Wunused-template]
501 | static IndexType init_rows_cols /* returns true if OK, or false otherwise */
| ^~~~~~~~~~~~~~
/data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/OrderingMethods/Eigen_Colamd.h:717:13: warning: unused function template 'init_scoring' [-Wunused-template]
717 | static void init_scoring
| ^~~~~~~~~~~~
/data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/OrderingMethods/Eigen_Colamd.h:954:18: warning: unused function template 'find_ordering' [-Wunused-template]
954 | static IndexType find_ordering /* return the number of garbage collections */
| ^~~~~~~~~~~~~
/data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/OrderingMethods/Eigen_Colamd.h:1566:13: warning: unused function template 'detect_super_cols' [-Wunused-template]
1566 | static void detect_super_cols
| ^~~~~~~~~~~~~~~~~
/data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/OrderingMethods/Eigen_Colamd.h:1717:18: warning: unused function template 'garbage_collection' [-Wunused-template]
1717 | static IndexType garbage_collection /* returns the new value of pfree */
| ^~~~~~~~~~~~~~~~~~
/data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/OrderingMethods/Eigen_Colamd.h:342:13: warning: unused function template 'compute_ordering' [-Wunused-template]
342 | static bool compute_ordering(IndexType n_row, IndexType n_col, IndexType Alen, IndexType *A, IndexType *p, double knobs[NKnobs], IndexType stats[NStats])
| ^~~~~~~~~~~~~~~~
17 warnings generated.
In file included from diag.cpp:9:
In file included from ./tdautils/ripsL2.h:5:
In file included from ./topology/rips.h:6:
In file included from ./topology/simplex.h:221:
./topology/simplex.hpp:12:1: warning: 'BoundaryIterator' defined as a struct here but previously declared as a class; this is valid, but may result in linker errors under the Microsoft C++ ABI [-Wmismatched-tags]
12 | struct Simplex<V,T>::BoundaryIterator: public boost::iterator_adaptor<BoundaryIterator, // Derived
| ^
./topology/simplex.h:47:9: note: did you mean struct here?
47 | class BoundaryIterator;
| ^~~~~
| struct
In file included from diag.cpp:9:
In file included from ./tdautils/ripsL2.h:5:
./topology/rips.h:173:1: warning: 'ComparePair' defined as a struct here but previously declared as a class; this is valid, but may result in linker errors under the Microsoft C++ ABI [-Wmismatched-tags]
173 | struct Rips<Distances_, Simplex_>::ComparePair
| ^
./topology/rips.h:35:9: note: did you mean struct here?
35 | class ComparePair;
| ^~~~~
| struct
In file included from diag.cpp:9:
In file included from ./tdautils/ripsL2.h:8:
In file included from ./topology/dynamic-persistence.h:7:
/data/localhost/ripley/R/test-clang/BH/include/boost/bind.hpp:36:1: warning: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior. [-W#pragma-messages]
36 | BOOST_PRAGMA_MESSAGE(
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/config/pragma_message.hpp:24:34: note: expanded from macro 'BOOST_PRAGMA_MESSAGE'
24 | # define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x)))
| ^
<scratch space>:19:2: note: expanded from here
19 | message("The practice of declaring the Bind placeholders (_1, _2, ...) " "in the global namespace is deprecated. Please use " "<boost/bind/bind.hpp> + using namespace boost::placeholders, " "or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.")
| ^
In file included from diag.cpp:13:
./tdautils/gridUtils.h:183:13: warning: unused variable 'value' [-Wunused-variable]
183 | double value, value2; // max of value and value 2 is the fcn value.
| ^~~~~
./tdautils/gridUtils.h:183:20: warning: unused variable 'value2' [-Wunused-variable]
183 | double value, value2; // max of value and value 2 is the fcn value.
| ^~~~~~
In file included from diag.cpp:16:
./tdautils/typecastUtils.h:350:12: warning: unused variable 'iFill' [-Wunused-variable]
350 | unsigned iFill = 0;
| ^~~~~
./tdautils/typecastUtils.h:394:12: warning: unused variable 'iFill' [-Wunused-variable]
394 | unsigned iFill = 0;
| ^~~~~
In file included from diag.cpp:19:
In file included from ./tdautils/gudhiUtils.h:10:
In file included from ./gudhi/Simplex_tree.h:15:
In file included from ./gudhi/Simplex_tree/Simplex_tree_siblings.h:16:
In file included from ./boost/container/flat_map.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/allocator_traits.hpp:31:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/container_fwd.hpp:65:
/data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/std_fwd.hpp:29:1: warning: unused attribute '__exclude_from_explicit_instantiation__' in '#pragma clang attribute push' region [-Wpragma-clang-attribute]
29 | BOOST_MOVE_STD_NS_BEG
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:21:34: note: expanded from macro 'BOOST_MOVE_STD_NS_BEG'
21 | #define BOOST_MOVE_STD_NS_BEG _LIBCPP_BEGIN_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:74:39: note: expanded from macro '_LIBCPP_BEGIN_NAMESPACE_STD'
74 | # define _LIBCPP_BEGIN_NAMESPACE_STD _LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD inline namespace _LIBCPP_ABI_NAMESPACE {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:70:40: note: expanded from macro '_LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD'
70 | _LIBCPP_PUSH_EXTENSION_DIAGNOSTICS _LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS namespace _LIBCPP_NAMESPACE_VISIBILITY std {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:51:3: note: expanded from macro '_LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS'
51 | _Pragma(_LIBCPP_TOSTRING(clang attribute _LibcxxExplicitABIAnnotations.push( \
| ^
<scratch space>:3:69: note: expanded from here
3 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230100"))), apply_to = function)
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/std_fwd.hpp:61:1: note: '#pragma clang attribute push' regions ends here
61 | BOOST_MOVE_STD_NS_END
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:22:34: note: expanded from macro 'BOOST_MOVE_STD_NS_END'
22 | #define BOOST_MOVE_STD_NS_END _LIBCPP_END_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:75:39: note: expanded from macro '_LIBCPP_END_NAMESPACE_STD'
75 | # define _LIBCPP_END_NAMESPACE_STD } _LIBCPP_END_UNVERSIONED_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:72:51: note: expanded from macro '_LIBCPP_END_UNVERSIONED_NAMESPACE_STD'
72 | # define _LIBCPP_END_UNVERSIONED_NAMESPACE_STD } _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _LIBCPP_POP_EXTENSION_DIAGNOSTICS
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:57:48: note: expanded from macro '_LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS'
57 | #define _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _Pragma("clang attribute _LibcxxExplicitABIAnnotations.pop")
| ^
<scratch space>:5:8: note: expanded from here
5 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
In file included from diag.cpp:19:
In file included from ./tdautils/gudhiUtils.h:10:
In file included from ./gudhi/Simplex_tree.h:15:
In file included from ./gudhi/Simplex_tree/Simplex_tree_siblings.h:16:
In file included from ./boost/container/flat_map.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/allocator_traits.hpp:31:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/container_fwd.hpp:65:
/data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/std_fwd.hpp:29:1: warning: unused attribute '__visibility__' in '#pragma clang attribute push' region [-Wpragma-clang-attribute]
29 | BOOST_MOVE_STD_NS_BEG
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:21:34: note: expanded from macro 'BOOST_MOVE_STD_NS_BEG'
21 | #define BOOST_MOVE_STD_NS_BEG _LIBCPP_BEGIN_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:74:39: note: expanded from macro '_LIBCPP_BEGIN_NAMESPACE_STD'
74 | # define _LIBCPP_BEGIN_NAMESPACE_STD _LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD inline namespace _LIBCPP_ABI_NAMESPACE {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:70:40: note: expanded from macro '_LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD'
70 | _LIBCPP_PUSH_EXTENSION_DIAGNOSTICS _LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS namespace _LIBCPP_NAMESPACE_VISIBILITY std {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:51:3: note: expanded from macro '_LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS'
51 | _Pragma(_LIBCPP_TOSTRING(clang attribute _LibcxxExplicitABIAnnotations.push( \
| ^
<scratch space>:3:110: note: expanded from here
3 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230100"))), apply_to = function)
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/std_fwd.hpp:61:1: note: '#pragma clang attribute push' regions ends here
61 | BOOST_MOVE_STD_NS_END
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:22:34: note: expanded from macro 'BOOST_MOVE_STD_NS_END'
22 | #define BOOST_MOVE_STD_NS_END _LIBCPP_END_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:75:39: note: expanded from macro '_LIBCPP_END_NAMESPACE_STD'
75 | # define _LIBCPP_END_NAMESPACE_STD } _LIBCPP_END_UNVERSIONED_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:72:51: note: expanded from macro '_LIBCPP_END_UNVERSIONED_NAMESPACE_STD'
72 | # define _LIBCPP_END_UNVERSIONED_NAMESPACE_STD } _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _LIBCPP_POP_EXTENSION_DIAGNOSTICS
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:57:48: note: expanded from macro '_LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS'
57 | #define _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _Pragma("clang attribute _LibcxxExplicitABIAnnotations.pop")
| ^
<scratch space>:5:8: note: expanded from here
5 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
In file included from diag.cpp:19:
In file included from ./tdautils/gudhiUtils.h:10:
In file included from ./gudhi/Simplex_tree.h:15:
In file included from ./gudhi/Simplex_tree/Simplex_tree_siblings.h:16:
In file included from ./boost/container/flat_map.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/allocator_traits.hpp:31:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/container_fwd.hpp:65:
/data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/std_fwd.hpp:29:1: warning: unused attribute '__abi_tag__' in '#pragma clang attribute push' region [-Wpragma-clang-attribute]
29 | BOOST_MOVE_STD_NS_BEG
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:21:34: note: expanded from macro 'BOOST_MOVE_STD_NS_BEG'
21 | #define BOOST_MOVE_STD_NS_BEG _LIBCPP_BEGIN_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:74:39: note: expanded from macro '_LIBCPP_BEGIN_NAMESPACE_STD'
74 | # define _LIBCPP_BEGIN_NAMESPACE_STD _LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD inline namespace _LIBCPP_ABI_NAMESPACE {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:70:40: note: expanded from macro '_LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD'
70 | _LIBCPP_PUSH_EXTENSION_DIAGNOSTICS _LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS namespace _LIBCPP_NAMESPACE_VISIBILITY std {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:51:3: note: expanded from macro '_LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS'
51 | _Pragma(_LIBCPP_TOSTRING(clang attribute _LibcxxExplicitABIAnnotations.push( \
| ^
<scratch space>:3:136: note: expanded from here
3 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230100"))), apply_to = function)
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/std_fwd.hpp:61:1: note: '#pragma clang attribute push' regions ends here
61 | BOOST_MOVE_STD_NS_END
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:22:34: note: expanded from macro 'BOOST_MOVE_STD_NS_END'
22 | #define BOOST_MOVE_STD_NS_END _LIBCPP_END_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:75:39: note: expanded from macro '_LIBCPP_END_NAMESPACE_STD'
75 | # define _LIBCPP_END_NAMESPACE_STD } _LIBCPP_END_UNVERSIONED_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:72:51: note: expanded from macro '_LIBCPP_END_UNVERSIONED_NAMESPACE_STD'
72 | # define _LIBCPP_END_UNVERSIONED_NAMESPACE_STD } _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _LIBCPP_POP_EXTENSION_DIAGNOSTICS
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:57:48: note: expanded from macro '_LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS'
57 | #define _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _Pragma("clang attribute _LibcxxExplicitABIAnnotations.pop")
| ^
<scratch space>:5:8: note: expanded from here
5 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
In file included from diag.cpp:19:
In file included from ./tdautils/gudhiUtils.h:10:
In file included from ./gudhi/Simplex_tree.h:15:
In file included from ./gudhi/Simplex_tree/Simplex_tree_siblings.h:16:
In file included from ./boost/container/flat_map.hpp:29:
In file included from ./boost/container/detail/flat_tree.hpp:29:
In file included from ./boost/container/vector.hpp:32:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/advanced_insert_int.hpp:28:
In file included from ./boost/container/detail/copy_move_algo.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/iterator.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/intrusive/detail/iterator.hpp:25:
/data/localhost/ripley/R/test-clang/BH/include/boost/intrusive/detail/std_fwd.hpp:27:1: warning: unused attribute '__exclude_from_explicit_instantiation__' in '#pragma clang attribute push' region [-Wpragma-clang-attribute]
27 | BOOST_MOVE_STD_NS_BEG
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:21:34: note: expanded from macro 'BOOST_MOVE_STD_NS_BEG'
21 | #define BOOST_MOVE_STD_NS_BEG _LIBCPP_BEGIN_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:74:39: note: expanded from macro '_LIBCPP_BEGIN_NAMESPACE_STD'
74 | # define _LIBCPP_BEGIN_NAMESPACE_STD _LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD inline namespace _LIBCPP_ABI_NAMESPACE {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:70:40: note: expanded from macro '_LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD'
70 | _LIBCPP_PUSH_EXTENSION_DIAGNOSTICS _LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS namespace _LIBCPP_NAMESPACE_VISIBILITY std {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:51:3: note: expanded from macro '_LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS'
51 | _Pragma(_LIBCPP_TOSTRING(clang attribute _LibcxxExplicitABIAnnotations.push( \
| ^
<scratch space>:12:69: note: expanded from here
12 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230100"))), apply_to = function)
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/intrusive/detail/std_fwd.hpp:40:1: note: '#pragma clang attribute push' regions ends here
40 | BOOST_MOVE_STD_NS_END
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:22:34: note: expanded from macro 'BOOST_MOVE_STD_NS_END'
22 | #define BOOST_MOVE_STD_NS_END _LIBCPP_END_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:75:39: note: expanded from macro '_LIBCPP_END_NAMESPACE_STD'
75 | # define _LIBCPP_END_NAMESPACE_STD } _LIBCPP_END_UNVERSIONED_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:72:51: note: expanded from macro '_LIBCPP_END_UNVERSIONED_NAMESPACE_STD'
72 | # define _LIBCPP_END_UNVERSIONED_NAMESPACE_STD } _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _LIBCPP_POP_EXTENSION_DIAGNOSTICS
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:57:48: note: expanded from macro '_LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS'
57 | #define _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _Pragma("clang attribute _LibcxxExplicitABIAnnotations.pop")
| ^
<scratch space>:14:8: note: expanded from here
14 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
In file included from diag.cpp:19:
In file included from ./tdautils/gudhiUtils.h:10:
In file included from ./gudhi/Simplex_tree.h:15:
In file included from ./gudhi/Simplex_tree/Simplex_tree_siblings.h:16:
In file included from ./boost/container/flat_map.hpp:29:
In file included from ./boost/container/detail/flat_tree.hpp:29:
In file included from ./boost/container/vector.hpp:32:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/advanced_insert_int.hpp:28:
In file included from ./boost/container/detail/copy_move_algo.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/iterator.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/intrusive/detail/iterator.hpp:25:
/data/localhost/ripley/R/test-clang/BH/include/boost/intrusive/detail/std_fwd.hpp:27:1: warning: unused attribute '__visibility__' in '#pragma clang attribute push' region [-Wpragma-clang-attribute]
27 | BOOST_MOVE_STD_NS_BEG
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:21:34: note: expanded from macro 'BOOST_MOVE_STD_NS_BEG'
21 | #define BOOST_MOVE_STD_NS_BEG _LIBCPP_BEGIN_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:74:39: note: expanded from macro '_LIBCPP_BEGIN_NAMESPACE_STD'
74 | # define _LIBCPP_BEGIN_NAMESPACE_STD _LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD inline namespace _LIBCPP_ABI_NAMESPACE {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:70:40: note: expanded from macro '_LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD'
70 | _LIBCPP_PUSH_EXTENSION_DIAGNOSTICS _LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS namespace _LIBCPP_NAMESPACE_VISIBILITY std {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:51:3: note: expanded from macro '_LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS'
51 | _Pragma(_LIBCPP_TOSTRING(clang attribute _LibcxxExplicitABIAnnotations.push( \
| ^
<scratch space>:12:110: note: expanded from here
12 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230100"))), apply_to = function)
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/intrusive/detail/std_fwd.hpp:40:1: note: '#pragma clang attribute push' regions ends here
40 | BOOST_MOVE_STD_NS_END
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:22:34: note: expanded from macro 'BOOST_MOVE_STD_NS_END'
22 | #define BOOST_MOVE_STD_NS_END _LIBCPP_END_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:75:39: note: expanded from macro '_LIBCPP_END_NAMESPACE_STD'
75 | # define _LIBCPP_END_NAMESPACE_STD } _LIBCPP_END_UNVERSIONED_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:72:51: note: expanded from macro '_LIBCPP_END_UNVERSIONED_NAMESPACE_STD'
72 | # define _LIBCPP_END_UNVERSIONED_NAMESPACE_STD } _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _LIBCPP_POP_EXTENSION_DIAGNOSTICS
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:57:48: note: expanded from macro '_LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS'
57 | #define _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _Pragma("clang attribute _LibcxxExplicitABIAnnotations.pop")
| ^
<scratch space>:14:8: note: expanded from here
14 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
In file included from diag.cpp:19:
In file included from ./tdautils/gudhiUtils.h:10:
In file included from ./gudhi/Simplex_tree.h:15:
In file included from ./gudhi/Simplex_tree/Simplex_tree_siblings.h:16:
In file included from ./boost/container/flat_map.hpp:29:
In file included from ./boost/container/detail/flat_tree.hpp:29:
In file included from ./boost/container/vector.hpp:32:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/advanced_insert_int.hpp:28:
In file included from ./boost/container/detail/copy_move_algo.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/iterator.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/intrusive/detail/iterator.hpp:25:
/data/localhost/ripley/R/test-clang/BH/include/boost/intrusive/detail/std_fwd.hpp:27:1: warning: unused attribute '__abi_tag__' in '#pragma clang attribute push' region [-Wpragma-clang-attribute]
27 | BOOST_MOVE_STD_NS_BEG
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:21:34: note: expanded from macro 'BOOST_MOVE_STD_NS_BEG'
21 | #define BOOST_MOVE_STD_NS_BEG _LIBCPP_BEGIN_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:74:39: note: expanded from macro '_LIBCPP_BEGIN_NAMESPACE_STD'
74 | # define _LIBCPP_BEGIN_NAMESPACE_STD _LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD inline namespace _LIBCPP_ABI_NAMESPACE {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:70:40: note: expanded from macro '_LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD'
70 | _LIBCPP_PUSH_EXTENSION_DIAGNOSTICS _LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS namespace _LIBCPP_NAMESPACE_VISIBILITY std {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:51:3: note: expanded from macro '_LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS'
51 | _Pragma(_LIBCPP_TOSTRING(clang attribute _LibcxxExplicitABIAnnotations.push( \
| ^
<scratch space>:12:136: note: expanded from here
12 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230100"))), apply_to = function)
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/intrusive/detail/std_fwd.hpp:40:1: note: '#pragma clang attribute push' regions ends here
40 | BOOST_MOVE_STD_NS_END
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:22:34: note: expanded from macro 'BOOST_MOVE_STD_NS_END'
22 | #define BOOST_MOVE_STD_NS_END _LIBCPP_END_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:75:39: note: expanded from macro '_LIBCPP_END_NAMESPACE_STD'
75 | # define _LIBCPP_END_NAMESPACE_STD } _LIBCPP_END_UNVERSIONED_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:72:51: note: expanded from macro '_LIBCPP_END_UNVERSIONED_NAMESPACE_STD'
72 | # define _LIBCPP_END_UNVERSIONED_NAMESPACE_STD } _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _LIBCPP_POP_EXTENSION_DIAGNOSTICS
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:57:48: note: expanded from macro '_LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS'
57 | #define _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _Pragma("clang attribute _LibcxxExplicitABIAnnotations.pop")
| ^
<scratch space>:14:8: note: expanded from here
14 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
In file included from diag.cpp:19:
In file included from ./tdautils/gudhiUtils.h:10:
In file included from ./gudhi/Simplex_tree.h:15:
In file included from ./gudhi/Simplex_tree/Simplex_tree_siblings.h:16:
In file included from ./boost/container/flat_map.hpp:29:
In file included from ./boost/container/detail/flat_tree.hpp:29:
In file included from ./boost/container/vector.hpp:32:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/advanced_insert_int.hpp:28:
In file included from ./boost/container/detail/copy_move_algo.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/iterator.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/intrusive/detail/iterator.hpp:27:
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/iterator_traits.hpp:63:1: warning: unused attribute '__exclude_from_explicit_instantiation__' in '#pragma clang attribute push' region [-Wpragma-clang-attribute]
63 | BOOST_MOVE_STD_NS_BEG
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:21:34: note: expanded from macro 'BOOST_MOVE_STD_NS_BEG'
21 | #define BOOST_MOVE_STD_NS_BEG _LIBCPP_BEGIN_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:74:39: note: expanded from macro '_LIBCPP_BEGIN_NAMESPACE_STD'
74 | # define _LIBCPP_BEGIN_NAMESPACE_STD _LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD inline namespace _LIBCPP_ABI_NAMESPACE {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:70:40: note: expanded from macro '_LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD'
70 | _LIBCPP_PUSH_EXTENSION_DIAGNOSTICS _LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS namespace _LIBCPP_NAMESPACE_VISIBILITY std {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:51:3: note: expanded from macro '_LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS'
51 | _Pragma(_LIBCPP_TOSTRING(clang attribute _LibcxxExplicitABIAnnotations.push( \
| ^
<scratch space>:21:69: note: expanded from here
21 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230100"))), apply_to = function)
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/iterator_traits.hpp:81:1: note: '#pragma clang attribute push' regions ends here
81 | BOOST_MOVE_STD_NS_END
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:22:34: note: expanded from macro 'BOOST_MOVE_STD_NS_END'
22 | #define BOOST_MOVE_STD_NS_END _LIBCPP_END_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:75:39: note: expanded from macro '_LIBCPP_END_NAMESPACE_STD'
75 | # define _LIBCPP_END_NAMESPACE_STD } _LIBCPP_END_UNVERSIONED_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:72:51: note: expanded from macro '_LIBCPP_END_UNVERSIONED_NAMESPACE_STD'
72 | # define _LIBCPP_END_UNVERSIONED_NAMESPACE_STD } _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _LIBCPP_POP_EXTENSION_DIAGNOSTICS
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:57:48: note: expanded from macro '_LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS'
57 | #define _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _Pragma("clang attribute _LibcxxExplicitABIAnnotations.pop")
| ^
<scratch space>:23:8: note: expanded from here
23 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
In file included from diag.cpp:19:
In file included from ./tdautils/gudhiUtils.h:10:
In file included from ./gudhi/Simplex_tree.h:15:
In file included from ./gudhi/Simplex_tree/Simplex_tree_siblings.h:16:
In file included from ./boost/container/flat_map.hpp:29:
In file included from ./boost/container/detail/flat_tree.hpp:29:
In file included from ./boost/container/vector.hpp:32:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/advanced_insert_int.hpp:28:
In file included from ./boost/container/detail/copy_move_algo.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/iterator.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/intrusive/detail/iterator.hpp:27:
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/iterator_traits.hpp:63:1: warning: unused attribute '__visibility__' in '#pragma clang attribute push' region [-Wpragma-clang-attribute]
63 | BOOST_MOVE_STD_NS_BEG
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:21:34: note: expanded from macro 'BOOST_MOVE_STD_NS_BEG'
21 | #define BOOST_MOVE_STD_NS_BEG _LIBCPP_BEGIN_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:74:39: note: expanded from macro '_LIBCPP_BEGIN_NAMESPACE_STD'
74 | # define _LIBCPP_BEGIN_NAMESPACE_STD _LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD inline namespace _LIBCPP_ABI_NAMESPACE {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:70:40: note: expanded from macro '_LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD'
70 | _LIBCPP_PUSH_EXTENSION_DIAGNOSTICS _LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS namespace _LIBCPP_NAMESPACE_VISIBILITY std {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:51:3: note: expanded from macro '_LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS'
51 | _Pragma(_LIBCPP_TOSTRING(clang attribute _LibcxxExplicitABIAnnotations.push( \
| ^
<scratch space>:21:110: note: expanded from here
21 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230100"))), apply_to = function)
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/iterator_traits.hpp:81:1: note: '#pragma clang attribute push' regions ends here
81 | BOOST_MOVE_STD_NS_END
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:22:34: note: expanded from macro 'BOOST_MOVE_STD_NS_END'
22 | #define BOOST_MOVE_STD_NS_END _LIBCPP_END_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:75:39: note: expanded from macro '_LIBCPP_END_NAMESPACE_STD'
75 | # define _LIBCPP_END_NAMESPACE_STD } _LIBCPP_END_UNVERSIONED_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:72:51: note: expanded from macro '_LIBCPP_END_UNVERSIONED_NAMESPACE_STD'
72 | # define _LIBCPP_END_UNVERSIONED_NAMESPACE_STD } _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _LIBCPP_POP_EXTENSION_DIAGNOSTICS
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:57:48: note: expanded from macro '_LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS'
57 | #define _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _Pragma("clang attribute _LibcxxExplicitABIAnnotations.pop")
| ^
<scratch space>:23:8: note: expanded from here
23 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
In file included from diag.cpp:19:
In file included from ./tdautils/gudhiUtils.h:10:
In file included from ./gudhi/Simplex_tree.h:15:
In file included from ./gudhi/Simplex_tree/Simplex_tree_siblings.h:16:
In file included from ./boost/container/flat_map.hpp:29:
In file included from ./boost/container/detail/flat_tree.hpp:29:
In file included from ./boost/container/vector.hpp:32:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/advanced_insert_int.hpp:28:
In file included from ./boost/container/detail/copy_move_algo.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/container/detail/iterator.hpp:24:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/intrusive/detail/iterator.hpp:27:
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/iterator_traits.hpp:63:1: warning: unused attribute '__abi_tag__' in '#pragma clang attribute push' region [-Wpragma-clang-attribute]
63 | BOOST_MOVE_STD_NS_BEG
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:21:34: note: expanded from macro 'BOOST_MOVE_STD_NS_BEG'
21 | #define BOOST_MOVE_STD_NS_BEG _LIBCPP_BEGIN_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:74:39: note: expanded from macro '_LIBCPP_BEGIN_NAMESPACE_STD'
74 | # define _LIBCPP_BEGIN_NAMESPACE_STD _LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD inline namespace _LIBCPP_ABI_NAMESPACE {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:70:40: note: expanded from macro '_LIBCPP_BEGIN_UNVERSIONED_NAMESPACE_STD'
70 | _LIBCPP_PUSH_EXTENSION_DIAGNOSTICS _LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS namespace _LIBCPP_NAMESPACE_VISIBILITY std {
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:51:3: note: expanded from macro '_LIBCPP_END_EXPLICIT_ABI_ANNOTATIONS'
51 | _Pragma(_LIBCPP_TOSTRING(clang attribute _LibcxxExplicitABIAnnotations.push( \
| ^
<scratch space>:21:136: note: expanded from here
21 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230100"))), apply_to = function)
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/iterator_traits.hpp:81:1: note: '#pragma clang attribute push' regions ends here
81 | BOOST_MOVE_STD_NS_END
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/move/detail/std_ns_begin.hpp:22:34: note: expanded from macro 'BOOST_MOVE_STD_NS_END'
22 | #define BOOST_MOVE_STD_NS_END _LIBCPP_END_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:75:39: note: expanded from macro '_LIBCPP_END_NAMESPACE_STD'
75 | # define _LIBCPP_END_NAMESPACE_STD } _LIBCPP_END_UNVERSIONED_NAMESPACE_STD
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:72:51: note: expanded from macro '_LIBCPP_END_UNVERSIONED_NAMESPACE_STD'
72 | # define _LIBCPP_END_UNVERSIONED_NAMESPACE_STD } _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _LIBCPP_POP_EXTENSION_DIAGNOSTICS
| ^
/usr/local/clang23/bin/../include/c++/v1/__configuration/namespace.h:57:48: note: expanded from macro '_LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS'
57 | #define _LIBCPP_BEGIN_EXPLICIT_ABI_ANNOTATIONS _Pragma("clang attribute _LibcxxExplicitABIAnnotations.pop")
| ^
<scratch space>:23:8: note: expanded from here
23 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
In file included from diag.cpp:19:
In file included from ./tdautils/gudhiUtils.h:13:
In file included from ./gudhi/Alpha_complex.h:26:
In file included from ./CGAL/Delaunay_triangulation.h:15:
In file included from ./CGAL/license/Triangulation.h:17:
./CGAL/config.h:124:9: warning: 'BOOST_PARAMETER_MAX_ARITY' macro redefined [-Wmacro-redefined]
124 | #define BOOST_PARAMETER_MAX_ARITY 12
| ^
/data/localhost/ripley/R/test-clang/BH/include/boost/parameter/config.hpp:61:9: note: previous definition is here
61 | #define BOOST_PARAMETER_MAX_ARITY BOOST_MPL_LIMIT_VECTOR_SIZE
| ^
In file included from diag.cpp:19:
In file included from ./tdautils/gudhiUtils.h:17:
In file included from ./tdautils/cgalUtils.h:1:
In file included from ./CGAL/Exact_predicates_inexact_constructions_kernel.h:20:
In file included from ./CGAL/Simple_cartesian.h:20:
In file included from ./CGAL/Cartesian/Cartesian_base.h:62:
In file included from ./CGAL/Cartesian/function_objects.h:20:
In file included from ./CGAL/Kernel/function_objects.h:29:
In file included from ./CGAL/intersection_3.h:31:
In file included from ./CGAL/Intersections_3/Bbox_3_Tetrahedron_3.h:20:
In file included from ./CGAL/Intersections_3/internal/Tetrahedron_3_Bounded_3_do_intersect.h:20:
In file included from ./CGAL/Intersections_3/Triangle_3_Triangle_3.h:19:
./CGAL/Intersections_3/internal/Triangle_3_Triangle_3_intersection.h:52:7: warning: variable 'pt_added' set but not used [-Wunused-but-set-variable]
52 | int pt_added=0;
| ^
In file included from diag.cpp:19:
./tdautils/gudhiUtils.h:241:28: warning: variable 'count_vertices' set but not used [-Wunused-but-set-variable]
241 | Alpha_shape_3::size_type count_vertices = 0;
| ^
./tdautils/gudhiUtils.h:242:28: warning: variable 'count_edges' set but not used [-Wunused-but-set-variable]
242 | Alpha_shape_3::size_type count_edges = 0;
| ^
./tdautils/gudhiUtils.h:243:28: warning: variable 'count_facets' set but not used [-Wunused-but-set-variable]
243 | Alpha_shape_3::size_type count_facets = 0;
| ^
./tdautils/gudhiUtils.h:244:28: warning: variable 'count_cells' set but not used [-Wunused-but-set-variable]
244 | Alpha_shape_3::size_type count_cells = 0;
| ^
In file included from diag.cpp:34:
./kde.h:21:16: warning: unused variable 'pi' [-Wunused-variable]
21 | const double pi = 3.141592653589793;
| ^~
In file included from diag.cpp:19:
In file included from ./tdautils/gudhiUtils.h:10:
In file included from ./gudhi/Simplex_tree.h:15:
In file included from ./gudhi/Simplex_tree/Simplex_tree_siblings.h:16:
In file included from ./boost/container/flat_map.hpp:29:
In file included from ./boost/container/detail/flat_tree.hpp:29:
In file included from ./boost/container/vector.hpp:61:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/move/algo/adaptive_merge.hpp:16:
/data/localhost/ripley/R/test-clang/BH/include/boost/move/algo/detail/adaptive_sort_merge.hpp:261:17: warning: unused function template 'needed_keys_count' [-Wunused-template]
261 | static SizeType needed_keys_count(SizeType n_block_a, SizeType n_block_b)
| ^~~~~~~~~~~~~~~~~
In file included from diag.cpp:19:
In file included from ./tdautils/gudhiUtils.h:13:
In file included from ./gudhi/Alpha_complex.h:28:
In file included from ./CGAL/Epeck_d.h:17:
In file included from ./CGAL/NewKernel_d/Cartesian_base.h:17:
In file included from ./CGAL/NewKernel_d/Cartesian_LA_base.h:29:
In file included from ./CGAL/NewKernel_d/LA_eigen/LA.h:21:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/Dense:3:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/Cholesky:32:
/data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/Cholesky/LLT.h:240:14: warning: unused function template 'llt_rank_update_lower' [-Wunused-template]
240 | static Index llt_rank_update_lower(MatrixType& mat, const VectorType& vec, const typename MatrixType::RealScalar& sigma)
| ^~~~~~~~~~~~~~~~~~~~~
In file included from diag.cpp:19:
In file included from ./tdautils/gudhiUtils.h:13:
In file included from ./gudhi/Alpha_complex.h:28:
In file included from ./CGAL/Epeck_d.h:17:
In file included from ./CGAL/NewKernel_d/Cartesian_base.h:17:
In file included from ./CGAL/NewKernel_d/Cartesian_LA_base.h:29:
In file included from ./CGAL/NewKernel_d/LA_eigen/LA.h:21:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/Dense:7:
In file included from /data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/Eigenvalues:39:
/data/localhost/ripley/R/test-clang/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:839:13: warning: unused function template 'tridiagonal_qr_step' [-Wunused-template]
839 | static void tridiagonal_qr_step(RealScalar* diag, RealScalar* subdiag, Index start, Index end, Scalar* matrixQ, Index n)
| ^~~~~~~~~~~~~~~~~~~
In file included from diag.cpp:9:
In file included from ./tdautils/ripsL2.h:8:
In file included from ./topology/dynamic-persistence.h:332:
./topology/dynamic-persistence.hpp:60:73: warning: unused typedef 'TrailIterator' [-Wunused-local-typedef]
60 | typedef typename Element::Trail::iterator TrailIterator;
| ^
In file included from diag.cpp:30:
./alphaComplex.h:45:9: warning: unused type alias 'Point' [-Wunused-local-typedef]
45 | using Point = Kernel::Point_d;
| ^
29 warnings generated.
/usr/local/clang23/bin/clang++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang23/lib -L/usr/local/clang23/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o TDA.so RcppExports.o diag.o -lgmp
make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-clang/TDA/src'
make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-clang/TDA/src'
expr: syntax error: unexpected argument ‘110003’
make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-clang/TDA/src'
installing to /data/localhost/ripley/R/packages/tests-clang/TDA.Rcheck/00LOCK-TDA/00new/TDA/libs
** R
** 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 (TDA)