* installing *source* package ‘nlmixr2est’ ...
** this is package ‘nlmixr2est’ version ‘7.1.0’
** package ‘nlmixr2est’ successfully unpacked and MD5 sums checked
** using staged installation
--------[begin src/Makevars]--------
# -*- mode: makefile-gmake -*-
ARMA=/data/localhost/ripley/R/test-clang/RcppArmadillo/include
BH=/data/localhost/ripley/R/test-clang/BH/include
RCPP=/data/localhost/ripley/R/test-clang/Rcpp/include
RXP=/data/localhost/ripley/R/test-clang/rxode2/include
EG=/data/localhost/ripley/R/test-clang/RcppEigen/include
CXX_STD = CXX17
PKG_LIBS = $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) $(SHLIB_OPENMP_CXXFLAGS)
PKG_CXXFLAGS = -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -I"$(BH)" -I"$(RCPP)" -I"$(ARMA)" -I"$(RXP)" -I"$(EG)" $(SHLIB_OPENMP_CXXFLAGS) -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE
SHLIB_LDFLAGS = $(SHLIB_CXXLDFLAGS)
SHLIB_LD = $(SHLIB_CXXLD)
SOURCES_C = init.c rprintf.c merge3.c lbfgsR.c utilc.c
SOURCES_CPP = uninformativeEtas.cpp nlm.cpp filterNormalLike.cpp inner.cpp odeSwap.cpp imp.cpp npCommon.cpp npag.cpp npb.cpp foceiGrad.cpp shi21.cpp nearPD.cpp censEst.cpp saem.cpp expandNlme.cpp npde.cpp shrink.cpp ires.cpp res.cpp cwres.cpp censResid.cpp cholse.cpp neldermead.cpp resid.cpp slice.cpp RcppExportMod.cpp RcppExports.cpp rxcmp.cpp vaeEncoder.cpp
OBJECTS = $(SOURCES_CPP:.cpp=.o) $(SOURCES_C:.c=.o)
all: $(SHLIB)
$(SHLIB): $(OBJECTS)
# Rebuild every object when any header changes. Without this the objects have
# no header dependencies at all, so editing a shared header leaves stale objects
# linking against the previous signature -- which fails at LOAD time with an
# undefined symbol, or silently keeps running the OLD code, long after a build
# that reported success.
#
# MUST come after `all:` -- the first target in a makefile is the default goal,
# so putting this above it makes the first OBJECT the default and every build
# silently compiles that one file and stops, producing no shared object at all.
#
# -I../inst/include is on the compile line above and sources do include from
# there (nlmixr2est.h, nlmixr2estLikContrib.h, lin_cmt.hpp), so those headers
# need covering too, or the same stale-object failure stays open for exactly
# the headers that cross the package boundary.
HEADERS = armahead.h censEst.h censResid.h cwres.h evaluate.h foceiGrad.h \
imp.h impQrng.h inner.h ires.h likContribUtil.h logSumExp.h \
nearPD.h nmMcmcRng.h nmParallel.h nmParallelCore.h nmSeqSeed.h \
np.h npCommon.h npde.h odeSwap.h res.h rxProtect.h rxomp.h scale.h \
shi21.h shrink.h solveWarnHelper.h truncNorm.h \
trustHessianUpdate.h utilc.h vaeEncoder.h \
../inst/include/lin_cmt.hpp ../inst/include/nlmixr2est.h \
../inst/include/nlmixr2estFoceiPtr.h \
../inst/include/nlmixr2estLikContrib.h \
../inst/include/nlmixr2estLikContribPtr.h \
../inst/include/nlmixr2estNlmPtr.h \
../inst/include/nlmixr2est_RcppExports.h \
../inst/include/nlmixr2est_types.h
$(OBJECTS): $(HEADERS)
--------[end src/Makevars]--------
** libs
specified C++17
using C compiler: ‘clang version 23.1.2’
using C++ compiler: ‘clang version 23.1.2’
using C++17
make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-clang/nlmixr2est/src'
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 uninformativeEtas.cpp -o uninformativeEtas.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 nlm.cpp -o nlm.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 filterNormalLike.cpp -o filterNormalLike.o
In file included from nlm.cpp:6:
./censEst.h:392:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
392 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:351:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
351 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:472:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
472 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:431:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
431 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:590:14: warning: unused variable 'rx_expr_48' [-Wunused-variable]
590 | double rx_expr_48 = erf(rx_expr_44);
| ^~~~~~~~~~
./censEst.h:591:14: warning: unused variable 'rx_expr_49' [-Wunused-variable]
591 | double rx_expr_49 = erf(rx_expr_46);
| ^~~~~~~~~~
./censEst.h:517:12: warning: unused variable 'rx_expr_29' [-Wunused-variable]
517 | double rx_expr_29 = erf(rx_expr_26);
| ^~~~~~~~~~
./censEst.h:518:12: warning: unused variable 'rx_expr_30' [-Wunused-variable]
518 | double rx_expr_30 = erf(rx_expr_28);
| ^~~~~~~~~~
./censEst.h:714:14: warning: unused variable 'rx_expr_34' [-Wunused-variable]
714 | double rx_expr_34 = erf(rx_expr_31);
| ^~~~~~~~~~
./censEst.h:679:12: warning: unused variable 'rx_expr_18' [-Wunused-variable]
679 | double rx_expr_18 = erf(rx_expr_17);
| ^~~~~~~~~~
nlm.cpp:882:12: warning: unused variable 'llik' [-Wunused-variable]
882 | double llik;
| ^~~~
nlm.cpp:396:20: warning: unused function 'nlmIndHasBadSolve' [-Wunused-function]
396 | static inline bool nlmIndHasBadSolve(rx_solving_options *op,
| ^~~~~~~~~~~~~~~~~
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 inner.cpp -o inner.o
12 warnings generated.
In file included from inner.cpp:8:
./censEst.h:392:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
392 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:351:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
351 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:472:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
472 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:431:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
431 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:590:14: warning: unused variable 'rx_expr_48' [-Wunused-variable]
590 | double rx_expr_48 = erf(rx_expr_44);
| ^~~~~~~~~~
./censEst.h:591:14: warning: unused variable 'rx_expr_49' [-Wunused-variable]
591 | double rx_expr_49 = erf(rx_expr_46);
| ^~~~~~~~~~
./censEst.h:517:12: warning: unused variable 'rx_expr_29' [-Wunused-variable]
517 | double rx_expr_29 = erf(rx_expr_26);
| ^~~~~~~~~~
./censEst.h:518:12: warning: unused variable 'rx_expr_30' [-Wunused-variable]
518 | double rx_expr_30 = erf(rx_expr_28);
| ^~~~~~~~~~
./censEst.h:714:14: warning: unused variable 'rx_expr_34' [-Wunused-variable]
714 | double rx_expr_34 = erf(rx_expr_31);
| ^~~~~~~~~~
./censEst.h:679:12: warning: unused variable 'rx_expr_18' [-Wunused-variable]
679 | double rx_expr_18 = erf(rx_expr_17);
| ^~~~~~~~~~
In file included from inner.cpp:49:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/distributions/chi_squared.hpp:18:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/special_functions/gamma.hpp:27:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/constants/constants.hpp:18:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/tools/convert_from_string.hpp:23:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast.hpp:33:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast/try_lexical_convert.hpp:31:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast/detail/converter_lexical.hpp:47:
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>:76:69: note: expanded from here
76 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230102"))), 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>:78:8: note: expanded from here
78 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
In file included from inner.cpp:49:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/distributions/chi_squared.hpp:18:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/special_functions/gamma.hpp:27:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/constants/constants.hpp:18:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/tools/convert_from_string.hpp:23:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast.hpp:33:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast/try_lexical_convert.hpp:31:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast/detail/converter_lexical.hpp:47:
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>:76:110: note: expanded from here
76 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230102"))), 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>:78:8: note: expanded from here
78 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
In file included from inner.cpp:49:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/distributions/chi_squared.hpp:18:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/special_functions/gamma.hpp:27:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/constants/constants.hpp:18:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/tools/convert_from_string.hpp:23:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast.hpp:33:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast/try_lexical_convert.hpp:31:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast/detail/converter_lexical.hpp:47:
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>:76:136: note: expanded from here
76 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230102"))), 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>:78:8: note: expanded from here
78 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
inner.cpp:8139:29: warning: unused variable 'ind' [-Wunused-variable]
8139 | rx_solving_options_ind *ind = getSolvingOptionsInd(rx, i);
| ^~~
inner.cpp:8274:17: warning: variable 'k' set but not used [-Wunused-but-set-variable]
8274 | size_t j = 0, k = 0, ii=0, jj = 0, iA=0, iB=0, iH=0, iVid=0;
| ^
inner.cpp:8274:50: warning: variable 'iH' set but not used [-Wunused-but-set-variable]
8274 | size_t j = 0, k = 0, ii=0, jj = 0, iA=0, iB=0, iH=0, iVid=0;
| ^
inner.cpp:9885:7: warning: unused variable 'finalize' [-Wunused-variable]
9885 | int finalize = 0, i = 0;
| ^~~~~~~~
inner.cpp:9952:7: warning: unused variable 'finalize' [-Wunused-variable]
9952 | int finalize=0, i = 0;
| ^~~~~~~~
inner.cpp:12544:12: warning: unused variable 'k' [-Wunused-variable]
12544 | int j=0, k=0, l=0;
| ^
inner.cpp:12544:17: warning: unused variable 'l' [-Wunused-variable]
12544 | int j=0, k=0, l=0;
| ^
In file included from inner.cpp:21:
In file included from ./nmParallel.h:32:
./nmParallelCore.h:61:15: warning: unused variable '_nmScope' [-Wunused-variable]
61 | Scope _nmScope;
| ^~~~~~~~
./nmParallelCore.h:83:3: note: in instantiation of function template specialization 'nmForEach<nmNoScope, (lambda at inner.cpp:24677:41) &>' requested here
83 | nmForEach<Scope>(n, cores, par, nmDefault, body);
| ^
inner.cpp:24677:7: note: in instantiation of function template specialization 'nmForEach<nmNoScope, (lambda at inner.cpp:24677:41)>' requested here
24677 | nmForEach(zDim, cores, cores > 1, [&](int k) {
| ^
In file included from inner.cpp:21:
In file included from ./nmParallel.h:32:
./nmParallelCore.h:68:15: warning: unused variable '_nmScope' [-Wunused-variable]
68 | Scope _nmScope;
| ^~~~~~~~
./nmParallelCore.h:61:15: warning: unused variable '_nmScope' [-Wunused-variable]
61 | Scope _nmScope;
| ^~~~~~~~
./nmParallelCore.h:83:3: note: in instantiation of function template specialization 'nmForEach<nmNoScope, (lambda at inner.cpp:24929:55) &>' requested here
83 | nmForEach<Scope>(n, cores, par, nmDefault, body);
| ^
inner.cpp:24929:13: note: in instantiation of function template specialization 'nmForEach<nmNoScope, (lambda at inner.cpp:24929:55)>' requested here
24929 | nmForEach(nG, cores, cores > 1 && nG > 1, [&](int gi) {
| ^
In file included from inner.cpp:21:
In file included from ./nmParallel.h:32:
./nmParallelCore.h:68:15: warning: unused variable '_nmScope' [-Wunused-variable]
68 | Scope _nmScope;
| ^~~~~~~~
inner.cpp:21779:20: warning: unused function 'foceiCondEnterThread' [-Wunused-function]
21779 | static inline void foceiCondEnterThread(bool doParallel) {
| ^~~~~~~~~~~~~~~~~~~~
inner.cpp:21786:20: warning: unused function 'foceiCondLeaveThread' [-Wunused-function]
21786 | static inline void foceiCondLeaveThread(bool doParallel) {
| ^~~~~~~~~~~~~~~~~~~~
inner.cpp:19818:12: warning: variable 'gFreezeNsub' set but not used [-Wunused-but-set-global]
19818 | static int gFreezeNsub = 0, gFreezeNpoint = 0, gFreezeNmix = 1;
| ^
inner.cpp:19818:29: warning: variable 'gFreezeNpoint' set but not used [-Wunused-but-set-global]
19818 | static int gFreezeNsub = 0, gFreezeNpoint = 0, gFreezeNmix = 1;
| ^
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 odeSwap.cpp -o odeSwap.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 imp.cpp -o imp.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 npCommon.cpp -o npCommon.o
In file included from imp.cpp:19:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/distributions/chi_squared.hpp:18:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/special_functions/gamma.hpp:27:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/constants/constants.hpp:18:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/tools/convert_from_string.hpp:23:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast.hpp:33:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast/try_lexical_convert.hpp:31:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast/detail/converter_lexical.hpp:47:
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>:173:69: note: expanded from here
173 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230102"))), 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>:175:8: note: expanded from here
175 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
In file included from imp.cpp:19:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/distributions/chi_squared.hpp:18:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/special_functions/gamma.hpp:27:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/constants/constants.hpp:18:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/tools/convert_from_string.hpp:23:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast.hpp:33:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast/try_lexical_convert.hpp:31:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast/detail/converter_lexical.hpp:47:
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>:173:110: note: expanded from here
173 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230102"))), 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>:175:8: note: expanded from here
175 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
In file included from imp.cpp:19:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/distributions/chi_squared.hpp:18:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/special_functions/gamma.hpp:27:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/constants/constants.hpp:18:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/math/tools/convert_from_string.hpp:23:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast.hpp:33:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast/try_lexical_convert.hpp:31:
In file included from /data/localhost/ripley/R/test-clang/BH/include/boost/lexical_cast/detail/converter_lexical.hpp:47:
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>:173:136: note: expanded from here
173 | clang attribute _LibcxxExplicitABIAnnotations.push( __attribute__((__exclude_from_explicit_instantiation__, __visibility__("hidden"), __abi_tag__("nqe230102"))), 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>:175:8: note: expanded from here
175 | clang attribute _LibcxxExplicitABIAnnotations.pop
| ^
imp.cpp:161:22: warning: unused function 'impTScaleU' [-Wunused-function]
161 | static inline double impTScaleU(double u, double df) {
| ^~~~~~~~~~
In file included from npCommon.cpp:8:
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 npCommon.cpp:8:
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 npCommon.cpp:8:
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 npCommon.cpp:8:
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;
| ^
4 warnings generated.
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 npag.cpp -o npag.o
5 warnings generated.
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 npb.cpp -o npb.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 foceiGrad.cpp -o foceiGrad.o
In file included from foceiGrad.cpp:16:
./censEst.h:392:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
392 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:351:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
351 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:472:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
472 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:431:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
431 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:590:14: warning: unused variable 'rx_expr_48' [-Wunused-variable]
590 | double rx_expr_48 = erf(rx_expr_44);
| ^~~~~~~~~~
./censEst.h:591:14: warning: unused variable 'rx_expr_49' [-Wunused-variable]
591 | double rx_expr_49 = erf(rx_expr_46);
| ^~~~~~~~~~
./censEst.h:517:12: warning: unused variable 'rx_expr_29' [-Wunused-variable]
517 | double rx_expr_29 = erf(rx_expr_26);
| ^~~~~~~~~~
./censEst.h:518:12: warning: unused variable 'rx_expr_30' [-Wunused-variable]
518 | double rx_expr_30 = erf(rx_expr_28);
| ^~~~~~~~~~
./censEst.h:714:14: warning: unused variable 'rx_expr_34' [-Wunused-variable]
714 | double rx_expr_34 = erf(rx_expr_31);
| ^~~~~~~~~~
./censEst.h:679:12: warning: unused variable 'rx_expr_18' [-Wunused-variable]
679 | double rx_expr_18 = erf(rx_expr_17);
| ^~~~~~~~~~
foceiGrad.cpp:859:63: warning: misleading indentation; statement is not part of the previous 'for' [-Wmisleading-indentation]
859 | for (int s = 0; s < neta; s++) D(l, s) = C.Tn(l, s, t); return D; };
| ^
foceiGrad.cpp:858:46: note: previous statement is here
858 | auto dHD = [&](int t) { mat D(neta, neta); for (int l = 0; l < neta; l++)
| ^
foceiGrad.cpp:1132:22: warning: misleading indentation; statement is not part of the previous 'for' [-Wmisleading-indentation]
1132 | D(l, m) = v; } return D; };
| ^
foceiGrad.cpp:1130:5: note: previous statement is here
1130 | for (int l = 0; l < neta; l++) for (int m = 0; m < neta; m++) { double v = 0.0;
| ^
foceiGrad.cpp:1140:22: warning: misleading indentation; statement is not part of the previous 'for' [-Wmisleading-indentation]
1140 | D(l, m) = v; } return D; };
| ^
foceiGrad.cpp:1135:5: note: previous statement is here
1135 | for (int l = 0; l < neta; l++) for (int m = 0; m < neta; m++) { double v = 0.0;
| ^
28 warnings generated.
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 shi21.cpp -o shi21.o
In file included from foceiGrad.cpp:14:
./nmParallelCore.h:61:15: warning: unused variable '_nmScope' [-Wunused-variable]
61 | Scope _nmScope;
| ^~~~~~~~
foceiGrad.cpp:419:3: note: in instantiation of function template specialization 'nmForEach<nmNoScope, (lambda at foceiGrad.cpp:419:49)>' requested here
419 | nmForEach(nsub, ncores, ncores > 1, nmStatic, [&](int i) {
| ^
In file included from foceiGrad.cpp:14:
./nmParallelCore.h:68:15: warning: unused variable '_nmScope' [-Wunused-variable]
68 | Scope _nmScope;
| ^~~~~~~~
./nmParallelCore.h:61:15: warning: unused variable '_nmScope' [-Wunused-variable]
61 | Scope _nmScope;
| ^~~~~~~~
foceiGrad.cpp:567:3: note: in instantiation of function template specialization 'nmForEach<nmNoScope, (lambda at foceiGrad.cpp:567:49)>' requested here
567 | nmForEach(nsub, ncores, ncores > 1, nmStatic, [&](int i) {
| ^
In file included from foceiGrad.cpp:14:
./nmParallelCore.h:68:15: warning: unused variable '_nmScope' [-Wunused-variable]
68 | Scope _nmScope;
| ^~~~~~~~
./nmParallelCore.h:61:15: warning: unused variable '_nmScope' [-Wunused-variable]
61 | Scope _nmScope;
| ^~~~~~~~
foceiGrad.cpp:1034:3: note: in instantiation of function template specialization 'nmForEach<nmNoScope, (lambda at foceiGrad.cpp:1034:49)>' requested here
1034 | nmForEach(nsub, ncores, ncores > 1, nmStatic, [&](int i) {
| ^
In file included from foceiGrad.cpp:14:
./nmParallelCore.h:68:15: warning: unused variable '_nmScope' [-Wunused-variable]
68 | Scope _nmScope;
| ^~~~~~~~
./nmParallelCore.h:61:15: warning: unused variable '_nmScope' [-Wunused-variable]
61 | Scope _nmScope;
| ^~~~~~~~
foceiGrad.cpp:1256:3: note: in instantiation of function template specialization 'nmForEach<nmNoScope, (lambda at foceiGrad.cpp:1256:49)>' requested here
1256 | nmForEach(nsub, ncores, ncores > 1, nmStatic, [&](int i) {
| ^
In file included from foceiGrad.cpp:14:
./nmParallelCore.h:68:15: warning: unused variable '_nmScope' [-Wunused-variable]
68 | Scope _nmScope;
| ^~~~~~~~
./nmParallelCore.h:61:15: warning: unused variable '_nmScope' [-Wunused-variable]
61 | Scope _nmScope;
| ^~~~~~~~
foceiGrad.cpp:1527:3: note: in instantiation of function template specialization 'nmForEach<nmNoScope, (lambda at foceiGrad.cpp:1527:49)>' requested here
1527 | nmForEach(nsub, ncores, ncores > 1, nmStatic, [&](int i) {
| ^
In file included from foceiGrad.cpp:14:
./nmParallelCore.h:68:15: warning: unused variable '_nmScope' [-Wunused-variable]
68 | Scope _nmScope;
| ^~~~~~~~
23 warnings generated.
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 nearPD.cpp -o nearPD.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 censEst.cpp -o censEst.o
In file included from censEst.cpp:2:
./censEst.h:392:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
392 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:351:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
351 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:472:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
472 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:431:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
431 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:590:14: warning: unused variable 'rx_expr_48' [-Wunused-variable]
590 | double rx_expr_48 = erf(rx_expr_44);
| ^~~~~~~~~~
./censEst.h:591:14: warning: unused variable 'rx_expr_49' [-Wunused-variable]
591 | double rx_expr_49 = erf(rx_expr_46);
| ^~~~~~~~~~
./censEst.h:517:12: warning: unused variable 'rx_expr_29' [-Wunused-variable]
517 | double rx_expr_29 = erf(rx_expr_26);
| ^~~~~~~~~~
./censEst.h:518:12: warning: unused variable 'rx_expr_30' [-Wunused-variable]
518 | double rx_expr_30 = erf(rx_expr_28);
| ^~~~~~~~~~
./censEst.h:714:14: warning: unused variable 'rx_expr_34' [-Wunused-variable]
714 | double rx_expr_34 = erf(rx_expr_31);
| ^~~~~~~~~~
./censEst.h:679:12: warning: unused variable 'rx_expr_18' [-Wunused-variable]
679 | double rx_expr_18 = erf(rx_expr_17);
| ^~~~~~~~~~
10 warnings generated.
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 saem.cpp -o saem.o
In file included from saem.cpp:14:
./censEst.h:392:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
392 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:351:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
351 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:472:16: warning: unused variable 'rx_expr_31' [-Wunused-variable]
472 | double rx_expr_31 = erf(rx_expr_25);
| ^~~~~~~~~~
./censEst.h:431:14: warning: unused variable 'rx_expr_21' [-Wunused-variable]
431 | double rx_expr_21 = erf(rx_expr_18);
| ^~~~~~~~~~
./censEst.h:590:14: warning: unused variable 'rx_expr_48' [-Wunused-variable]
590 | double rx_expr_48 = erf(rx_expr_44);
| ^~~~~~~~~~
./censEst.h:591:14: warning: unused variable 'rx_expr_49' [-Wunused-variable]
591 | double rx_expr_49 = erf(rx_expr_46);
| ^~~~~~~~~~
./censEst.h:517:12: warning: unused variable 'rx_expr_29' [-Wunused-variable]
517 | double rx_expr_29 = erf(rx_expr_26);
| ^~~~~~~~~~
./censEst.h:518:12: warning: unused variable 'rx_expr_30' [-Wunused-variable]
518 | double rx_expr_30 = erf(rx_expr_28);
| ^~~~~~~~~~
./censEst.h:714:14: warning: unused variable 'rx_expr_34' [-Wunused-variable]
714 | double rx_expr_34 = erf(rx_expr_31);
| ^~~~~~~~~~
./censEst.h:679:12: warning: unused variable 'rx_expr_18' [-Wunused-variable]
679 | double rx_expr_18 = erf(rx_expr_17);
| ^~~~~~~~~~
10 warnings generated.
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 expandNlme.cpp -o expandNlme.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 npde.cpp -o npde.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 shrink.cpp -o shrink.o
In file included from npde.cpp:7:
./nmParallelCore.h:61:15: warning: unused variable '_nmScope' [-Wunused-variable]
61 | Scope _nmScope;
| ^~~~~~~~
./nmParallelCore.h:83:3: note: in instantiation of function template specialization 'nmForEach<nmNoScope, (lambda at npde.cpp:462:42) &>' requested here
83 | nmForEach<Scope>(n, cores, par, nmDefault, body);
| ^
npde.cpp:462:5: note: in instantiation of function template specialization 'nmForEach<nmNoScope, (lambda at npde.cpp:462:42)>' requested here
462 | nmForEach(_nid, _cores, _doParallel, [&](int _curid) {
| ^
In file included from npde.cpp:7:
./nmParallelCore.h:68:15: warning: unused variable '_nmScope' [-Wunused-variable]
68 | Scope _nmScope;
| ^~~~~~~~
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 ires.cpp -o ires.o
2 warnings generated.
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 res.cpp -o res.o
res.cpp:11:7: warning: unused variable 'idSize' [-Wunused-variable]
11 | int idSize = ID.size();
| ^~~~~~
1 warning generated.
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 cwres.cpp -o cwres.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 censResid.cpp -o censResid.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 cholse.cpp -o cholse.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 neldermead.cpp -o neldermead.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 resid.cpp -o resid.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 slice.cpp -o slice.o
slice.cpp:54:12: warning: variable 'uni_slice_calls' set but not used [-Wunused-but-set-global]
54 | static int uni_slice_calls = 0; // Number of calls of the slice sampling function
| ^
slice.cpp:55:12: warning: variable 'uni_slice_evals' set but not used [-Wunused-but-set-global]
55 | static int uni_slice_evals = 0; // Number of density evaluations done in these calls
| ^
2 warnings generated.
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 RcppExportMod.cpp -o RcppExportMod.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 ./../inst/include/nlmixr2est.h:7:
In file included from ./../inst/include/nlmixr2est_RcppExports.h:8:
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 ./../inst/include/nlmixr2est.h:7:
In file included from ./../inst/include/nlmixr2est_RcppExports.h:8:
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 ./../inst/include/nlmixr2est.h:7:
In file included from ./../inst/include/nlmixr2est_RcppExports.h:8:
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 ./../inst/include/nlmixr2est.h:7:
In file included from ./../inst/include/nlmixr2est_RcppExports.h:8:
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;
| ^
5 warnings generated.
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 rxcmp.cpp -o rxcmp.o
/usr/local/clang23/bin/clang++ -std=gnu++17 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -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/RcppArmadillo/include" -I"/data/localhost/ripley/R/test-clang/rxode2/include" -I"/data/localhost/ripley/R/test-clang/RcppEigen/include" -fopenmp -DARMA_64BIT_WORD=1 -DARMA_USE_CURRENT -DARMA_DONT_USE_OPENMP -DEIGEN_DONT_PARALLELIZE -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 vaeEncoder.cpp -o vaeEncoder.o
In file included from vaeEncoder.cpp:20:
./nmParallelCore.h:61:15: warning: unused variable '_nmScope' [-Wunused-variable]
61 | Scope _nmScope;
| ^~~~~~~~
vaeEncoder.cpp:98:3: note: in instantiation of function template specialization 'nmForEach<nmNoScope, (lambda at vaeEncoder.cpp:98:69)>' requested here
98 | nmForEach(N, cores, (cores > 1 && !backward) || parBwd, nmStatic, [&](int i) {
| ^
In file included from vaeEncoder.cpp:20:
./nmParallelCore.h:68:15: warning: unused variable '_nmScope' [-Wunused-variable]
68 | Scope _nmScope;
| ^~~~~~~~
2 warnings generated.
/usr/local/clang23/bin/clang-23 -std=gnu23 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
/usr/local/clang23/bin/clang-23 -std=gnu23 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c rprintf.c -o rprintf.o
/usr/local/clang23/bin/clang-23 -std=gnu23 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c merge3.c -o merge3.o
/usr/local/clang23/bin/clang-23 -std=gnu23 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lbfgsR.c -o lbfgsR.o
/usr/local/clang23/bin/clang-23 -std=gnu23 -I"/data/localhost/ripley/R/R-clang/include" -DNDEBUG -I'/data/localhost/ripley/R/test-clang/BH/include' -I'/data/localhost/ripley/R/test-clang/n1qn1/include' -I'/data/localhost/ripley/R/test-clang/lbfgsb3c/include' -I'/data/localhost/ripley/R/test-clang/lotri/include' -I'/data/localhost/ripley/R/test-clang/Rcpp/include' -I'/data/localhost/ripley/R/test-clang/RcppArmadillo/include' -I'/data/localhost/ripley/R/test-clang/RcppEigen/include' -I'/data/localhost/ripley/R/test-clang/RcppTrust/include' -I'/data/localhost/ripley/R/test-clang/rxode2/include' -isystem /usr/local/clang23/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c utilc.c -o utilc.o
/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 nlmixr2est.so uninformativeEtas.o nlm.o filterNormalLike.o inner.o odeSwap.o imp.o npCommon.o npag.o npb.o foceiGrad.o shi21.o nearPD.o censEst.o saem.o expandNlme.o npde.o shrink.o ires.o res.o cwres.o censResid.o cholse.o neldermead.o resid.o slice.o RcppExportMod.o RcppExports.o rxcmp.o vaeEncoder.o init.o rprintf.o merge3.o lbfgsR.o utilc.o -L/data/localhost/ripley/R/R-clang/lib -lRlapack -L/data/localhost/ripley/R/R-clang/lib -lRblas -lflang_rt.runtime -lm -fopenmp
make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-clang/nlmixr2est/src'
make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-clang/nlmixr2est/src'
make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-clang/nlmixr2est/src'
installing to /data/localhost/ripley/R/packages/tests-clang/nlmixr2est.Rcheck/00LOCK-nlmixr2est/00new/nlmixr2est/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (nlmixr2est)